CC ********************************************************************
CC                                                                    *
CC   REPBASE UPDATE                                                   *
CC   (C) 1997-2004  Genetic Information Research Institute            *
CC   All rights reserved                                              *
CC                                                                    *
CC   A REFERENCE COLLECTION OF CHLAMYDOMONAS REINHARDTII              *
CC   REPETITIVE ELEMENTS                                              *
CC   RELEASE 1.0.2; MARCH 2004                                        *
CC                                                                    *
CC ********************************************************************
XX
ID   CRTOC1    repbase; DNA; PLN; 5662 BP.
CC   CRTOC1 DNA
XX
AC   X56231;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   C. reinhardtii transposon.
XX
KW   Transposon.
XX
OS   Chlamydomonas reinhardtii
CC   green algae
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-5662
RC   [1]  (bases 1 to 5662)
RA   Day A.;
RT   "Direct Submission";
RL   Submitted (06-DEC-1990) Day A., Genetics Laboratory, Biochemistry
RL   Department, University of Oxford, South Parks Road, Oxford OX1 3QU,
RL   UK.
XX
RN   [2]
RP   1-5662
RC   [2]  (bases 1 to 5662)
RA   Day A., Rochaix J.D.;
RT   "A transposon with an unusual LTR arrangement from Chlamydomonas
RT   reinhardtii contains an internal tandem array of 76 bp repeats";
RL   Nucleic Acids Res. 19, 1259-1266 (1991)
XX
DR   GENBANK; X56231; 81.0.
CC   Positions       1    5662  Accession No X56231        GenBank (rel. 81.0)
XX
SQ   Sequence 5662 BP; 1015 A; 1685 C; 1655 G; 1307 T; 0 other;
     gcgctgactt atcgcagcgc agtggagata agtctagtta ttgcgacgta actgccgtgt        60
     tgcgttagag tcacgcacgg cgcaggacgc tcgggtacgt gcctgtgcat ggggccgaac       120
     cgagctgggt cttgtacgcg tcaggagcac acggcgcctt atctgccgtt gtgcttctgt       180
     actgtatttc ggatcgtccc tctgccggga cggtgacctc agtgtgtcgc acttaaacgt       240
     tccctacatt tctggacttt ctttgcaatc ctatacctgg ttctaactat acttgaccat       300
     gtatggaccg aataagcgtt taatatatac tcagacggag ttgcagcgtt ttgttgcgcg       360
     atcctgctca atggaacccc ttagcttgat cacgctcgct ctctgatcgt aagggaatgc       420
     ccttcgaagc ttctctggcg ctttgaacca cgctttggtt cgggggccgc attcgggagc       480
     aaatcggagc agagcggagc tttcaagcgg agcaaaggcg cgcgaagcgt tgcggacaag       540
     gcgttcggca agtcactgaa agcaaaaggg catgcacagc tgtgcgggcg ggctacttgc       600
     ttgccatgcg cggtcctgct tgccgtgcct tcgtgtctac ccgtcgcttt acagttcaca       660
     gctttgtgca atacctttcc acatcttcca ttgtgccacc cccacctccc caagaccctc       720
     aggacttttg gcgcggtact tctcctgtct gcctatccag gccgcagggc ccgcgtgccc       780
     ttggggaagg ggcgtgtgtg ccgttgggat ccggcctgtg cgccgcaagc aacgggcttt       840
     gcgcccttgc cttatggaca atggacggca tacgtgccct tatgatacgg cctgtgtgcc       900
     gcaagcaatg ggctccgcgc ccttgcttta tggacaatgg acggcatacg tgcccttatg       960
     atacggcctg tgcgccgcaa gcaacgggct ccgcgccctt gctttatgga caatggacgg      1020
     catacgtgcc cttatgatac ggcctgtgtg ccgcaagcaa cgggctccgc gcccttgctt      1080
     tatggacaat ggacggcata cgtgccccta tgatacggcc tgtgcgccgc tagcaacggg      1140
     ctccgcgccc ttgctttatg gacaatggac ggcatacgtg cccttatgat acggcctgtg      1200
     cgccgcaagc aatgggctcc gtgcccttgc tttatggaca atggacggca tacgtgcccc      1260
     tatgatacgg cctgtgcgcc gcaagcaacg ggctccgcgc cctggcttca tggacaattt      1320
     acggcgtacg tgccctcatg atacagcctg tgcgccgcag gcaacgggct ccgcgccctt      1380
     gctccatgga cacttcacgg cgtacgtgcc ctcatgatac ggcctgtgtg ccgcaggcaa      1440
     cgggctccgc gcccttgctt catggacaat gcgccgcgta cgtgttctta tgatacggcc      1500
     tgtgcgccgc aagcaacggg ctccgcaccc ttgttttatg gacaattcac ggcatacgtg      1560
     cccgtatgat gtgacctgtg tgccgcaagc aacggcttcg cacccttgct tttgggtaat      1620
     agatggcata cgtgccctta tgatacgacc tgtgtgccgc aagcaacggg ctccacactc      1680
     ttgcgttgtg gattatagac ggcattgaaa tgcttacgtg ccttcgttgt acatgccttt      1740
     gcgttgtgga caatgtgtgg tctgagcgcc acgttcggat acggcgtgtg tgccgccagc      1800
     aacaggcttt gcgcctcgca tcatgtgtct tgcgatatgg cctgtgtgcc gcatgcaatt      1860
     atgctgcctg ccctgtcgtt atggacgctt cgacttgttg cgtgccctgc tgcgtgccct      1920
     gtcgcaatac gccttgagtg taccgtgcac ggcaagcctg cgcctcgcta ttgcttcgtg      1980
     ttgacaacgg agcgggctta cgtgatcatg cgtcaccctg tacgtcttga ggtccgcacg      2040
     cacatcatac tatcacgcgg caccaccctt gtagtttggc tgacgcaccc caagccaacc      2100
     tatatgcatt cgatgtgtgc actaggccca agtgccgaat ttgtttttcc ggatatttcg      2160
     ccctcagtga gcgatgtgga gttttgtgca gttcggccag catgctatgc ccagccaata      2220
     acaataccgc atgacgcata actataccgc atgacgcata aacatgcctt cgtgccctgc      2280
     accaggcatc ggacgctgtg tcacgcagtg agcccgaccc tgcgcaacca acattttgtt      2340
     gcgagatacg gtcggagctg ggattacagc ctgcctggtg ggtttggatg gcgcccgtgt      2400
     gttgggctgg gctgttgctg ctcgcggtgg ggcccaccac caagtcacgg cacccatccg      2460
     ccctcccctc ttgttggccc acccgcctgt acacatgcca gtcacccgct cgccatcctg      2520
     tgaaagcggg tagccgactt ggcaagcgct tttcctgaca cttggcgcag gtttgagtgg      2580
     gataccagaa tggtctgaat gtagttgttg gataaccagt acactgcggt gtgtagctgg      2640
     ttagcgggag tgccgtgcat gaaacacgct actcgacccg ccatgcccgc gcgatggtac      2700
     caccaaccgt tcaacccaga tccatgccgg ggtagcatcg accccacagt cagactgata      2760
     gctcctatcc aggtgtcagg cgccatgtat gtatctgtgg acgcgtcaag ctggcttgtg      2820
     ccgtagcgtt ggccgcctgt atggcacggc atctgtgtca cgttatggcc tcatgcttac      2880
     cgtagtcacg cggcttgcgt gctgtgcggc acgctccctg ccaatccttc aggacatgta      2940
     tgcatacatg ttacttcgtc agagccatag caggggcagc gtgttctgtc aatgcctcat      3000
     gaacccagag acccaagcca acgtacgcat tagttccgca acgcacgtca atgccaactg      3060
     tatgtgtcgc ctgcccactc gcgagtggac gcctagggaa ccaaccttgg ttcctttcag      3120
     ccccggcctt acttcacccg gcggggcaat tacttatcac cgaagtgcta ggagcagtgt      3180
     gctatatgtc attactatta agagcgtatg gcgacacagg ctcacatgtg ggtagccagg      3240
     cttggcaggc atcccaactc agcccggcct cctcacagca gtaccacgac gtgcccgtac      3300
     gtggtcgagt gcggagtttg gctgccggcg tggctgtatc atctctcaca ttggatgacc      3360
     catccgccac tgctgttcac tactggcacg tccctcgagt cgctcaccca ccggctccgc      3420
     ccagcgttcg ctccctttgg ctgggccggg gcccgtggcg catccaaccc gccatcgcgg      3480
     ccccgagtgc tccttatttc ctcccatcac tacgccttct atcactatag atacattgcg      3540
     cgttccacgc gtgccgggta tccttcaccc ctccgcgccg ctcgaccagg ccagccttgc      3600
     tggggttgct gaggtgttac ccttcatgtt gccctccctg ctattacggt acaccccaca      3660
     gctgccgtgg cgtccggtat cggcacgtac gggacattgt gtgcatgcat ccccgcggcg      3720
     tttggaggca aacattcacg tgcgcgcctg tcctgcgtcc gccggggtga tgctatctat      3780
     gggtgtacct actgcttgat tggtagtgac tcttatgcaa gacactgcaa atctcaagca      3840
     tggcacctag ctagcaagaa agaaattagt gttcgtggcc atgctgcacg gctgggcatg      3900
     gctgcccgca tcctacacca cgacggcgcg ggtgaacgaa gggcaggttg ccgcgcgtga      3960
     ctcgcgtacg taaaaccgct ctagtgttgc aactcgcgcc ttctcctgcg tggcgcatgt      4020
     tggctagcct gtcccagctt cgagtcacga cgttgttatt attcccaagg ttgttccgag      4080
     cagcctacaa cgtcaacacg tgttatggca tggccctggg ggccggtaga gagtaccgag      4140
     gtctccagtg gttcgtgcca acacgtgcca acacgcactg ttacctttcc tgggcacacg      4200
     gacggccaca gctgcccaca agccacacac ctgaacaagg atgcatgtgt ttccctgtaa      4260
     cgccccggcg tcgtctgcat ggctggcgca cgcgggataa cgcatgtgtg tttctgtcgt      4320
     ggccattggt gcacctgata cgtttgtgag tctggtatca tggcccttgc aaagccagtc      4380
     gtgttcctat tgctgcttgt cttctggtag tgaccattgg ccgcccatga ccgacggagt      4440
     gtggcgctgt caggccccgc gttggcgtcg ccctgcgcct gcagcaggtg ccggcggcgc      4500
     ctccggcggc gctcatcccc gcgtgatggt gctgctcgtg cagccaatat ccccaagcac      4560
     gaagctcgtt ctattgaccg ctgttgagtg tgcaactagg accgtacgtt cgtgcgcaag      4620
     ctaggcgatg ggcggagcgc tccgcggtgt tcgagacaca tgatttcggt agcgcaaggg      4680
     cacgaacgcc accgccatca ccgccgaccg caccttggtt tgcatgaccg gccgttgggc      4740
     caagcgcttt gcgagaagag ctgcatacgc gaagccaatc aagcccagcc actagggctg      4800
     ccgtcgcccg caccatgacc tcccggcgtt gaggactact accaaactct ggcagcactt      4860
     tcggccacta gtgcaacctc aacacgggcg ggctggggcg ggcacggcgg acttggtggg      4920
     gttatcggga gctgcgaggc cggaggtagg aggccgctga gggccacgaa tgagttgcta      4980
     ggccgcttga ggcatgagtg gaggctattg tcggtttgag agattgggat tgtcgtttgg      5040
     ggccgtggcg gtttgtaacg ctacacggca gtaaggagtc aataagcgct gacttatcgc      5100
     agcgcagtgg agataagtct agttattgcg acgtaactgc cgtgttgcgt tagagtcacg      5160
     cacggcgcag gacgctcggg tacgtgcctg tgcatggggc cgaaccgagc tgggtcttgt      5220
     acgcgtcagg agcacacggc gccttatctg ccgttgtgct tctgtactgt atttcggatc      5280
     gtccctctgc cgggacggtg acaacccacc cgccccccct ggtgccgccg cggattaatg      5340
     tggtggcacc cgtgggcgct gcggcgtgcg tggttgtctg gactctgctg ctatcaggca      5400
     cttcatacat gcgacacacc cagtactggc agcactttcg gccactagtg caacctcaac      5460
     acgggcgggc tggggcgggc acggcggact tggtggggtt atcgggagct gcgaggccgg      5520
     aggtaggagg ccgctgaggg ccacgaatga gttgctaggc cgcttgaggc atgagtggag      5580
     gctattgtcg gtttgagaga ttgggattgt cgtttggggc cgtggcggtt tgtaacgcta      5640
     cacggcagta aggagtcaat aa                                               5662
//
ID   TCR1_LTR  repbase; DNA; PLN; 164 BP.
CC   TCR1_LTR DNA
XX
AC   AF029671;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   Chlamydomonas reinhardtii retrotransposon TCR1_LTR, long
DE   terminal repeat.
XX
KW   Long terminal repeat; retrotransposon; TCR1_LTR.
XX
OS   Chlamydomonas reinhardtii
CC   Chlamydomonas reinhardtii
OC   Eukaryota; Viridiplantae; Chlorophyta; Chlorophyceae; Volvocales;
OC   Chlamydomonadaceae; Chlamydomonas
XX
RN   [1]
RP   1-164
RC   [1]  (bases 1 to 164)
RA   Ferris P.J., Woessner J.P., Goodenough U.W.;
RT   "A sex recognition glycoprotein is encoded by the plus mating-type
RT   gene fus1 of Chlamydomonas reinhardtii";
RL   Mol. Biol. Cell. 1996 Aug;7(8):1235-48.
RL   PUBMED  8856667
RX   MEDLINE; 97009562.
XX
DR   GENBANK; AF029671.
CC   Positions  1  164  Accession No AF029671    GenBank
XX
SQ   Sequence 164 BP; 37 A; 47 C; 53 G; 27 T; 0 other;
     gagctatggg cggctcccca gggacctttt tgcaccgggc tggggagggc agaaaagacc        60
     gaaagctcta ggggctgggg acctaggcat ctccccagga acaatttgta atcaaccgcg       120
     atggcagcac agctctcccg acctgcaggc atgcaagctt ggcg                        164
//
ID   DNA-1-7_CR repbase; DNA; CHL; 710 BP.
