Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01021139.1 Corchorus olitorius cultivar O-4 contig21172, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 142404
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:3314 original size:658 final size:658
Alignment explanation
Indices: 3--5534 Score: 4884
Period size: 658 Copynumber: 8.4 Consensus size: 658
1 CA
** * * * *
3 CCAAAAATCATATAAAACTGAGA-GAGGGCACCGAAACGTGTTTTTAGCCAAAAACCGT-AATGG
1 CCAAAAATCATGCAAAACTGAGACG-GGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGAA--C
* * * * * *
66 TAATGTATACAATTTCGGCTAAAATTTTGTAAAAATTTACCCAAAAGAGTTTTCTTCAATTTTTG
63 T-A-GTACACGATTTCGGCTAAAATTTTGCAAAAATTTACCCGAAAGAATTTTCCTCAATTTTTG
* * * *
131 GTCACGATACTCATAAAAAATATATAATTCAACGCCAAAAAGAGTGAAAGGTTTTTCACGATTCT
126 GCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCT
* *
196 AATATTGTTTTTCTATTTTTCCAAATTAATTTCTAATTAAATCGAAATATGATTCAGATGCTCGT
191 AATATTGATTTTCTATTTTTCCGAATTAATTTCTAATTAAATCGAAATATGATTCAGATGCTCGT
* * * * * *
261 AAAAGCAAATCCGTAAGTCCAATGTGGATGAGATTTGGTTAGATAAAAATAGATATTTCAATGAA
256 AAAAGCAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTCAATGAG
* ** * * * * * *
326 ACTTGACATCAAAAATCATCCAAAATAGAGTCGGAGCCTGGGAACGCGTTTATAGTAAAAAATTG
321 ACTTGGCGCCAAAAATCATGCAAAACAGAGCCGGGGCCCGGGAACGCGTTTATAGTAAAAAACTG
* * *
391 TGATGGATAGTTAGTACGTATACGATTTTGGCTAAAATATTGCAAAAATTTGACCCGAAAAATTT
386 TGAT-G---GTTA-T---TACACGATTTCGGCTAAAATTTTGCAAAAATTTGACCCGAAAAATTT
* * * * *
456 CTCCCCAATTTTTAGCCACAATACTAATAATAAAATATATAACTCAACGCCAAAAAGTTTGGAGG
443 CTCCTCAATTTTTGGCCACAATACTCAT-A-AAAATATATAACTCAACGCCAAAAAGATTGAAGG
* * * ** *
521 GCATCTCACGCTTGTAATATCGTTTTTCCTATTTTTTTTCCGAACTAAAATCTAATTAAATTGAA
506 GCTTCTCACGCTTCTAATATC--TTTTCCTA--TTTTTTCCGAATTAATTTCTAATTAAATCGAA
*
586 ACCGGATTGAGATGCTC-ATAAAAA-AAATCCTTAAATTCAATGTGGCT-AGGATTTCATTAGAT
567 ACCGGATTGAGATGCTCGA-AAAAACAAATCCTTAAATTCAATGTGGCTGA-GATTTCGTTAGAT
* * * **
648 AAATATAGATATTTCAATGAGACTTGATG
630 GAATATAGATATTTCAATGAGTCATGGCG
* * * **
677 CCAAAAATCATGCAAAATTGAGAGGGGGCACCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTT
1 CCAAAAATCATGCAAAACTGAGACGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGA--ACT
* * * * ** * *
742 AGAACACAATTTCGGCTAAAATTTTGTAAAAATTTACCCGAAATAGCTTTCTTCAATTTTTGGTC
64 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTTACCCGAAAGAATTTTCCTCAATTTTTGGCC
* * * * * * *
807 ACGATACTCAT-AAAAATATGTAACTCAACGCTAAAAAGAGTGAAAGGTTTTTAACGATTCTAAT
129 ACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAAT
* * *
871 ATGGTTTTTCTATTTTT-CAAATTAATTTCTAATTAAATCGAAATATGATTCAGATGCTCGTAAA
194 ATTGATTTTCTATTTTTCCGAATTAATTTCTAATTAAATCGAAATATGATTCAGATGCTCGTAAA
* * * *