CC   DNA-1-7_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA-1-7_CR is a nonautonomous DNA transposon - 
DE   a consensus.
XX
KW   DNA transposon; unclassified superfamily; 7-bp TSD; DNA-1-7_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-710
RC   [1] (bases 1 to 710)
RA   Kapitonov V.V., Jurka J.;
RT   "DNA-1-7_CR, a family of nonautonomous DNA transposons from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 30 (2004)
XX
CC   Several hundred copies of DNA-1-7_CR are present in the C. reinhardtii
CC   genome. They are ~99% identical to the consensus sequence.
CC   DNA-1-7_CR is characterized by 11-bp TIRs and 7-bp TSDs.
CC   The genome harbors several young families of nonautonomous transposons
CC   related to DNA-1-7_CR, DNA-2-7_CR, DNA-3-7_CR, and DNA-4-7_CR.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 710 BP; 156 A; 232 C; 173 G; 149 T; 0 other;
     cagggggggg ggtaggaaac aaagtgccag accccatgcc ccgaaatccc ccgggacccc        60
     ccttgagggg acgaccgacc ccccgacgga caaaaccttg ttgttcaggg gttaaaaccc       120
     ctccatttaa taccaaagtg gtgtcaatcg actcctcttg acgagcacta tcactccgtg       180
     tcatcagcgg tcctgttctg agacttcggt caccggcggg atcctatcca tggaaatccc       240
     ctcgacccag accaccccgc gctcaactct ctgccgcgtg acgaatggac aatgtgcatc       300
     ggcagccttg ttagacgtga actcgtgcgc accagcgctt cagagcccag ctgtgtcagt       360
     gcgcatgtgt tgaatgtgga gacatgtccc gacatgtcca cgcccggacg cgcaacttag       420
     ccctcccacg ctttgtttgt gcttattacg tcataacgtg cacatatgag cctcgtactg       480
     ctgcgtttgg cccctagttc tgcttgtggg gcgcttcccg aaatccgcca ggatgggctc       540
     ccgaaacccg acggaccccc agggacgagg accgaccccc caactttggc ggcccagaac       600
     ttcctcacca gacaccccct taaaaaacta aaagtacgtg cataatgctc tcctaaagct       660
     ctgtaatttt gagcatgggg taagaatctg agctttctac cccccccctg                  710
//
ID   DNA-1-9_CR repbase; DNA; CHL; 630 BP.
CC   DNA-1-9_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA-1-9_CR is a nonautonomous DNA transposon - 
DE   a consensus.
XX
KW   DNA transposon; unclassified superfamily; 9-bp TSD; DNA-1-9_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-630
RC   [1] (bases 1 to 630)
RA   Kapitonov V.V., Jurka J.;
RT   "DNA-1-9_CR, a family of nonautonomous DNA transposons from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 31 (2004)
XX
CC   Some 20 copies of DNA-1-9_CR are present in the C. reinhardtii
CC   genome. They are ~99% identical to the consensus sequence.
CC   DNA-1-9_CR is characterized by 37-bp TIRs and 9-bp TSDs.
CC   The genome harbors several young families of DNA-1-9_CR-like elements
CC   (less than 100 copies).
XX
CC   [1] (Consensus)
XX
SQ   Sequence 630 BP; 140 A; 177 C; 175 G; 138 T; 0 other;
     cacacgggta tgacgccggt ctgaagaggg gcaaaaacgt gtccacacgt gtttctccac        60
     gctcgcgtag acttagcctc cctctttcag gaattaactt atatgacata taaggatgca       120
     aaagtttgac tcccgtcgca ttctgcgagg gtggctgtca ccacatttcg cgaggcatgc       180
     tttcgccagg gtcgcactct taagcccggg agcatgtttc tagtctcctt gcatgtatgt       240
     ttgatgacgg caacaataat tggcatcaaa gcgcggtaat tgcgcagact tgagaagcct       300
     gttcaccgcg acgtcaccga ataggccgca aacaaaatat ttgaggtctc tatagtatca       360
     aggtgatact tgtagaacgc tggtagctga ttcggaggtc ggcctgacga ccgtcgccga       420
     ccgtgccaag ctgggcggaa cgcatccccc ggacgccacg cgagctagac cagtctaggc       480
     cgtgtcgtcc gcccgggacc acgttcgccg tgccttaaat gggtagtgcc cgacctatag       540
     ccggagtttg gggaccggac gacaaggcca aggcaggtaa ccaggctgtg ccgtttgacc       600
     cctctcccag accggcgtca tacccgtgtg                                        630
//
ID   DNA-2-7_CR repbase; DNA; CHL; 710 BP.
CC   DNA-2-7_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA-2-7_CR is a nonautonomous DNA transposon - 
DE   a consensus.
XX
KW   DNA transposon; unclassified superfamily; 7-bp TSD; DNA-2-7_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-710
RC   [1] (bases 1 to 710)
RA   Kapitonov V.V., Jurka J.;
RT   "DNA-2-7_CR, a family of nonautonomous DNA transposons from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 32 (2004)
XX
CC   100 copies of DNA-2-7_CR are present in the C. reinhardtii
CC   genome. They are ~98% identical to the consensus sequence.
CC   DNA-2-7_CR is characterized by 14-bp TIRs and 7-bp TSDs.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 710 BP; 161 A; 226 C; 163 G; 151 T; 9 other;
     cagggggggg gtaggaacaa acttttttga ccccatgcca caaaacctcc cggacccccc        60
     gaccgaccga ccgaccgacc ccccctgccg tacgaccccc caaaaccccc tcagaacccc       120
     ttagtttttt gtcaggttgg tgccaatcga ctgctctcgg tgagctctat cgctatgtaa       180
     matgatccgc cttgggaaca cactttgacc gaccgacatg tggacatgtg gacatgtgca       240
     cccgtatgcy gacaagtatc ctgatagact ggcctgctat gcaacggctt aytccaatgt       300
     tacttgatra tacgaaatgt gctgacacgt tcaccatgca aaacccggcc ggcaccggcc       360
     tgtccctgac cagttcccca ggcatctccc gavatgccga catgccgctc cccaaactgc       420
     cccaaactat gcacgtgtgc tgagtctggg gtatacctay gcacgcatcg ttgagctgca       480
     cccattgcgc cgcgygctgc aggacagaag cgctaggaac aaaacttggc acgaacctgt       540
     gcaaaacctc ktgggacccc agaccgaccg accgaccggc mactttgagg ggtcataact       600
     ttgcacccag aaacccattt tcaattttga aagcggattc gtgattttct cgttgagctc       660
     tatccatttg aggcatgggg tctgtttcgg aagattctac cccccccctg                  710
//
ID   DNA-3-7_CR repbase; DNA; CHL; 857 BP.
CC   DNA-3-7_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA-3-7_CR is a nonautonomous DNA transposon - 
DE   a consensus.
XX
KW   DNA transposon; unclassified superfamily; 7-bp TSD; DNA-3-7_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-857
RC   [1] (bases 1 to 857)
RA   Kapitonov V.V., Jurka J.;
RT   "DNA-3-7_CR, a family of nonautonomous DNA transposons from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 33 (2004)
XX
CC   100 copies of DNA-3-7_CR are present in the C. reinhardtii
CC   genome. They are ~98% identical to the consensus sequence.
CC   DNA-3-7_CR is characterized by 13-bp TIRs and 7-bp TSDs.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 857 BP; 188 A; 264 C; 215 G; 190 T; 0 other;
     cagggggggg gtacgaacta aacctccaga ccccatgtcc caaaacctcc cgaccccccc        60
     tccggaccga ccgaccgacc cccaccaccg tgcaacccct caaaaccccc tcaaaaccct       120
     ttggttttta gccaggtcgg tgtcaatcga ctgctctcgg cgagctctac aattgtatac       180
     ctccggttca gctggaggca caacttgact ggcagccatg ccacacatgt ccatgtgtcc       240
     atggccgacc accgaccctt ctgtcagact accggggcgt gcgcttaagc ttacaattgc       300
     gctgtacata tgatgtttgg gattgtgtgc cggaagagat tggtcgactt tctcccggga       360
     tcatgtgaag aatcccggga ttcatgtcac gctcgatggc cggcggcagc cttgtcgcca       420
     tgacccacac gaagccttgg ccgttacacg ttagcatcag atcgcatagt ctccatgaca       480
     ccagtgagag acgctcgagt ggggctctac gctactacga tgccgatgtg gacggacatg       540
     cggccgcttt ccagaggcca aacgttctgc aaatgcttta gtatgtgcat gctaatgtgt       600
     gctagtactt gtgctaatgg gcggagcgtt tagaggggcg tttagggcgc agagacgaaa       660
     tctggcagtc ccacccacat ccgcgtgacg aaaccttggg gacccccaac cccgacgacc       720
     gaccctgaac tttgagggcc cataactttg caattactac cctgattgaa actctgaaag       780
     tggatttgga gtcctctcgt caagctcttt cgttttagaa catggggcct ttcccagtcg       840
     aaactacccc ccccctg                                                      857
//
ID   DNA-4-7_CR repbase; DNA; CHL; 709 BP.
CC   DNA-4-7_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   DNA-4-7_CR is a nonautonomous DNA transposon - 
DE   a consensus.
XX
KW   DNA transposon; unclassified superfamily; 7-bp TSD; DNA-4-7_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-709
RC   [1] (bases 1 to 709)
RA   Kapitonov V.V., Jurka J.;
RT   "DNA-4-7_CR, a family of nonautonomous DNA transposons from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 34 (2004)
XX
CC   100 copies of DNA-4-7_CR are present in the C. reinhardtii
CC   genome. They are ~98% identical to the consensus sequence.
CC   DNA-4-7_CR is characterized by 13-bp TIRs and 7-bp TSDs.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 709 BP; 148 A; 226 C; 176 G; 157 T; 2 other;
     cagggggggg gtacgaacaa tagttccaga ccccaccccg caaaacctcc cgaccccccc        60
     tgaccgacga ccgaccgtgc cgtaccgtgc cgtacacccc ctaaaycccc tctgttttct       120
     tccaggatgg tgycaaacga ctgctttcag cgagctctat tagcatgtaa acacggaaag       180
     ttcgtcgggc gcgtcttgac cacagccatg ttgtcgacat gttgtgaaca tcttgcggcc       240
     gttcagttgc acccgtgtaa agcacgctta cgagacttac ctacgcatgg gacatacaca       300
     tgcgttttcc tccggcgcgc aagcaccggt ccgcgacttg tggcacgttc tggtcaggcg       360
     agacatgtcg caccccaaca tcccaaccca acatgtgttg acgggcggta gcccttcgtc       420
     ttctggtagg ctcctgacgt ttcccagccg ttaaaagcat ccattacatg ctttgggcaa       480
     cggtctgggc ttgcccggct gtcttatgag gcccagacga aagtttccgg cacaccgtga       540
     cgaaaccttg gggaccccgg ggaccgacga ccgaccctga actttggggg cccatatctc       600
     cgcaattact accctgatca aaattctgaa agcggattct gaacgctctc gtcaagctct       660
     ttcaatttga agggtggggt atgtctgcgg cattcttacc ccccccctg                   709
//
ID   Gypsy-1-I_CR repbase; DNA; CHL; 6701 BP.
CC   Gypsy-1-I_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   Gypsy-1-I_CR is an internal portion of Gypsy-1_CR LTR retrotransposon - 
DE   a consensus.
XX
KW   LTR retrotransposon; Gypsy superfamily; gag; protease; reverse
KW   transcriptase; endonuclease; chromo domain; 
KW   5-bp TSDs; Gypsy-1-LTR_CR; Gypsy-1-I_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-6701
RC   [1] (bases 1 to 6701)
RA   Kapitonov V.V., Jurka J.;
RT   "Gypsy-1_CR, a family of gypsy LTR retrotransposons from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 35 (2004)
XX
CC   Gypsy-1_CR can be still active retroelement. It is flanked 
CC   by identical LTRs. The internal portion encodes the 778-aa
CC   Gypsy-1_CR1p (pos. 37-2370) and 1331-aa Gypsy-1_CR2p (pos.
CC   2664-6656) proteins. Gypsy-1_CR1p includes the gag-like domain.
CC   Gypsy-1_CR2p is composed of the protease, reverse transcriptase,
CC   endonuclease, and chromo domains.