935 AGCAAATCCGTAAGTCCAATGTGGGTGAGAGTTGGTTAGATGAATATAGATATTGCAATGAGACT
259 AGCAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGACT
* * * * *
1000 TGACTCCAAAAAACATGCAAAATAGAGCCGGGGCCCGGGAACGCGTTTATAGTCAAAAACCGTGA
324 TGGCGCCAAAAATCATGCAAAACAGAGCCGGGGCCCGGGAACGCGTTTATAGT-AAAAAAC-TG-
* * * *
1065 TGGTTGGTTAGTACACGATTTCGGCTAAAATATTGCAAAAATTTGACCCGGAAAATTTCTCC-CA
386 T-GATGGTTATTACACGATTTCGGCTAAAATTTTGCAAAAATTTGACCCGAAAAATTTCTCCTC-
* * * * ** *
1129 AATTTTTGGCCACAATAGTCATAAAAACTATATACCTTAACGCCAGAAACTTTGGAGGGCTTCTC
449 AATTTTTGGCCACAATACTCATAAAAA-TATATAACTCAACGCCAAAAAGATTGAAGGGCTTCTC
* * *
1194 ATGCTTCTAATATCATTTTTCCTATTTTTTCCAAATTAATTTCTAATTAAATCGAAACCGGATGG
513 ACGCTTCTAATATC--TTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACCGGATTG
* * * *
1259 AGATGCTCGTAGAAACAAATCCTTATATTCAATGTGGCCGAGATTTCGTTAGATGAATATAGATA
576 AGATGCTCGAAAAAACAAATCCTTAAATTCAATGTGGCTGAGATTTCGTTAGATGAATATAGATA
* *
1324 TTTCAATGAGGC-TCGGCA
641 TTTCAATGAGTCAT-GGCG
* * * * ** ** *
1342 CCAAAAATCATGCAAAAGTGAGACGGGGCACCGTAACGCATTCCTCAATTTTCCTCAAGCCGTGA
1 CCAAAAATCATGCAAAACTGAGACGGGGCCCCGGAACGCGTT--T---TTAGCCAAAAACCGTGA
* * * *
1407 TGACT--TACACGATTTCGACTAAAATTTTGTAAAAATTTACCCTAAAAAATTTTCCTCAATTTT
61 --ACTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTTACCCGAAAGAATTTTCCTCAATTTT
* * *
1470 CGGCCACAATATTTAT-AAAAA-ATAT-A-T-----------A-ATTGAAAGGTTTTTCACGCTT
124 TGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAAGGTTTTTCACGCTT
* * ** *
1519 CTAATATT--TTTTTTGTTTTTTTGAATTAATTTCTAATTAAATCGAAATATGATTCAGATGTTC
189 CTAATATTGATTTTCTATTTTTCCGAATTAATTTCTAATTAAATCGAAATATGATTCAGATGCTC
* * *
1582 GTAAAAGTAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTGCAACG
254 GTAAAAGCAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTCAATG
* * * ** *
1647 AGACTTGCCACCAAAAATCATGCAAAACAGAGTCGGGGCTTGGGAACGCGTTTATAGTCAAAAAC
319 AGACTTGGCGCCAAAAATCATGCAAAACAGAGCCGGGGCCCGGGAACGCGTTTATAGTAAAAAAC
* * * * *
1712 CGTGATGGTTAGTTAGTACATGATTTCTGCTAAAATATTGCAAAAATTTGACTCG-AAAATTTCT
384 TGTGATGGTTA--T--TACACGATTTCGGCTAAAATTTTGCAAAAATTTGACCCGAAAAATTTCT
* * * * *
1776 CC-CTAATTTTTGGCTACAATACTCATAAAAACTGTATAACTCAATGCCAAAAAGTTTGGAGGGC
445 CCTC-AATTTTTGGCCACAATACTCATAAAAA-TATATAACTCAACGCCAAAAAGATTGAAGGGC
* ** * *
1840 ATCTCGTGCTTCTAATATCGTTTTCC--TTTTTTCTGAATTAATTTGTAATTAAATCGAAACCGG
508 TTCTCACGCTTCTAATATC-TTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACCGG
* * * *
1903 ATTGAAATGCTCGTAAAAACAAATCCTTAAATTCAATGTGGCTAAGATTTTGTTAGATGAATATA
572 ATTGAGATGCTCGAAAAAACAAATCCTTAAATTCAATGTGGCTGAGATTTCGTTAGATGAATATA
* *
1968 GATATTTCAATGAGACTTGGCG
637 GATATTTCAATGAGTCATGGCG
** * ** *
1990 TAAAAAATCATGCAAAACTGAGATGGGGCCCTTGAATGCGTTTTTAGCCAAAAACCGT--AC---