CC
CC   Gypsy-1_CR1p:
CC   MGQKSGGSAPPATKQKSAGATRTTHGKPTGATTAAGKRASDQTSDHVKSRRAIAQGAEMGAAKDTSDVMD
CC   DANVVSGGSPAGSGKRRIPGQHGSNQGSPGQGHRDSNGDTVMGEVVGPGAGGTRAGAAGTQPPASTLPPS
CC   ALNATDRRKRLMAAYLAAYARVNGHVQHYTRAAQPIVTADDVVRAHELATVMGTSLTLTNQTMLDYILDV
CC   AQNEALPPVPTTAGAPADAPAGPMPAGGGNRAVLPTAVTPMDPVMAEIKQSLTRLDTALTDLKLQAQHDR
CC   KELEDLIALNAPPPAPATDTDLTNTASADSSSTSESEPSEAVDDEPSEVEPPAAEPPVQAAAPAADAPPP
CC   IRLLAFGAKPAAAKTAPTSTDQHRRRRQKYVSLGVSRFRQSPQYVPLRDDLYRHQNRASIKAFTKAFVKS
CC   VDAYLTAKRLDKMQALDELRAYEAMDIEMPLQYLRGENAEKLTENDRRRFYTQRITAPPTYAAAAAAAPS
CC   TIDEVIAQRDQVGTGGTGKKPKVPEPQKFSGVTDKHITCTTTWFDTFVEYCDEQKLEPSRHLLFFCTGTA
CC   QEWMVGYRHDMQLAKMAITTSRLRTAFLQQFGDVRRHTPAEARRRLMMLEHKQQPGERIATYTQRFRLIA
CC   RDARDMAELDRIEHYMNGLAAQFQAVCRTDSEGKDWTSLDSLVSYALGQESRKTQSKGATLAIANTSRPP
CC   FRSRPRKQGCSTGGGGGGGGGGYGGKRPGGGARDSGKPKKIRADRNTCRHCFEHFANGFPAQHLQDCAVL
CC   KRKKAMAA
CC   
CC   Gypsy-1_CR2p:
CC   MRSFCLSVTFIPRIGCGGRNPLVSRAVRAVDSIRGSLPHVQERKPTDTSAVFVAPQWPELEQYFTKSGFR
CC   LLKSYPTGTQLFTIAGSNLTTLAAPWPVQLWYDPPEPDAKLSAIAPKVSYTMTFRGRAGHTDVTTLVDSG
CC   ACTVGTADGYISQKAATQMGLRATSSPTPAVTLADGTRKALGGVVQTRLQMGAYHGTVHLLVLPDTVTGA
CC   QIILGTDWLNRHGALMDWESHTLTLRRGHKRVALRPAYTESPDMLAGSVYADPMQVMDYVRALLHDASTP
CC   RNLISKNEFARCVTTYGEHAFLAVVRWPDPTDEAWTPTCALAAATLPTLGDTGLIPAHDLQNLLTEHADV
CC   FEELKGIRKDTTGISHTIPLVEGAHPPSKRMYRLSQGETTEVNKQVADLLAKGFIEPSNSPFGAPVLFVQ
CC   KKDGTLRMCLDFRALNKLTVKRNYPMPNIQDLFDQLEGAKVFSSLDLQSGYYQIPITKEDQEKTAFITPK
CC   GQYQFKVLCFGLTNAPASFQATMSKIFKKQLGKTVLVYLDDILVFSKTPEEHLAHLREVLGVLREHEFKA
CC   KLPKCDFNKSELKFLGHIVGRHGVRVDEDKVKVVKDWATPTNLKQLRSFLGLANYFRRFIQGYSSLVAPL
CC   MALTGTKVPFVWTPECQAAFEGVKVALTSAPVLALPRFDLPFEVWSDASIYGTGAVLLQDGKPVAYTSAK
CC   FSSAEHNYTTTDQECLGVIHALTEWRCYLDGASHVTLVTDHQPLTYLQDQKSSNLLSRRQARWMEFLSRF
CC   SFTWEYRPGRINVADPISRIWEPMCAALTRSEISSDLLDRIRKGYSGDSLFSDSRASASLQLKTSAGLWY
CC   RDTQVVIPAADGLRELILTEFHNSPTAGHRGARRLKEAISRRYWWPRLDADCTEYVASCPDCQRNKPSNQ
CC   KPAGKLQPLPIPEANWDSVSLDLITKLPTTLAGHDAIVVFVDRLSKMTHFAPTHSDVDAEELAEIFLQYV
CC   FRHHGLPINLVSDRGSVFTGRFWKELFSRLQTKLHFSTAYHPQTDGQTERMNRLLEETLRHYIGPLQDDW
CC   DKHLPLIEFAINNSQSGSTGATPFELNYGRRPRVPGDLALPSSNVPAAQNFSDAMRQRMAHAKKCLRAAQ
CC   DRQRVATDSCRRDSKFDVGDDVLLSTKNIKLRIPGAAKLMPRYIGPFKIQRRIGAVAYELALPPGYKIHN
CC   VFHVSLLKAWKPGQAYNPPPAILEDNGDTYWSVESLLLHRDRKCGRKTLREFLVKWEGYGPEHNSWEPEA
CC   NLRESAPLEEAIEEYLARTATKQAAREKRINTVAQRRADRKAAATQRYATRKATPPAAPTKAPRQTRGRA
CC   T
XX
CC   [1] (Consensus)
XX
SQ   Sequence 6701 BP; 1508 A; 2017 C; 1934 G; 1242 T; 0 other;
     agtggtatcg agggtccagg gggccttcgc gaccaaatgg gacaaaagtc cggcggctcc        60
     gcgccgccgg cgaccaagca gaaatctgct ggtgctacgc gcaccacaca tggcaagccc       120
     acgggagcta ccacagccgc tgggaagcgg gcgtcagacc aaacttctga ccatgtgaaa       180
     tctcgacgtg ctattgcaca gggagccgag atgggagctg ctaaggacac ctccgacgtc       240
     atggatgacg ccaacgtggt aagtggcggt tcgccagcgg gctcagggaa gcgccgcatt       300
     cctggtcagc atgggagcaa ccagggcagt ccaggacagg gccatcgcga ttccaatggg       360
     gataccgtga tgggagaggt agttgggcct ggtgcgggag gcaccagagc tggggcagcg       420
     ggaacgcagc cgccagccag cacattgcct ccgtctgcct tgaacgctac ggaccggcgc       480
     aagcgcctca tggctgctta cctagctgct tacgctaggg tcaatggcca tgtccagcat       540
     tacacacgcg cggcgcaacc aattgtgacc gccgatgatg ttgtgcgcgc tcatgagctc       600
     gccactgtca tgggtacgtc cctgacactg actaaccaaa ccatgctgga ttacattctg       660
     gatgtcgcgc agaacgaggc attgcctccg gttccgacga ccgctggagc gccggctgac       720
     gcgccggccg gcccaatgcc ggctggtggc ggcaaccgcg ccgtcctgcc gacggccgtc       780
     acgccgatgg acccagtcat ggcggagatt aagcagtcgc tgacgcggct ggacacggcg       840
     ctcacggacc tgaagctgca ggcgcagcac gaccgcaagg agctggagga cctgatcgcg       900
     ctcaacgcac cccctccggc gccagcaacg gacaccgacc tgactaacac agcgtctgct       960
     gatagcagca gcaccagcga gtcggagccc agcgaggcgg tcgatgacga gccctcggag      1020
     gtggagcctc cggcggcgga gcccccggtg caggctgccg ctccggcggc ggacgccccg      1080
     ccgccgattc ggctgctggc gttcggcgcc aagccggcgg ccgccaagac ggcgcccacc      1140
     tccacggacc agcaccgccg gcggcgccag aagtacgtga gcctgggcgt ctccaggttc      1200
     aggcagtcgc cgcagtacgt gccgctgcgc gacgacctgt accgccacca gaaccgggcg      1260
     tcgatcaagg ccttcaccaa ggccttcgtc aagagcgtgg acgcctacct gaccgccaag      1320
     cgcctggaca agatgcaggc gctggatgag ctccgcgcct acgaggcgat ggacatcgag      1380
     atgccgctcc agtacctgcg cggcgagaac gcggagaagc tgacggagaa cgaccgccgg      1440
     cgcttctaca cgcagcgcat cacggcgccg cccacgtacg cggcggcggc ggcggcggca      1500
     ccgtccacca tcgacgaggt catcgcgcag cgcgaccagg taggcacggg tgggacgggc      1560
     aagaagccta aggtgccaga gccgcagaag ttctcggggg tgactgacaa gcacatcacc      1620
     tgcactacca cctggtttga cacgttcgtt gagtactgtg acgagcagaa gctcgaaccc      1680
     tcacggcatc tccttttctt ttgcactggg acggcgcaag agtggatggt ggggtacaga      1740
     cacgacatgc agctagctaa gatggccatt accacatcac ggttgcgcac agcgttcctc      1800
     caacagtttg gggatgtgcg gcgtcacacg ccggcggagg cccgccgacg tttgatgatg      1860
     ctagagcaca agcagcagcc gggggaacgc attgccacct acacgcaacg cttccgcctc      1920
     attgcacgtg atgcacggga catggctgag ctagatcgca ttgagcacta catgaacggg      1980
     ttagcggctc agtttcaggc tgtatgccgc acggactccg agggcaagga ctggacgtcg      2040
     cttgacagcc ttgttagcta cgcgctgggg caggagtcac ggaaaaccca atctaaaggt      2100
     gccacactcg cgattgctaa cacgtcacgc ccgcccttcc gatcccgtcc ccgcaaacag      2160
     ggctgcagca ccggcggcgg tggcggaggc ggaggcggcg gctacggcgg caagcggccc      2220
     ggcggcggcg cccgcgacag cggcaagccc aagaagattc gcgccgaccg gaacacctgc      2280
     cgccactgct tcgagcactt cgccaacggc ttcccggcgc agcacctgca ggactgcgcg      2340
     gtgctgaagc gcaagaaggc catggcggcc tagggggctg gcagtgagcg agagggcgcg      2400
     ggtcgtgtgg atagcggctc gcctggtctt ggtagtcctt tagccatggc ggtgacgccg      2460
     gagactgtgg tcatccctac cgttacgacg aatggggtag ctgcaatagc tgcgggtacg      2520
     acgcaggcta cgtttccacc accgccactg ccaggaggct ccgatagcgc attcagtgct      2580
     gacgagttcc gcctggtgga gaaatggctt ggcacgaaat tcacgtttga tgcagcgtgt      2640
     aatgaaaagg gtaccaacgc tagatgcgct cattttgcct ctccgtcacg ttcattcctc      2700
     gaatcggatg tggcgggaga aaccctctgg tgtcacgcgc cgtacgagca gttgacagca      2760
     ttcgcggatc attaccgcac gtgcaagaac gtaaaccgac agacactagt gctgtattcg      2820
     tggccccgca atggcctgag ctagagcagt actttaccaa gagcgggttt cgtctgttga      2880
     agtcataccc tactgggaca cagctgttca cgatcgcggg aagcaacctc acgacgcttg      2940
     cagcgccgtg gccagttcag ctgtggtatg acccgccaga gccggatgct aagctatcag      3000
     ccatagcacc gaaggtcagc tacactatga cgttccgtgg gcgcgcaggt cacaccgacg      3060
     tgaccacgct ggtcgacagc ggcgcttgca ccgttggcac agccgacggg tacatcagcc      3120
     agaaggcagc cacccaaatg ggactgcggg caaccagctc tcctacccct gccgttacac      3180
     tagctgacgg cacgcgcaag gcgctaggtg gtgtggtgca aacccgcctg caaatgggag      3240
     cttaccacgg gactgttcac ttactagtgt tgcctgacac cgtcaccgga gcacaaatca      3300
     tcctgggcac tgattggctt aaccgccacg gcgcacttat ggattgggag agtcacaccc      3360
     tcacgctacg tcgtggacac aagcgggtgg cattacggcc ggcatacacc gaatccccag      3420
     acatgttagc gggctcagtt tacgctgacc caatgcaagt catggactac gtgcgtgccc      3480
     tattgcacga tgcctcaacc ccccgcaacc ttatctcgaa gaacgagttc gcgcggtgcg      3540
     ttaccacata cggggaacac gcctttcttg cggtggtccg atggccggac ccgaccgacg      3600
     aagcgtggac ccccacatgc gcactggccg cagccactct ccccactcta ggtgacacgg      3660
     gactaattcc cgcacacgat ctgcaaaacc tcttaacaga acacgcggat gtgtttgaag      3720
     agctgaaagg gatacgcaag gataccaccg gcatttcaca tacaatcccc ctggtggaag      3780
     gcgctcaccc gccctcaaag cgtatgtacc gcctgtctca gggtgagact accgaggtta      3840
     acaaacaggt ggccgatctg ttagcgaaag gctttatcga gcctagcaac tctccattcg      3900
     gagccccagt cctgttcgtg cagaaaaagg atggcacact acgtatgtgc cttgatttcc      3960
     gggcactgaa caagctaaca gtgaagcgca attaccctat gcccaacatt caagacctct      4020
     tcgaccaact cgaaggtgca aaggtcttca gctcgctcga tttgcaaagt ggctattacc      4080
     aaattcctat cacaaaagag gatcaggaaa agacggcttt cataacgccg aaggggcagt      4140
     atcaattcaa ggtgttgtgc ttcggcctca ccaatgctcc tgcttctttt caagccacaa      4200
     tgagtaaaat cttcaagaag caattgggga aaaccgtgct agtatacctg gacgatatcc      4260
     tggtttttag caaaactcca gaagaacatc ttgcacactt gcgagaagta ctcggtgttt      4320
     tgcgtgagca tgaattcaag gcgaaattgc cgaagtgcga cttcaataag tcggaattga      4380
     agttcttggg gcacatcgta ggccgacacg gcgtgcgagt tgatgaggac aaggttaaag      4440
     tggtgaagga ctgggccaca cctacgaatc taaaacaatt acgttcgttc ctcggactgg      4500
     caaattactt ccgccggttc atccaggggt actcctccct ggtcgccccc ctcatggcct      4560
     taacgggaac gaaagtaccg tttgtctgga caccggagtg ccaggcagca ttcgaaggcg      4620
     tgaaggtagc acttacaagc gcacccgtac tagccctgcc tcgctttgac ctaccctttg      4680
     aggtatggtc cgacgcgtca atttacggca cgggagctgt tctcttgcaa gatggcaagc      4740
     ccgtagcgta taccagcgcc aagttcagct ctgctgagca caattacacc acgactgatc      4800
     aggagtgcct aggagtaatc cacgcactta ctgagtggcg ctgctacctg gacggagctt      4860
     cccacgtgac ccttgtcaca gatcaccaac ctctcaccta tttgcaagac caaaagagca      4920
     gtaacttact gtccagacgt caagcacgct ggatggagtt cttgtcccga ttctccttta      4980
     catgggagta ccgccctggc agaattaatg tggctgaccc aatatctcgt atctgggagc      5040
     ccatgtgcgc agcgctcaca cgctcagaga tttcttcgga cctccttgac cggatccgta      5100
     aaggctattc aggtgacagc ctattctctg attcgagggc atcagcaagc ctgcagctta      5160
     aaacctcagc gggtctctgg tacagagaca cccaggtggt gatccctgcc gctgatggat      5220
     tgcgggagct gatattgaca gagttccata acagccccac agccgggcac cgtggtgcac      5280
     gccgcttaaa ggaagcaatt tcgaggcgct actggtggcc acgtctggac gcagactgca      5340
     ctgagtacgt tgcctcgtgc ccggactgtc aacgcaacaa gccttccaac caaaagccgg      5400
     ctggaaagct gcagcccctc cccattccgg aagcgaactg ggacagcgta tcacttgatc      5460
     tgataacgaa attaccgaca acccttgctg ggcacgacgc tatagtggtg tttgtggacc      5520
     ggctgagcaa aatgactcac tttgctccca cacacagcga cgtcgatgct gaggaattag      5580
     ctgaaatttt cctccagtac gtgttcagac atcacggttt gccaatcaac ctggtgtccg      5640
     accgtggctc tgtgttcacg ggtcggttct ggaaagagct gttctcacgg ctacaaacta      5700
     agctgcattt ctctacagct tatcatccgc aaacggatgg ccagactgaa cgaatgaatc      5760
     gccttctgga agaaaccctg cgccattata tcggcccact ccaagatgat tgggacaaac      5820
     acctgcctct tatcgagttt gctatcaaca actcgcaaag cggtagcact ggggcgacac      5880
     ccttcgaact caactacggt cgacgacctc gggtgcccgg tgacctggcc ttgccttcta      5940
     gcaacgtgcc agcagcgcaa aacttctcag atgccatgcg gcagcgcatg gcgcacgcta      6000
     aaaaatgcct gcgagcggcg caggacaggc agcgtgtggc cactgactcc tgccgtcgcg      6060
     acagcaagtt cgacgttggg gatgacgtac tgctatcaac caaaaacatc aaactccgca      6120
     ttcctggcgc agcgaagctg atgcctaggt acatcggtcc gttcaaaatt cagcgacgga      6180
     tcggtgcggt ggcctatgaa ttggctttgc cacctggcta caagatacac aacgttttcc      6240
     acgtatcctt gctgaaagca tggaagcccg gccaggcgta caatccgcca ccggccattc      6300
     ttgaggataa cggtgatacc tattggtcag tagagtctct tctattgcac cgtgatcgca      6360
     agtgcgggcg caagacccta cgggagttct tggttaagtg ggagggctac gggcctgagc      6420
     ataactcttg ggagcctgag gctaacctgc gggagtccgc tccgttggaa gaagccatcg      6480
     aagaatacct tgcacgcacg gctactaagc aagccgcgcg cgagaaacgc attaacactg      6540
     tcgcacagcg cagggctgac cgcaaggctg ccgctactca gcggtacgcc acgcgtaagg      6600
     ccacgcctcc ggcggcccct accaaagctc cacgtcagac acgtggcagg gcaacttgag      6660
     ttactaccgc tcccgggacg ttcgctccaa ggggggggga a                          6701
//
ID   Gypsy-1-LTR_CR repbase; DNA; CHL; 484 BP.
CC   Gypsy-1-LTR_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   Gypsy-1-LTR_CR is a long terminal repeat of the Gypsy-1_CR LTR 
DE   retrotransposon - a consensus.
XX
KW   LTR retrotransposon; Gypsy superfamily; 5-bp TSDs; Gypsy-1-I_CR; 
KW   Gypsy-1-LTR_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-484
RC   [1] (bases 1 to 484)
RA   Kapitonov V.V., Jurka J.;
RT   "Gypsy-1_CR, a family of gypsy LTR retrotransposons from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 36 (2004)
XX
CC   [1] (Consensus)
XX
SQ   Sequence 484 BP; 92 A; 134 C; 141 G; 117 T; 0 other;
     tgtaacacgg gcctggcgga cttagccagg gttcgtgccc cgagcttgcg acacgcaaga        60
     ctagctttgg agagcaccta tgtgtgcgta tcaatagctt agaacattat caatggctgt       120
     gatttacagg gcacagtatt aaggagggcg cgtatgcgcg tccccatctc tgtacggggc       180
     taggcgaacc cggctatatt tagcactcgt cagggccgct tggaggttac tcttagtatc       240
     ggaaggatcg tctccttccc ggtgccttta tgctacggga gcgcagcttc ctagtatcct       300
     ctctctgctc tctcctcaac ggactttccg tccgcgtccc tgtgtcgcgg cctacgaagg       360
     tcctggaggt aagcttgctc tgaatgcttc taagtagtta gagccggcgt tacaataagc       420
     tggacactcc aggaagatgt gcgttaggct ggcccacgcc cgcgggccag gtggcccgca       480
     ggcg                                                                    484
//
ID   Gypsy-2-I_CR repbase; DNA; CHL; 2974 BP.
CC   Gypsy-2-I_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   Gypsy-2-I_CR is an internal portion of Gypsy-2_CR LTR retrotransposon - 
DE   a consensus.
XX
KW   nonautonomous LTR retrotransposon; Gypsy; gag; protease;
KW   Gypsy superfamily; 4-bp TSDs; Gypsy-2-LTR_CR; Gypsy-2-I_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-2974
RC   [1] (bases 1 to 2974)
RA   Kapitonov V.V., Jurka J.;
RT   "Gypsy-2_CR, a family of gypsy LTR retrotransposons from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 37 (2004)
XX
CC   The internal sequence encodes gag and protease. There are only
CC   a few copies of Gypsy-2_CR present in the genome. They are
CC   over 95% identical to each other. The internal sequence is
CC   incomplete at its 3' end.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 2974 BP; 735 A; 798 C; 789 G; 652 T; 0 other;
     tggggggagt tgcgggaata gtcctgagaa actctattgt cccctaccca ttttcttcac        60
     tatctgaaca aaaaaaaatg gcgaatcaag tagactcgga cagtgaatcg tccggttctg       120
     taggctctac ccgtgccacc accatttcac cgtcctctct cttcgcaatt ccgctcttca       180
     ccccctcctc tgaggacccg agcaactgga tagacaccat cgaacgtatg gggcgtgtgt       240
     ttggatggga tgatacgtta aagctattta tagcgaagtg ccgtcttagt catgatgccc       300
     gcatctggga ctcaggcatg gaaactcagg gactcaggca tggaaacaaa catggaaaca       360
     aacacgtggg atgcgttctg tcgggcgttt cttgcccgtt ttgcagtaaa agagacaact       420
     ctttacgccc aactggcggc atgccgccag aaagcaaatg agtctgttcg tgagtactcg       480
     gataggttcc gtcacctact tgcccggttg cgcattaagc ccgacacaat acaaatgtat       540
     aactacctga ggggtttaca ttccagcata tacagccagg tgtatctcat gcgcccttcc       600
     agtctcgaaa cggccattga ggatgctatt tacgctagcg aggtagaaga gtccgcacga       660
     aacccaaaca atttctcaca acagattcca ttacccatat cccgcacgga ctaccgtcca       720
     gcagaccagc ggcctcgccc atcaaacttc aacctaagcc gcagggatga aaagttccgt       780
     tcacaagagg aacggtttaa taaccggtca actaggcccc tgccgccgcc atctgctagc       840
     agggtttcac aggatctgga gaaagacatt gaaagcatac aaaataagct ggcaaacctg       900
     accctagcgt tgagacagca gggggaggtg gccacataca tgcatgatag gtgtgaatcc       960
     gaaggggatg atggttggga ggatgcggaa tgttattact ctcatgggtg tggctatgac      1020
     agtgatgatt gggatgactg cgatgacggt gatcctgagt tatatgcacg tgagcgtgct      1080
     ttgtattcta ctatctaaac gagtgagtga ttttgagccc atcaggctgc ccaacaaacg      1140
     tgtgcctgtt gaacctacac agaccctgcc catggagatc aatgaccggc ctgcaacccg      1200
     tcggttcagt gctgcccgta ccgctggagg tgcttttggc tcgcccacac ccctgaaaga      1260
     gactcccccg cctgacacac gggccacaga ttctccccag cctgatacag ctacggcctt      1320
     tcgtgtgacc aacacggcaa cacctgcgcg acgggaacgg actgacaagg gtttaggagc      1380
     gggcggagga agggcaacca cagggtaccg tgatattggt cgtgcaccca gagggccggg      1440
     gggtgctgct acacgcgtgg accccattcc attcgatgcg tccgaagatg agaccactca      1500
     gcgcattgtg gctgacgtgg tatctaaaat aaacaagtac tcaatccctt tgggagccgc      1560
     agtccgggta aatccggtgc aaatttatag caaggttggg gggaaattga tgggtgtcgc      1620
     acgtatggtg ggcacacgcc caagggacga acccgccagc agggatgcta atctatatga      1680
     aagccaccga tgtaaggatg acgtgcttcg ccccctttct gatttcgatg tagggtggcc      1740
     tctgcctgtt agtgtgccga ctttccacga cgcggagccc gcctccaagg caccaacaca      1800
     cacaaccaga ggggcccgtg tccctgggct tgcccgcgtg acgtctggct attcgccacc      1860
     gtccgccccc acctatcaac aaacaaacac attgccctgc tacaatctgg atactcgtcc      1920
     ccagaagttt tcggtttgca ggggctatgt ccgcctgacc aacgccaggg gagagaagga      1980
     agtaatccgt gcggtcattg acacgggcgc ctcgtacagt gttgtacctg tgtacatttt      2040
     gcggcgactg gacctcatgc cgtatctagc tgagtcacgg gcaatgttcc tgaatgcgga      2100
     tggacttaag aagaaagcca cagggcaggt acgaggcatg caagttagtc tagggggtga      2160
     tttgacgtac accatggaca tgtatgtgtc ccaagctcaa aactacgaat tgcttttggg      2220
     aatggatttc ttataccctc tcaaggcctc cattgatttt gaggggcaag tactggaatt      2280
     cactaatgac tcaaaccagc gcagcaccat acctattaca tgtgttgtgg aggaagccgc      2340
     ggcgccacgc accacttccc ttagggagga atgccctgat ggagtgcccg agatctacat      2400
     gctggatggt gattcccctg caaccaaggc actcgtggcg cctgatgaaa ccgctggtgt      2460
     aatcagtcct gcacgcaggc attctcgcat tatttccttc agggctagaa aacggactgt      2520
     cccagcagat catatgcgca tgcggcaggt tttccgttgt gccaaaccca ttgtttccct      2580
     ggctccgtgt gggccctgtt ttcatagcaa aatagagaac tcaacaggta atggaagtta      2640
     cccatattta ccgcaccggc aacgcagccg tcaggtgaca tggttatgcc ctcagcatcc      2700
     ctctccaaag ggatggtgtg gcccagacaa gggcccggta tggactgcca gtccccccgt      2760
     gacattgacg taggcccggt acaggccctg acaatggtgc atattggagc cgtaggggtt      2820
     cccctaagat gaagcgtatg cacgcacgta ttaccactca aaataaaacc taaaaaatca      2880
     caaacaaacg gagtatagtg ttaggagcag gccgtggcat ccacgtgcag ggttggacgg      2940
     ggacgcccaa ctgtaggccc ggtaatgcta cagc                                  2974
//
ID   Gypsy-2-LTR_CR repbase; DNA; CHL; 1254 BP.
CC   Gypsy-2-LTR_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   Gypsy-2-LTR_CR is a long terminal repeat of the Gypsy-2_CR LTR 
DE   retrotransposon - a consensus.
XX
KW   nonautonomous LTR retrotransposon; Gypsy; gag; protease;
KW   Gypsy superfamily; 4-bp TSDs; Gypsy-2-I_CR; Gypsy-2-LTR_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-1254
RC   [1] (bases 1 to 1254)
RA   Kapitonov V.V., Jurka J.;
RT   "Gypsy-2_CR, a family of gypsy LTR retrotransposons from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 38 (2004)
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1254 BP; 253 A; 341 C; 328 G; 332 T; 0 other;
     tgtagcaggt aagcgcggac ttcgtgtaaa cgcgtctgcc atgtttccta gctatgctca        60
     taaattgtac gaggttcgtg tttggagctt tcaaggttat tcaccaagca gcgactactg       120
     atcaagattt gctggacaag agcgtgtgcg tgtgtagggt gagtgcttgt gcggcgcggc       180
     aatcggcact tcccagtgtt tccgatgcgc atgcaagccg gcgtttctag aagcccagta       240
     cgtgctggtg ttattcttat tctttaagcg tgtttattta ggtaagcaaa cagacccacg       300
     cctgcgcggc gttggaggtg gacttcacgt tgaagaaggt ctgtttacga atgtgcactg       360
     cgcgcaggtg tgaagtacgg cagttgggcc ccggtggtcc ccatattgag ggttggaccc       420
     accatcgaag aaggtggttg gcagttgccc aaaagtactt aagggctgac cgcgccgagc       480
     tgtgacaagc tattgccaca agagcctagc caagtacaag agtaagcccc ccaaccgact       540
     gccaagtcac acatgctcaa gtgagccgtc tgtctgtgtt ccaatctttg aataggtagt       600
     gccggccgta ggccaggcac ggcgcacggt cgcgcccttt aggtttctgt gtttgattgc       660
     tctgcgggac ccaaccccag tgccttcttt gtaagcgtca agtaatacta ccggtacacg       720
     gtctttgcct gtcccgcctt cctctctaac tcccactcag cgtctcagac ctgagacgct       780
     gagcaagtca gccttagcta ttggaatagt cagcaacaag tcagcgagtg ttctgcttgc       840
     gtgtatatcc gtttcccttc ccggcacaca ggttctccct gccaggggta tcaagtcaag       900
     tcccgaccaa gactcctttc cctaccgcct cctcaccacc tactctcacc ctcaatccct       960
     cgtctagtct tcttcttctc ttcgagtgtc catcgcctac ttctgtatac tatcgtgtct      1020
     gtctcgctcg tgtgtgagcg caagccacgt gttaggtgtg tcgcgtgtca gtcaggtctt      1080
     cccatacctg tgaacgctag tgtaccggta tactgaacca agggaaggtc aaatcgtagt      1140
     gggtctgtct tcatacagct gctgcgtggc tctagagact cggtgacgcc tgcgccagta      1200
     cgtgaaaaaa tctgggttcc tgtatatagg gctcgcgcgt cttttgatgc taca            1254
//
ID   L1-1_CR   repbase; DNA; CHL; 7343 BP.
CC   L1-1_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   L1-1_CR is a L1-like non-LTR retrotransposon - 
DE   a consensus.
XX
KW   non-LTR retrotransposon; endonuclease; reverse transcriptase; 
KW   L1 superfamily; L1-1_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-7343
RC   [1] (bases 1 to 7343)
RA   Kapitonov V.V., Jurka J.;
RT   "L1-1_CR, a family of L1-like non-LTR retrotransposons from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 39 (2004)
XX
CC   Several hundred copies of L1-1_CR are present in the C. reinhardtii
CC   genome. They are ~98% identical to the consensus sequence and constitute
CC   nearly 1% of the genome (some elements are less than 1% divergent from
CC   each other). L1-1_CR elements usually are flanked by 2-14-bp target 
CC   site duplications. Many elements are inserted as a 15-50 bp long 3'
CC   terminal portion of the consensus, including the polyA tail. 
CC   L1-1_CR1 encodes the 350-aa L1-1_CR1p (pos. 1057-2106) and 1534-aa 
CC   L1-1_CR2p (pos. 2109-6710) proteins.
CC   L1-1_CR1p is not similar to known proteins; L1-1_CR1p is composed of
CC   the L1-like endonuclease and reverse transcriptase domains.
CC
CC   L1-1_CR1p:
CC   MALPRRRPGVGDGCNQPRTHRRRRRSNSPAPKGAVAPPSSRSRGQGAWAAGCLPRRTVLARRRTCPLGGR
CC   PGDSRLVGAAGRGARVEERGGQCPSRRPRRGRHCRRHNRRVVVRAGAGVSADTAGRAGGGAGSEAEYGAV
CC   CLTRDTCVAIGSDLVTHQNRCADVQGYEWAQLGRDTLGGRLLAYLRDQGATVPDWAVCRVPAGRTAVLAQ
CC   LHDEFTGWWRLYSAQPADTPLPSDVTEQLDDAAQQVQTAYMDYVLLDARTLRSAKRGPADPGGASGPSRR
CC   QRQHRSRSTSSLMSLGSAPLRPGGASSGAASMSTSSGGAPPSQGGGRRGKRHSSNSNRNRHGAAVAGGGS
CC
CC   L1-1_CR2p:
CC   MRPPVGAANLRLLTVNVNGLGSPFKARALVSHLQQVGADVAMVQETHATDTTALESCLRAAQGACLPWRH
CC   CLAASPAASPHSCGAAILARSRLSLPGCVLQPPSTDAAGRVVCWDWDVGHLRLRFVCVYAPTAVADKPAF
CC   FAGLHPHLATDRVLVVGGDWNCVTDASQEAAPSPSRAAGAPQLASLLAQFSLVDPWASKRGGAKGYTHPA
CC   TPKPATPARLDRWYVSATAAPWVVDVARTYGAPGDHNGVLLTLSLPDLPHAHREQWRFPTYLLFHPSLRL
CC   ELEQRLEAHVAANPVASTGDGACTQWEADKFFLREAATSIHRRHARQTRDGLHGVVLAADAAAALADRPG
CC   ASAAQRQAAAMANLAVREERAAAAAASHNARAALMEEHGERGTRWFHRQADEPAAGAQEPITHLKVPGQP
CC   APVALTGPGTRNTVSAAAAAMYSSTSPTGLFRVQPVCTASQQQLLAAIDRKVPADLQAAAEGSGDGALSD
CC   AELMAALAGSANGKAPGSDGVPYEVYKVFWALLGPRLCAAAAAAFAAAADAHDGGEMAAALPASWREGII
CC   TLIYKGKSLDRAELASYRPITLLNCDFKMVSKAVSARLQPALDAVVDELQTAFITGRWIGDNALYLQGLI
CC   EWMRLDVGADGTPRQGGALYFLDIEKAYDRVHRQWLYASAEGLGFGPRMLRWIRLLTANGSARVCVNGML
CC   SDAFPVLNGLPQGSTASPPLWVIQMQPLTSFLRRQVEQGALRTPLLPSGEQAPPAAHHADDTTLTARDPA
CC   VDGPVLMAAVQLFCRASNARVHPDKSKAMGLGRFAHLTGPCPHTGVPFTTGAVTHLGVPLSWDSDAAAAD
CC   LYTRRARGMAFVARLWAALSLTLVGRVHIAKQVLAAKLAYHFSFLNPSPAQLKELTDLVDHFAARSMHAE
CC   DASLVSHGNPLLLPKRETACLPYKDGGVNHVDLPAFLSALQAKTFALLAQPGRQPWKMLTRALLTHVRPD
CC   SATTWAWVYSDAPAPAGLPARLAAAVGHVRSAGVEQHPPQPATQPPAAPPQWRVSLDQLWVANAAGAVSY
CC   VHYTGRLLEPGPGVLPPAVDGAWQPACVLQHRKPRHLWTFEERAAYDAASPGERAGAWPRAPYFLAPEAG
CC   VVVHPEHCRIAGVSLADYTVRDVRRAITAANPAAPPAPARPAAMPCPAPAQQAGGSGTQPAAQSRLAERE
CC   AEWQRAAAQLTTTAAQHFHNNPVALDPWLHRTSAAAGLQNTPARELQSYASPSQQSGEGPRRSARLQEQA
CC   AGGAGPSTGPATAAAAAAAAVEGDPRMPPPDASLLRGTWRRLWDSHASRGAKVLVYRLQHAYLPCGLYRA
CC   GKGIRPRVTTGCGGLGAHCPHPACGPPGPRAWASLTHIFLECPAYAQARTWLQQLWACVAPQAAAPPVTD
CC   AGFMLGDRMGMWASGPRGAGALLWSTLRATFLYAVWCAYWSREPAKQTSEHVVREVVSELRRVMQLRFTA
CC   ATLTPETLSALPTQLLTAQLKAAKLEHFVAIWSAGGALCEVEEVQGGSPKLNLRLTLASPVQAP
XX
CC   [1] (Consensus)
XX
SQ   Sequence 7343 BP; 1005 A; 2416 C; 2727 G; 1195 T; 0 other;
     acagcggggc cccgcccccg gtgccagttc tggtggcggg gggaagcaac cgtgctgctg        60
     cggctgccct gcgggccgcg ctgcagcagc agccctcttc acagcagcgg gtggcagcgg       120
     gagggcttag cggggtccag ccggcggcag gcgtgggggg gccgctggcg gccgggcctc       180
     gccctgccgg tgctgggccg gctggcgtgc agcagcagca cagtggcgct cccgcgccac       240
     tgccaccctt ggatcagcgg gcagccgccg ggcaggatca ggagcagacc gctgtgatgc       300
     ggcggtactt ggccgagctg gcggagctca atcttcagcg gcaacagcgg ttacagcagc       360
     agcagcagca ggagctgcag cgccaggggc agtcgcccag gccccggacc ggctcccagg       420
     ttgtggtcct ggccacgctg gggggacagg acggggcggg cggtggcgct ggcacggcgg       480
     cgtcacggcg tgggcaacgt gttgacatag ttgaccacgt gggggacgtg cagatgcagg       540
     aggcggcggg tgtgggtgac gcagcggctg ccgcgggtgg cgccagcgga ccacccgctg       600
     tggcctcgcc ctcgctgcca gctctggtgg cggggggaag cacccgggct gctgcggctc       660
     ccctgagggc cgagcggcag cagcagccct cttcacagca gcgggtggca gcgggagggc       720
     ttagcggggg gcagccgtcg gcaggcgtgg gggggccgcc ggcggccagg cgtcgcactg       780
     ccgatgctgg gccggctggc gcgcagcagc agcccagtgg ggctcccgcg ccacagccgc       840
     cctttgatca gcgggcagcc gccaggcagg atcagcagct gaaagctgcg atgcagcggt       900
     acttggccca caaggcggac ctccatctcc agcagcaacg gcgggtacag caacagcagc       960
     agcaggagca gcagtgccag gtgcagccgc ccaggccccg gaccggctcc cggtttgagg      1020
     tcctggccac gctgggggga caggacgggg cgggcgatgg cgctgccacg gcggcgcccg      1080
     ggcgtgggcg acgggtgcaa ccagccgcgc acgcaccgcc gccgccgccg cagcaacagc      1140
     cccgctccaa agggcgcggt ggccccgccc agctcccgca gcagagggca gggcgcttgg      1200
     gcggcgggct gcctcccccg caggacggtg ctagctcgcc gccgcacgtg cccactgggc      1260
     ggccggccgg gggacagcag gctggtgggg gcagcgggtc ggggcgccag ggtggaggag      1320
     cggggcgggc agtgccccag ccgccgcccc aggcggggcc gccactgcag acgtcacaac      1380
     cggcgggtgg tggtaagggc aggggcaggg gtttcggccg acacggctgg gcgcgctggt      1440
     gggggtgcgg gcagtgaggc ggagtacggg gccgtttgcc tgacccggga cacgtgtgtt      1500
     gccatcggct ctgacctcgt gacgcaccag aaccgctgcg cagatgtgca ggggtatgag      1560
     tgggcgcagc tgggccgcga cacgcttggt ggccgcctcc tcgcctacct ccgtgaccag      1620
     ggcgccaccg taccggactg ggccgtctgc cgcgtgccgg ccggccgtac cgccgtcctg      1680
     gcacagctgc acgacgagtt cactggctgg tggcgcctat actcagccca gcctgcagac      1740
     acgcccctgc cttccgacgt gacggagcag ctggatgacg ccgcgcagca ggtgcagacg      1800
     gcctacatgg actacgtgct cctagacgcc cgcaccctgc ggtccgctaa gcgtgggccg      1860
     gcggaccccg gcggggccag cgggcccagc cgccggcaac gccagcaccg cagccgcagt      1920
     acctccagcc tcatgagcct gggcagcgct ccattgcgcc ccggcggcgc cagctcaggc      1980
     gccgctagca tgagcaccag cagcggcggc gcgcccccca gccagggtgg cggccgccgc      2040
     ggcaaacgcc acagcagcaa cagcaaccgc aaccgccacg gcgctgccgt ggccggcggg      2100
     ggctcataat gcggccacca gtgggcgcgg cgaaccttcg gctgctgaca gtgaatgtca      2160
     acggcctggg ctcgccgttc aaggcgcggg cgctggtctc gcacctgcag caagttgggg      2220
     cggatgtggc gatggtgcag gagacccacg ctactgacac gacggcgctg gagtcttgcc      2280
     ttcgtgccgc gcagggggcg tgccttccgt ggcgccactg cctcgctgcc agcccggcag      2340
     cgtcgcccca ctcctgtggg gcggctatcc tggcgcggag tcggctgtcc cttccaggct      2400
     gcgtactgca gccgccgtca acggatgcgg cgggccgtgt ggtatgttgg gattgggacg      2460
     tgggtcacct gcgcctgcgc ttcgtgtgtg tgtatgcgcc cacggccgtg gcggacaagc      2520
     ctgctttctt tgccgggctg catccccacc tggccacgga cagggtgctt gttgtcggtg      2580
     gggactggaa ctgtgtcacc gatgccagtc aggaggcggc ccctagcccg tcacgtgctg      2640
     caggtgcccc gcaacttgcc agcctcctcg cccagttcag tctggtggac ccttgggcga      2700
     gcaagcgtgg cggcgccaag ggctacacgc atccggccac gcccaagccg gccactcccg      2760
     cacgcctgga tcggtggtat gtcagtgcca ccgcggcgcc gtgggtggtg gatgtcgctc      2820
     gcacgtatgg ggcgcctggg gaccacaacg gtgtgctgct caccctgtcc ttgcccgacc      2880
     tgccacatgc gcaccgggag cagtggcgct tccccacata cctgctgttt cacccctcgc      2940
     tgcgtttgga gctcgagcag cgcttggagg cgcacgttgc cgcaaatccc gtggccagta      3000
     caggtgacgg cgcttgcacg caatgggagg cggacaagtt cttcttgcgg gaggccgcca      3060
     ccagcatcca ccgtcggcat gcacgccaga cccgggatgg gctgcatggc gtggtgctgg      3120
     ccgcagacgc ggccgctgcc ctggccgacc ggccgggtgc cagcgccgcg cagcgtcagg      3180
     ctgcggccat ggccaacttg gcggtgcggg aggagcgggc agctgccgca gcggccagcc      3240
     acaatgcccg cgctgcactg atggaggagc atggggagcg gggcactcgc tggttccatc      3300
     ggcaggctga cgagccagca gccggcgcgc aggagcccat cacgcacttg aaggtgccgg      3360
     ggcaaccggc gcctgtggcg ctcacggggc cgggcacgcg caacactgtc tccgcagccg      3420
     ccgcagccat gtacagcagc accagcccca ccggcctgtt ccgcgtgcag ccggtctgta      3480
     cggcgtcgca gcaacagctt ctggcggcca ttgaccgcaa ggttccggcg gatctgcagg      3540
     ccgccgcaga ggggtccggt gacggcgccc tcagtgatgc cgagctgatg gcagcgctgg      3600
     ctggctccgc caatggtaaa gcacctgggt cggacggggt cccgtacgag gtgtacaagg      3660
     ttttctgggc gctgctgggt ccgcgcttgt gtgctgctgc tgccgctgcc tttgctgccg      3720
     ctgcagacgc ccacgatggc ggcgaaatgg cggcggcgct gcccgcctcc tggcgggagg      3780
     gcatcatcac gctcatctac aagggcaaaa gcctggaccg cgccgagctg gcgtcctacc      3840
     ggcccatcac gctgctcaac tgcgacttca agatggtgtc caaggccgtc agcgcccgcc      3900
     tgcagcccgc cctggatgca gttgtggatg agctgcagac cgcgttcatc accggccgct      3960
     ggattggaga caacgcgctg tacctccaag gcctgatcga atggatgcgc ctggacgtgg      4020
     gcgcggacgg cacgccacgg cagggtggtg cgctgtactt cttggacatt gaaaaggcgt      4080
     atgaccgggt gcaccggcag tggctgtatg cgtccgcgga gggacttggg tttgggccgc      4140
     gcatgctgcg ctggatccgc ctgctcactg ccaacggctc tgcccgcgtg tgtgtgaacg      4200
     ggatgctctc tgacgccttc ccagtgctga acggcttgcc gcagggcagc accgcctcac      4260
     cacccctgtg ggtcatccag atgcagccac tgacgtcctt tctgcggcgg caggtggagc      4320
     aaggggcact gcgcacgccc ctgttaccca gcggcgagca ggcgccacct gctgcccacc      4380
     acgctgacga cacgaccctc acggcgcgcg acccggcggt ggacgggccg gtcctgatgg      4440
     cggcagtaca gctgttctgc cgcgcgtcca acgcccgtgt ccatccggac aagagcaagg      4500
     ccatgggcct tggcaggttt gcgcacctga cgggcccttg cccacacacg ggggtgccgt      4560
     ttaccactgg cgccgtgacg cacctgggtg tgcccctgtc gtgggactct gatgcggctg      4620
     cagctgactt gtacacccgg cgggctcgcg gcatggcgtt tgtggcgcgt ctgtgggctg      4680
     ccctgtctct gactctcgtt ggccgtgtgc acattgcgaa gcaggtgctg gcggcgaagc      4740
     tggcctacca cttcagcttc ctcaacccgt cgcctgcgca gctgaaggaa ctcaccgacc      4800
     tggtggacca ctttgctgcg cgctccatgc acgctgagga cgccagcctg gtgtcgcacg      4860
     ggaacccgct cctgctgcca aagcgggaaa cggcctgtct gccgtacaag gatgggggtg      4920
     tcaaccacgt cgacctgcct gcgttcctgt ctgccctgca agctaagact ttcgccctcc      4980
     ttgcccagcc aggccggcaa ccctggaaga tgctcacccg ggcgctgctt acccatgtgc      5040
     gcccggactc cgccaccacg tgggcgtggg tgtacagcga cgcgccggcg ccagcggggc      5100
     tgcctgcccg gctggcggcc gcggtcggcc acgtgcggag cgcgggcgtg gaacagcatc      5160
     cgccgcagcc agccactcag ccgccagcgg cgccgccaca gtggcgggtt agcctggacc      5220
     agctgtgggt ggctaacgct gcgggggctg tgtcctacgt ccactacacg gggcggctct      5280
     tggagcctgg gcctggcgtg ctgcccccgg cggtggatgg ggcgtggcag cctgcctgtg      5340
     tgctgcagca tcgcaagccg cggcacctgt ggacctttga agagcgggcg gcgtacgatg      5400
     cagcatcacc aggggaacgg gcgggggcgt ggcctcgggc gccgtacttc ctggcgccgg      5460
     aggctggggt ggtggtgcac ccggagcact gccggattgc gggtgtcagc ttggcggact      5520
     acacggtgcg ggacgtgcgg cgggccatca ccgcggccaa cccggccgca cctccggctc      5580
     cggcccgccc cgcagccatg ccgtgcccgg cgccagcaca gcaggcgggg ggttcgggga      5640
     cccagccggc ggcacagtcg cggctggcgg agcgggaggc ggagtggcag cgtgcagcgg      5700
     cgcagctgac caccacggcg gcgcagcatt tccacaataa cccggtggct ctggacccct      5760
     ggctccaccg cacctctgcg gcagccgggc tgcagaacac gccggcgaga gaactgcagt      5820
     cgtatgcgtc cccgtcccag cagtcgggtg aggggccgcg gcggtccgcg cggctgcagg      5880
     agcaggcggc gggcggggcg gggcctagca cggggcctgc cacggcggcg gcggcagcag      5940
     cggcggcggt ggagggcgac cctcgcatgc cgcccccgga tgcgtccctt ctgcggggta      6000
     cgtggcggag gctgtgggac agccacgcca gtcggggggc aaaggtgctg gtgtaccggc      6060
     tgcaacatgc ttacctgcct tgcgggctgt acagggcggg caagggcatt cggccacggg      6120
     tgaccacggg gtgcgggggg ttgggggcgc actgtcctca ccccgcctgc gggccacctg      6180
     gcccgcgggc gtgggccagc ctgacgcaca tcttcctgga gtgtccagct tatgcgcagg      6240
     cgaggacgtg gctgcagcag ctgtgggcct gcgttgcgcc ccaggcagcg gcgccgccag      6300
     tgacggacgc gggcttcatg ctgggggacc gcatgggtat gtgggcctca ggcccgcggg      6360
     gggcgggcgc gctgctgtgg agcactttgc gggccacctt cttgtacgcc gtctggtgtg      6420
     cgtactggtc ccgcgagcct gctaagcaga cgtcggagca tgtggttcgg gaggtggtca      6480
     gcgagctgcg cagggtgatg cagctgcgtt tcactgccgc cacgctaacc cctgaaaccc      6540
     tgtcggctct gcccactcag cttctcaccg cacagctcaa ggcggctaag ctggagcact      6600
     ttgttgccat ctggtcggcg ggtggcgcgc tttgtgaagt ggaggaggtt cagggtgggt      6660
     caccgaagtt gaacttgcgg ctgacgcttg catcacctgt gcaggccccc taggtttcct      6720
     tttgggcggc gtttctttcc aggcgctggc gtggcgtatt atcgtcatca gcttatctgg      6780
     cgcccatgtg ttttagctct ggctggcgtc gcagcgcctg ggcggctgtg ggacttcctg      6840
     cacagcgcgt cttgcagcgg gctggagccc gcttagtcag cgccacatct ggcccgttta      6900
     gttttctgct tgtgtctcct ctgccggttc tcctggggtg ttgcttaagc aaccgacttg      6960
     tgggggtggg gtgggtttgg gcggggcgag tgcgtagcgc tggtgttttc ttttctggcg      7020
     cgcggtggtg gtggttcttg cggttaggct gtggtgtagg ttggtgcttg ggttaggtct      7080
     ggcggtgttt ttgtgcaacc cctcccgggg ggcggggggg ccagcctcct gctctgtctg      7140
     ccgggtcggg gtggggtggg gtgggatgga tgggggtggt tggtggcggt tttcgaggtg      7200
     tttgctttct gttttcttct cttttcttct cttcttgccc tgtcagggtt ctggtctcgg      7260
     ggaccaggct gctttcaggc agcagggggg cagcgcgtct gcccctgttc aaccttgtaa      7320
     ggatgattcc tcaaaaaaaa aaa                                              7343
//
ID   L1-2_CR   repbase; DNA; CHL; 5292 BP.
CC   L1-2_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   L1-2_CR is a L1-like non-LTR retrotransposon - 
DE   a consensus.
XX
KW   non-LTR retrotransposon; endonuclease; reverse transcriptase; 
KW   L1 superfamily; L1-2_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-5292
RC   [1] (bases 5228 to 5292) (the unclassified CRP1 repeat)
RA   Day A., Rochaix J.D.;
RT   "Characterization of transcribed dispersed repetitive DNAs in the
RT   nuclear genome of the green alga Chlamydomonas reinhardtii";
RL   Curr. Genet. 16 (3), 165-176 (1989)
XX
RN   [2]
RP   1-5292
RC   [2] (bases 1 to 5292)
RA   Kapitonov V.V., Jurka J.;
RT   "L1-2_CR, a family of L1-like non-LTR retrotransposons from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 40 (2004)
XX
CC   Several hundred copies of L1-2_CR are present in the C. reinhardtii
CC   genome. They are ~98% identical to the consensus sequence and constitute
CC   ~0.5% of the genome. Since some elements are identical to each other,
CC   the genome harbors currently active L1-2_CR elements.
CC   The consensus is incomplete at the 5' end. The reconstructed portion
CC   encodes the 1439-aa L1-2_CRp protein (pos. 639-4955) composed of 
CC   the endonuclease and reverse transcriptase domains. 
CC
CC   L1-2_CRp:
CC   MRRPKQAAPGPRPLRVGSHNVRGLRKRVPHLGCSRLHALLSCWERQRLDVVCLQETHVLDSDIDLVTADL
CC   AAAAQRLHAREWTAWWAPAQKPEGRRVTGGTAILIRSSLLQQGAMVLAGGAAAVSVAAGAWAGRGVSLQL
CC   QWGGHTFTLTSAYFPLASTAQQAFIREWVGLRASGSGEHLLAADFNFVADVALDTVTGRARSDGPAAAAL
CC   AAACPGLIDVLRRRHPARRVCTFFHPHGASRLDRILCSGGLEPQVLECGVAAGVPSDHMLVTVALAASPE
CC   AAPPARSLPRAHLGFRDFKDLDRDYRAWLGTALAARPTDPVELLEWWPALKRAAATSANRLSREAVTRRV
CC   AASQREAAALEAAAAAAAAVEAGGDVQVAAQAAVRARCTAAEAAVAAAAGAARRTRHAWLRGGEKPCPLL
CC   TRMLRPAGGPRVIAKLKQPDGTTTSDPTVMGQVMARYWRDVSAAPPPAPDARTQVLDALQQHGRRCTAEE
CC   ADQLGRVAVSAAEVRAALAAAPAGRAAGPDGIPVELYQHYDSDFAPVLADVFTAVGEGAGVPDGLLDGVW
CC   SFFFKSGDPTEPSNYRPITLTDTDYRTLARVLCLRLQPVFGRVIDPEQTAFLTDRRIADNVLLLQLTPGL
CC   LKAAKKAPAVAAFLDFYKAYDTVDRSFLLACLERMGVGAGFLTWVSRLLTDTRGAALVNGRVSGWVPLMA
CC   GVRQGCPLAPLLYLAVAQALLSWLRSRGHGVLANLASVLASQYADDCTPFLEGFQAVPGFLADMDVFRRA
CC   SGQRLNMTKVELMVMGTVGGAGALPAGMAGPPLPPGWRVVPAAKSLGVHYGDWGACSPPVTFEAVMGVLS
CC   KIARMPVSMFGRAAAASAYALGKVLYHLEFAGLPQLYVVDRLLARVAAVVDRRLSPAQFDANPHARPAGL
CC   SIELMQLPPAVGGAGLLPLVPHVKARQAGLAVRCVLGVCGLLPYVPPWTRVAAAWLRQVHPAATPLRLLV
CC   RGAADRVLNKPLTPAGKPFARLLKAMTALPAVTLVAPPEPGAWVSHVPLWANPALCEDGRTWEVAFADLF
CC   ALPGLACVGQLVAAHDGLNELRQALTRPWAEGSRSGEACADMYVTAVWRRVLHWSTRARLPSPLPGPASP
CC   QEAADRFAAAVALLPAGWAAAARAAQLARGPAAALPLPVADVVSATAESVQRVVRGLGWLQCGGPPILLT
CC   AYTVKAGTVLQMAPQLAALKAKHLQYVCDAGVSGVGAALAAGAFVCTLARLWSLKWENHHKEALWRVAAN
CC   ACWAFPRHASERARGVTVDPCWACGVDMQDGDRRHWFWDCTVALSLRESMGMAMGFLPEEALSAFSREEL
CC   WLVRPPAGLAPPVWDVVCLAAMSALDFGRQRVVMAGLAARAKLPSARVLSIGLAVVADFWGRLQTFVTLG
CC   IRPKGWDAVPFAHPFISRAVGDGMVLRLPYDADSPPPSP
CC
CC   A subset of more than ten L1-2_CR elements is characterized by
CC   a remarkable target site specificity. They are inserted
CC   in different copies of the DNA-2-7_CR transposon at the same site 
CC   (position 593 in the DNA-2-7_CR consensus sequence; usually the
CC   593-601 region of DNA-2-7_CR is duplicated around the L1-2_CR inserts).
CC   The DNA-2-7_CR sequences that harbor the L1-2_CR elements are less
CC   identical to each other than the L1-2_CR sequences. Therefore,
CC   the L1-2_CR and DNA-2-7 elements cannot be different parts of the same
CC   composite transposon. 
XX
CC   [2] (Consensus)
XX
SQ   Sequence 5292 BP; 654 A; 1572 C; 2036 G; 1030 T; 0 other;
     cccttcttgt aatgtcgcct tcataacttt gacgatgagg tgatgccgga ccggacgccg        60
     actgcgctgg acgctgcggc agctgcggcc cggcgtgcgg cccccaagcg gagccgggaa       120
     caggcgcagg cggcggccgc ggcgggcgag gcggcgctgg cgctggccat ccgggagagc       180
     aaggcggtca aacaggcctt ggcgacggcg gcggcggtgc gagccgccgc gacagccgcg       240
     gcggcggcgg cagcagcggc cggggccacg ggcaccccga cggcggccga ggccggggcg       300
     gccgcggcgg tggtcgcgac agcaggcgtg agtggcacga tggccgccgt agaggccacc       360
     gctgcggcgg gcgtggagcc ggcctcgccg ccggccgcgc cggtgtcaac ggcgggcttg       420
     gggggcatcg tgggcccggc agtcctgccc gcggggtgga gcagcgacgg tggtgtgggt       480
     gatgagggcc tggcgggcgg cgtcgggcag gggctgctgg gggatgcgga gacagcgccg       540
     gatgccaacg cgaagctgct gtgtcagggc cggcggggcg gtcctggcga cttcatggac       600
     gttagctcgg ttgccccgcc cgggggcggg cagcagtaat gcggcggccg aagcaggccg       660
     ctccggggcc ccggcccttg cgggtggggt cgcataacgt gcgggggctg cggaagcggg       720
     tgccccacct ggggtgctcg cgcctgcacg ccctgctgag ctgctgggaa cggcagcgcc       780
     tggatgtggt ctgtctccaa gagacgcacg ttcttgactc ggacatcgac cttgtcacgg       840
     cggacctggc ggcagccgct cagcggctgc atgcacgcga gtggactgcg tggtgggcgc       900
     cggcccagaa gccggagggc cgtcgtgtta ctggcggcac ggcaatcctc attcggtcga       960
     gccttctgca gcaaggcgcc atggtgctcg ctggcggcgc agctgccgtg tcggtggcgg      1020
     ctggcgcgtg ggcgggccgc ggtgttagtt tgcagttgca gtggggtggc cacaccttca      1080
     cgctgacgtc agcctacttt cccctggcat ccacagcgca gcaggctttc attcgtgagt      1140
     gggtgggcct gcgggcgtcg ggctcgggcg agcacctcct agcagctgac ttcaactttg      1200
     tggcagatgt ggcgctagac acagtcactg gccgggcgcg cagcgacgga cccgcagccg      1260
     ccgcgctggc ggcggcgtgc cctggcctca ttgacgtgtt acggcggcgc cacccggctc      1320
     gccgcgtgtg taccttcttc cacccccacg gggcgagtcg gctggaccgc atcctgtgca      1380
     gcggcggcct cgaaccgcag gtcctggagt gcggcgtcgc cgccggggtg ccctccgatc      1440
     acatgcttgt gacggttgcc cttgcggcgt cgcctgaagc cgcgccaccc gctcggagcc      1500
     tgcccagggc ccacctcggt ttccgggact tcaaagactt ggatcgtgac taccgtgcct      1560
     ggctgggtac ggccctggcg gcacgcccta ctgatcctgt tgagctgctg gagtggtggc      1620
     cggcccttaa acgggctgcc gccacgtccg ccaaccgcct gagccgggaa gctgttacga      1680
     ggcgtgtggc cgccagccag cgggaggcgg ccgcgcttga ggcggcggca gcagccgccg      1740
     ccgcggtgga ggctggcggt gatgtgcagg tggcggcgca ggcggccgtg cgtgcgcgat      1800
     gcacggcggc ggaggccgcc gtggccgcgg ccgccggcgc ggcgcgacgt acgcgccacg      1860
     cgtggctgcg tggcggcgag aagccctgcc ctctcctcac gcgcatgctg cggccggcgg      1920
     gtgggccgcg cgtgattgcc aagttgaaac agcccgatgg caccactaca tccgacccca      1980
     cggtcatggg gcaggtgatg gcgcggtact ggagggacgt cagtgccgcg ccgccgcccg      2040
     ctccagacgc ccgcacgcaa gtcctggatg cgctgcaaca gcacgggcgc cggtgtacag      2100
     ccgaagaggc ggatcagctg gggcgggttg cggtctcggc ggcggaggtg cgcgcggcgc      2160
     tagccgctgc gccggctggg cgcgcggcgg gccctgacgg cataccggtg gagttatacc      2220
     aacactatga cagtgatttt gcgccggtcc tagcggatgt gtttacggcg gtgggggagg      2280
     gggctggggt gcctgacggg ctcctggatg gcgtgtggtc tttcttcttt aagtcgggcg      2340
     accctaccga gccctctaat tatcgcccca tcacgctgac ggataccgat taccgcaccc      2400
     ttgcccgggt gttgtgcttg cgactgcaac cggtgtttgg gcgtgtcata gaccctgagc      2460
     aaactgcgtt tctgacggac cgtcgcattg ccgataacgt cctcttgctc caacttactc      2520
     ctggcctgtt gaaagccgcc aaaaaggccc cggctgtggc ggccttcctc gacttttaca      2580
     aggcgtatga tacggtggac cgctcttttc tgctcgcgtg tctggagcgc atgggcgtgg      2640
     gggcgggctt tcttacgtgg gtgtcccgcc tgttaactga tacacgtggg gcggcgttgg      2700
     tgaatggacg tgtgtcagga tgggtgccgt tgatggcggg cgtgcggcag ggctgcccgt      2760
     tggctccgtt gctctacctc gctgtggcac aagcccttct gtcatggcta cgcagccggg      2820
     ggcatggtgt gctcgctaac cttgcgtcgg tgctggcgtc ccagtatgcg gatgattgca      2880
     cgccgtttct ggaggggttt caggcggtgc cggggttcct ggcggacatg gatgtgtttc      2940
     ggcgggcgtc tggacaacgg ttaaatatga ctaaagttga actgatggtg atggggacgg      3000
     tcggcggtgc tggcgccctg ccggccggca tggctggccc gcccctgccc cctggctggc      3060
     gtgtggtgcc ggcggccaag tcactagggg tgcattacgg ggattggggc gcatgctccc      3120
     caccagttac gtttgaggcc gtgatggggg tgctgagcaa aatcgcgcgc atgcccgtgt      3180
     ccatgtttgg tcgggcggcc gcggcgtcgg cttatgcttt gggcaaggtc ctgtatcatt      3240
     tggaatttgc gggtcttccc caactgtacg ttgttgaccg gctgctagcc agggtagcgg      3300
     cggtggtgga tcggcgactg tcgccggccc agtttgatgc caacccccat gcacgcccgg      3360
     ctggcctctc cattgaactt atgcaactgc ctccggcggt ggggggggcg ggcctgttgc      3420
     cgctggtgcc gcatgtgaaa gcgcggcaag ccggtctcgc ggtccggtgt gtgttgggtg      3480
     tgtgtggtct gctgccgtac gtgcccccgt ggacccgggt cgcggcggcg tggctgcgcc      3540
     aggtgcaccc ggcggcaacg cccctgcgtt tgttggtgcg gggggccgcg gaccgtgtgc      3600
     tgaataagcc gctcaccccg gcgggcaagc cgtttgcgcg cctgctgaaa gccatgactg      3660
     cattgcccgc ggtgactctt gtggcgccgc ccgagccggg cgcgtgggtg agtcatgtgc      3720
     cgttgtgggc taacccggcg ctgtgtgagg acggccgcac gtgggaagtg gctttcgcgg      3780
     atttgttcgc tctgccggga ctggcgtgtg tgggccagct ggttgcagcg catgacggcc      3840
     tgaacgaact gcggcaggca ttgacacgcc cttgggcgga gggctcccgg tctggtgaag      3900
     cgtgtgcgga tatgtatgtg actgctgtgt ggcggcgggt gctgcactgg agcacgcggg      3960
     cgcgcctgcc gtcgcccctg ccggggccgg cgtcgcctca agaggcggcc gaccggtttg      4020
     cggcggcggt ggcccttctt cccgctggct gggctgccgc cgcgcgtgcg gcccagctgg      4080
     ctcgggggcc tgccgccgcg ctgccgctcc cggtggccga cgtcgtgagt gctacggcgg      4140
     agtcggtgca acgggtggtg cggggacttg gatggttgca gtgcgggggg ccgcccatcc      4200
     tgctcactgc ctacacggtg aaggcgggga ccgtgctaca aatggctcca cagttagccg      4260
     ccctgaaggc taagcatttg cagtatgtgt gcgatgcggg tgtgtcgggg gtgggggctg      4320
     ccctggcggc gggggccttc gtgtgcacct tggcccgctt gtggtcgctg aaatgggaga      4380
     atcatcataa ggaagcactg tggcgtgtgg ccgccaacgc ttgctgggcg tttccacggc      4440
     atgctagcga gcgggcgcga ggcgttactg ttgacccgtg ttgggcgtgt ggggtggaca      4500
     tgcaggatgg ggaccggcgt cactggtttt gggactgcac tgttgcgctg tcactgcggg      4560
     aaagtatggg gatggctatg ggtttcctgc cggaggaggc tctaagtgcc ttctctcgtg      4620
     aggagttgtg gttagtgcgc ccgcctgcgg ggcttgcgcc acctgtgtgg gatgtggtgt      4680
     gtctcgctgc tatgtctgcc ctggactttg gtcggcagcg tgtggttatg gccgggttgg      4740
     cggcgcgagc gaagctgccg tcggcccggg tgctgagcat tggacttgcc gtcgtagctg      4800
     acttctgggg tcgtctccag acgtttgtga ctttgggtat caggccaaag ggttgggacg      4860
     ctgtgccgtt tgcgcatccc ttcatatctc gggctgttgg tgacggcatg gttttgcgct      4920
     tgccgtatga cgctgattcc ccgcccccct cgccgtgaga ggttgtgcgt ggttggtggc      4980
     tctgtgtgtg ggcaggatgc acgtgtgggc gaccgttcta gtacctggac gcttgcgccc      5040
     tggttagtgc gtgcgctgtg cgtgtgtcct gcggcctaga cgtttcccgg cactcctgtg      5100
     cctaggcttg tggcgttgag gcacagcggt ggggctctgg cgggttgagg cttggctagg      5160
     actcactgtg cgcggagtca cacggacttt gcccgcggga gggtttgcag caaagtcggg      5220
     gttgggccct gatagcatgt gatggctcgg cgtcttcggg agctgggact gtcccctctg      5280
     taacatccgc at                                                          5292
//
ID   L1-3_CR   repbase; DNA; CHL; 1991 BP.
CC   L1-3_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   L1-3_CR is a 3' terminal portion of a putative L1-like 
DE   non-LTR retrotransposon - a consensus.
XX
KW   non-LTR retrotransposon; putative L1 superfamily; L1-3_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-1991
RC   [1] (bases 1991 to 1865) (the unclassified CRP2 repeat)
RA   Day A., Rochaix J.D.;
RT   "Characterization of transcribed dispersed repetitive DNAs in the
RT   nuclear genome of the green alga Chlamydomonas reinhardtii";
RL   Curr. Genet. 16 (3), 165-176 (1989)
XX
RN   [2]
RP   1-1991
RC   [2] (bases 1 to 1991)
RA   Kapitonov V.V., Jurka J.;
RT   "L1-3_CR, a family of L1-like non-LTR retrotransposons from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 41 (2004)
XX
CC   The L1-3_CR elements are flanked by ~15-bp target site duplications.
CC   There are several hundred copies of L1-3_CR present in the genome.
CC   They are massively truncated at 5'. Therefore, the consensus is
CC   not complete at its 5' end. Some copies are identical.
XX
CC   [2] (Consensus)
XX
SQ   Sequence 1991 BP; 220 A; 763 C; 570 G; 406 T; 32 other;
     actcgctgcc gcccgccgct acyatgtrct ccaacraccc cttccacggc cagctgyagc        60
     ccccgcacac cmtgcagatt cygccggagc agccwctgcg cgcgcccccc gcagctgcgc       120
     gcgccacggc cgacgccgcc cacccgcctt ccttacgccc cgttcgccgg cgcctccctt       180
     caacccgccg gcgctgctcg acctgcgccc nctctgccac tnccgtrctt gccagacatg       240
     gtgctgtccc ttccacgccc ccacggccca gccacctccc cagcctcagc ctcctcctcc       300
     ccagcctcag ccttagtccc ggccggcctc ctcctcctca gccctcagcc ccaggccggc       360
     gccgccgccc aaccagccgc cgtctgacag cccccggccg ccgacgcacg cctgcttgcc       420
     gccaacacca tcgtgttcgg atgcgtgccc cggtaccccg cccccgccgc ctctgccgct       480
     gccgccacag ccgccgccag ctgcgcctcc ccctccgcca tctctcctcc ctgccgccgc       540
     cccctctgcc gcctcctccc ctcccatggc ctccgactgg tcaccccgcc tagcactctg       600
     ctggcataac cgagtccgcc ccctcctccg tctccgccgg nccgctcgcc mgcaacagcc       660
     cgcggrcaag tcggccgcag cctccagcta cagcccgcgt gacagcmccg gcgcacrtgg       720
     agctctgggc ctkggtagcg gcggtaccga gcggtgcggc ggcwwtagta agtgcatggg       780
     ggtggggcgc cggacgcggs cagggcacgc cgctcggcgg tgtgccsgtc gccgcgccgg       840
     tgttcctaac gccgcggctg ccaggcgagg tctggtaacg ktggtarcgc gsktktgtst       900
     gggggcttgg cgccgggtmg cgggtcgtcg atcgygccgg ccctgggctg ctggcgcggt       960
     cgcttcggta cctggccttt cggccggcgg gctgcgcang tgtgtgtgcg tgggcgtgtr      1020
     tgtgtgtgtg tgcgngtgtg tgtgggtgtg ggtgtgggcg tgtgtgtgtg tgngtgtgcg      1080
     tgtgcgtgcg tgtttagtgc gtgcgcgtgc gtgcgcgtcc gtgcgtgtgc gcgtgcctgt      1140
     gtgggcgctt ctgggcctgc tgtgtggctg ctgtgtcatt tttaacgcgc gtgcctctgt      1200
     gcctccgggg agctcttggt gagcccggac tcccgtaacc gtgcgcacca cacaccgacc      1260
     aggcagctgc tacagaccgt gacagtttca ctcgccagct gtgcccgccg tccccgcctc      1320
     tcctgacagc taaccgcctc ctgtgcctca catttcatat ctgcctacag tgttcacact      1380
     ccagcgccag ctcgagggcc agctccagcg tgcgacgcca gcaaactttt tcgcgaaccc      1440
     gcattcggtc cttagggcgc gcggtgcagc cttatcccga acttcagccg cgacattccc      1500
     aatccaaccc gcgcttcctc acactccggt tgtgtttgtc tcgcactcgc attcgattcg      1560
     cccgccactc atccgtacat tcgggctccc ttttctgcct tgccgcgccc tgttttcgcc      1620
     cctgcttgtc atactgtcgc ccggccattg ctttgctgca tactgttgca ttttctctat      1680
     gttgcatttg gtgctcatcc gtggacgctg gtcatcttcc tgcaggtgcg gtgcggctct      1740
     gcatcgcgag cgagtgtggc gttgcggtgt gtctgtgtgg tgctatcgcc tggccgggcg      1800
     cccggagcgt gaggaatgcg catcagcaaa cttccagcca gccagcaact tgtcggtaca      1860
     gtaactccgg cgttcgacca gccatgcact cctgctctgc cgctgcaaac tgtttgctgt      1920
     ctgcttgggg tacgggcgtc agctgcaccc tatgggacct cgccaacctg cctgaaccct      1980
     gtcccatcac a                                                           1991
//
ID   L1-4_CR   repbase; DNA; CHL; 1609 BP.
CC   L1-4_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   L1-4_CR is a 3' terminal portion of a putative L1-like 
DE   non-LTR retrotransposon - a consensus.
XX
KW   non-LTR retrotransposon; putative L1 superfamily; L1-4_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-1609
RC   [1] (bases 1 to 1609)
RA   Kapitonov V.V., Jurka J.;
RT   "L1-4_CR, a family of L1-like non-LTR retrotransposons from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 42 (2004)
XX
CC   The L1-4_CR elements are flanked by 5-12-bp target site duplications.
CC   There are several hundred copies of L1-4_CR present in the genome.
CC   They are massively truncated at 5'. Many elements are just 20-50 bp 
CC   long 3' terminal portions. The consensus is not complete at its 
CC   5' end. Some copies are identical.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 1609 BP; 204 A; 631 C; 438 G; 336 T; 0 other;
     gcctgcatcc tactgcctta gacgacaaca cacactcgtt tcgtccgcgc tcgccgttcc        60
     gccttccatg tagtgctctg ggtgtcagtc agcctgatcc ttttacctac ttgtgtctat       120
     ccgggcatca gcatggctaa cagcaaacgg cgccgcgtgg gggtcaccga ggcatccggc       180
     atcgcggagc aggtcatcgc gctccatcgc cgcccgcgca cgcttcgccc ccggcggaca       240
     tgccgccctc tgcgacaacc cgcggggtca tctacgccgc ccccgcggcc gcatcggcta       300
     cgttattggt gattacttgg tttactcctg ggttctgtct acttggtttt tggttcatgt       360
     gccgccgccc ccgcggccgc cttggcgacg acgtgccgcc gcccccgcgg ccgcatcggc       420
     tacattccgc cgcccccgcg gccgccctgg cgctgcgccg ccgcccccgc ggccgccctg       480
     gttctgcgcc gccgcccccg cggcagccct ggctacgtgc cgccgccccc acggccgccc       540
     tggctacgtg ccgccgcccc cgcggccgcc ttggtcacgt gccgccgccc ccatggcggc       600
     gtgtcgccat cgcgtcatcc caaaaggagt attcgttgcg ggcgtgcgcg gcggcggcct       660
     cccaacccat acacagccct ctggagatga cgccaccggc gataccggcc gatccagggg       720
     cttcagtgtg tcgagttccg tgtgccttgc ctgcagtgcc cctagcccgc gcatgcacac       780
     cccactaacg cacctgcccc cacccggccg gcagccgccg ccccgtgcgg ctgccggttt       840
     cctgacgggt gtggggaacc gcaatgcggt ccgcatccgt cacctgcttg ctgtctgcac       900
     cccttgcctc cttgtctgcg tatgcttgcg tcccttgccg cccctgcgga ggattcgttt       960
     gcgtttgctg cttgtggctt cctggtgtcg cacggcatgc accgcacgcg cccatgccga      1020
     ccgcagtgcg accgggatga gccatgcagc gatcgcgctg tcgttacttc ctcggccgcc      1080
     cggcgccctt gctcatttat ttaaccgcat ccatcacgtc cccgtactta gtgttcttcg      1140
     tttagtcacc ccgcgcagcg cacagccata acagccacag cccgcagccc ggcttgcgca      1200
     ccatgtcctc gcggttgctt tggggttgac gttgcttgcc tcgcgcctag cgccatagct      1260
     tctacgctgc agtgcatcac gcctcctgtc cctccctccc tccctccctt acatgtcgtg      1320
     ctgggcaccg gtggcgctgg tgttctccag gttggtttcg ggcgcatcct ttctggtagt      1380
     cccaacgcca gcccggccgg cgtcgtccag cccagccatc ccaatacagc agccaccttc      1440
     cgtcagccag ccatgggcgc gaccgtccac agcgtttacc gtcggttacg aggtaacatg      1500
     tgaattcgca acttgcgcta ctgactgcct actctcgtgc cgcctgcaag cccactccgc      1560
     cttccgctct ggtctacgta cgcattagtt ccgcaacact cgtcaataa                  1609
//
ID   SINEX-1_CR repbase; DNA; CHL; 535 BP.
CC   SINEX-1_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   SINEX-1_CR is a putative nonautonomous non-LTR retrotransposon - 
DE   a consensus.
XX
KW   nonautonomous non-LTR retrotransposon; SINE; SINEX-1_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-535
RC   [1] (bases 1 to 535)
RA   Kapitonov V.V., Jurka J.;
RT   "SINEX-1_CR, a putative SINE-like non-LTR retrotransposon from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 45 (2004)
XX
CC   About 100 copies of SINEX-1_CR are present in the C. reinhardtii
CC   genome. They are ~98% identical to the consensus sequence.
CC   Usually SINEX-1_CR are flanked by 15-bp target site duplications.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 535 BP; 119 A; 126 C; 161 G; 129 T; 0 other;
     atcaccggat cgctaactca gttagcgatt tgactcgtcc ttacggcaga agggacccgg        60
     gtacgaatcc ggataaaagc ccaattatgc aaaaggcgaa agattggtgc gaaaccgatt       120
     ggtgatccca cgaacgatag gtaattgccc ttagtggcaa ttgcgggctt atgcccgctg       180
     caacctagaa aggtcgtggt gcagaagtcc gatttagtgg cgaggtccaa ggttcaagac       240
     aaggctcaag atccaaggct cgaggaggag cgccatggct cctcggtttg cacgaactgg       300
     cagtgctcca ctactataac gcggcgtttc cctagctcga tatgctaggt gtgcaggctt       360
     ggatgtagtg gactttgaag agcggcctag gacttggagg ttgtagtttc ggaggttgtg       420
     actctttcgt ggtgaggcgt cagcgtgagg ggggcgggcc ctctcgccct agtcaccttg       480
     ccccgttaat ccatgccagg ccctatgggc cggcgttgta attattatta ttatt            535
//
ID   SINEX-2_CR repbase; DNA; CHL; 484 BP.
CC   SINEX-2_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   SINEX-2_CR is a putative nonautonomous non-LTR retrotransposon - 
DE   a consensus.
XX
KW   nonautonomous non-LTR retrotransposon; SINE; SINEX-1_CR; SINEX-2_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-484
RC   [1] (bases 1 to 484)
RA   Kapitonov V.V., Jurka J.;
RT   "SINEX-2_CR, a SINE-like non-LTR retrotransposon from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 46 (2004)
XX
CC   Several copies of SINEX-2_CR are present in the C. reinhardtii
CC   genome. They are ~99% identical to the consensus sequence.
CC   SINEX-2_CR are flanked by 14-bp target site duplications.
CC   SINEX-1_CR and SINEX-2_CR share a common ~330-bp 5' terminal 
CC   portion.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 484 BP; 114 A; 106 C; 152 G; 112 T; 0 other;
     atcaccggat cgctaactag tttagcgatt tgaatcgtcc ttacggcaga agggacccgg        60
     gtacaaatcc ggatgaaagc ccaattatgc aaaaggcgaa agattggtgc gaaaccgatt       120
     ggtgatccca cgaatgaaaa aggtcgtggt gcagaagtcc gaattagagg cgtccaaggt       180
     gcggtccaag gtccaagatc caaggtcgaa gcaggagcgc catggctctg gcatgttgca       240
     actaactggc agtgctccgc agctttagtg cggcgttccc tagcgacata gggtgatggc       300
     taggataggg cggctcggat tggctaggat aaggtggctc ggatgtgcta ggatgatggt       360
     ggctaggatg cggtggtgca gaccgtagag tctgcttggc agtgctgggg ttgcactcgc       420
     aagcgattct ccgataatct cacgctagga gcttaggccc agtgtaacct ttctttcttt       480
     cttt                                                                    484
//
ID   SINEX-3_CR repbase; DNA; CHL; 507 BP.
CC   SINEX-3_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   SINEX-3_CR is a putative nonautonomous non-LTR retrotransposon - 
DE   a consensus.
XX
KW   non-LTR retrotransposon; ; L1-1_CR; SINE; SINEX-3_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-507
RC   [1] (bases 1 to 507)
RA   Kapitonov V.V., Jurka J.;
RT   "SINEX-3_CR, a putative SINE-like non-LTR retrotransposon from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 47 (2004)
XX
CC   About 30 copies of SINEX-3_CR are present in the C. reinhardtii
CC   genome. They are ~98% identical to the consensus sequence.
CC   The 125-bp 3' terminus of SINE-3_CR is 79% identical to the
CC   L1-1_CR 3' terminus. Target site duplications are not present.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 507 BP; 110 A; 116 C; 148 G; 133 T; 0 other;
     gggggggtcg tctaaatggt taagacactc aagccgattt cgttaaggct tcgagagatc        60
     ctgggttcga atcccggtca ccccaccagg aagggccctg gtttaccaaa acccatccac       120
     accttggtgg tgtgtagacc ccccctgtgg tgcagggagt ctctggggta caaggctgga       180
     gctctgggcc tgcaactgga gagctttcaa gttcaagatc caagattcaa gtggagctct       240
     gggcctgtca actggagagc tctagatgat ctgtgtggtc atggcagtgg ctgtagttgt       300
     cacctagctg ttgagaactc cagtaggtgt gtggtgtcac ctggctgttg aggtttccag       360
     taggtgtgtg gtggaacaaa aacttctctt ctcttctctg atctctggcc ctatcgaggt       420
     tctgtgatat gatccaggct gccttggcag tagggtggta gtgcgtctac caccgcaacc       480
     ttgtaaggat gactttaaaa aaaaaaa                                           507
//
ID   hAT-N1_CR repbase; DNA; CHL; 893 BP.
CC   hAT-N1_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   hAT-N1_CR is a nonautonomous DNA transposon - 
DE   a consensus.
XX
KW   DNA transposon; hAT superfamily; 8-bp TSD; hAT-N1_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-893
RC   [1] (bases 1 to 893)
RA   Kapitonov V.V., Jurka J.;
RT   "hAT-N1_CR, a family of nonautonomous hAT transposons from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 48 (2004)
XX
CC   About 20 copies of hAT-N1_CR are present in the C. reinhardtii
CC   genome. They are ~98% identical to the consensus sequence.
CC   hAT-N1_CR is characterized by 14 TIRs and 8-bp TSDs.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 893 BP; 189 A; 277 C; 228 G; 199 T; 0 other;
     cagtgtttcc aaaagcttat acaaggtatt agcgttatag taccccacgg gtacctgcct        60
     gctcaagaca ttttacttcc agtacccggg ggccgaaggc cccgtctccc cttcgtaggg       120
     ggggttcggg cgggcggaag ccccccccaa aatttttttt cacgaccata ccaaaataca       180
     ctgttttgag tgaattgcat gcgtttaagt cttgccacgt cgtcctgtct tgcttccaaa       240
     tcttgagtat cagccagccc gaaactgttt ccgccccgct acatgcagct tcctgcgtca       300
     gtctgcacac ccacagccac agcaaccaca actactaagt gcattaatcg ccccgccaca       360
     gcttagtccg cccagcggaa ctcggcactg tcacgccagt gcttcagggc tgccgcgtac       420
     gggaagtccg acacagagaa ccaccgctgc gccatcatgc gcacagccag gcacaggtgc       480
     cgctgctcca gccagttgcg ctgcttgttc ttgatgtagc tcatggtgct gaacacacgc       540
     tccgcctcca ctgatccggg tacaatggta gccgccagct tggccaggcg cacgaactca       600
     ctgcagctgt cggcaatgta ctgcgcgcga gtcagcgatt gccagaacgc cacgaagctg       660
     ccctgcggca gcgtcacggt gccagatgca gcagcctcta agacagagct cgcgtggtcg       720
     attgcctccg tgctgaacag ggcccgggta gtatagggtc cggcggatta aatttttggt       780
     acccgtgtgg gtactcgagg ccccaataat tagtttccag tacccgcgtc aatttcggcg       840
     aattattttc tcagtacccg aatgggtact agtacccggt tttggaaaca ctg              893
//
ID   hAT-N2_CR repbase; DNA; CHL; 238 BP.
CC   hAT-N2_CR DNA
XX
AC   ;
XX
DT   04-MAR-2004 (Rel. 1.0, Created)
DT   04-MAR-2004 (Rel. 1.0, Last updated, Version 1)
XX
DE   hAT-N2_CR is a nonautonomous DNA transposon - 
DE   a consensus.
XX
KW   DNA transposon; hAT superfamily; 8-bp TSD; Gulliver; hAT-N2_CR.
XX
OS   Chlamydomonas reinhardtii (consensus)
CC   consensus
OC   Eukaryota; Plantae; Thallobionta; Chlorophycota; Chlorophyceae;
OC   Volvocales; Chlamydomonadaceae.
XX
RN   [1]
RP   1-238
RC   [1] (bases 1 to 238)
RA   Kapitonov V.V., Jurka J.;
RT   "hAT-N2_CR, a family of nonautonomous hAT transposons from the
RT   green algae genome.";
RL   Repbase Reports 4:(2) p. 49 (2004)
XX
CC   About 100 copies of hAT-N2_CR are present in the C. reinhardtii
CC   genome. They are ~97% identical to the consensus sequence.
CC   hAT-N2_CR is characterized by 21 imperfect TIRs and 8-bp TSDs.
CC   hAT-N2_CR shares common termini with Gulliver.
XX
CC   [1] (Consensus)
XX
SQ   Sequence 238 BP; 49 A; 68 C; 63 G; 58 T; 0 other;
     cagggctcct atcttaatgt ctccagacat taattggcca ttttggccgt ttcctagaca        60
     ttcctcccgg gggctaatgt ctggggcgag actttgttgg cccgggtttg gggcgggttt       120
     tgtccgaatt cctatggaga agcccccaaa ccgccatgtg cccagacaaa agacggcggc       180
     cacccggccg tttttgtctg gagctagaca ttaccccgaa aacaagatac gacccctg         238
//