1 CCAAAAATCATGCAAAACTGAGACGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGAACTAG
* * * * * *
2050 -ACA--ATTTCGGCTAAAATTTTGTAAAAATTAACCTGAAAAAATTTTCCTCAATTTTTGCCCAT
66 TACACGATTTCGGCTAAAATTTTGCAAAAATTTACCCGAAAGAATTTTCCTCAATTTTTGGCCAC
* * * *
2112 GATATTCATAAAAAATATATAATTCAACTCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAATAA
131 AATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAATAT
* *
2177 TGATTTTCCTATTTTTTCGAATTAATTTCTAATTAAATCGAAATATGATTCAGATACTCGTAAAA
196 TGATTTT-CTATTTTTCCGAATTAATTTCTAATTAAATCGAAATATGATTCAGATGCTCGTAAAA
* * ** *
2242 ACAAATTTCTTAAATATAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTTAATGAGACT
260 GCAAA-TCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGACT
* * * * * *
2307 TGACACCAAAAATCATGCAAAACAGAGTCGGGGCCCTGGTATGCGTTTATAG--------T-T-A
324 TGGCGCCAAAAATCATGCAAAACAGAGCCGGGGCCCGGGAACGCGTTTATAGTAAAAAACTGTGA
*
2362 --G----TACACGATTTCGGCTAAAATTTTGCAAAAATTTGACCCGAAAAATTTCTCCCCAATTT
389 TGGTTATTACACGATTTCGGCTAAAATTTTGCAAAAATTTGACCCGAAAAATTTCTCCTCAATTT
*
2421 TTGGCCACAATACTCATAAAAA-ACGTATAACTCAATGCCAAAAAG-TTCGAAGGGCTTCTCACG
454 TTGGCCACAATACTCATAAAAATA--TATAACTCAACGCCAAAAAGATT-GAAGGGCTTCTCACG
* * * * *
2484 TTTCCAACATAGT-TTTTCCTATTCTTTTACGAATTAATTTCTAATTAAATCGAAACTGGATTGC
516 CTT-CTA-ATA-TCTTTTCCTATT-TTTTCCGAATTAATTTCTAATTAAATCGAAACCGGATTGA
* * * *
2548 GTTGCTC-ATAAAAAGAAATCCTTAAATTCAATGTGGCTCAAATTTCGTTAGATGAATATAGATA
577 GATGCTCGA-AAAAACAAATCCTTAAATTCAATGTGGCTGAGATTTCGTTAGATGAATATAGATA
* *
2612 TTTCAATGAG-AATTGGTG
641 TTTCAATGAGTCA-TGGCG
* * ** **
2630 CCAAAAAT-ATTACAAAACTAAGACGGGGCCCCGGAACGCGTTTTTAGTTAAAAAGTGTGAACGT
1 CCAAAAATCA-TGCAAAACTGAGACGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGAAC--
** * * * *
2694 TAGTACACGATTTCAACTAGAATTTTGCAAAAGTTTTCCCGAAAGAATTTTCCTGAATTTTTGG-
63 TAGTACACGATTTCGGCTAAAATTTTGCAAAAATTTACCCGAAAGAATTTTCCTCAATTTTTGGC
* * *
2758 CACGATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAAGGCTTTTCACGTTTCTAA
128 CACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAA
** * * * *
2823 TATTTG-TTTTCTAATTTTTTCCGAATTAAAATCTAATTACATCGAAACATGATTCTGATGCTTG
193 TA-TTGATTTTCT-A-TTTTTCCGAATTAATTTCTAATTAAATCGAAATATGATTCAGATGCTCG
** * *
2887 TAAAAGCACGTCCTTAAATCCAATGT-GGTGAGATTTGGTTAAATGTATATAGATATTTCAATGA
255 TAAAAGCAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTCAATGA
* * * * * * ** *
2951 GACTTGGTGCAAAAAATCATACAAAACAGAACCGGCGCCCCGGAGTGTGTTTATAGTAAAAAACT
320 GACTTGGCGCCAAAAATCATGCAAAACAGAGCCGGGGCCCGGGAACGCGTTTATAGTAAAAAACT
* * ** **
3016 GTGATGGTTATTACACGATTTCAGCTAAAATTTTGCAATAA-TTGA-CAAAAAAAAATCTCCTCA
385 GTGATGGTTATTACACGATTTCGGCTAAAATTTTGCAAAAATTTGACCCGAAAAATTTCTCCTCA
* * * * *
3079 ATTTTGGGCCAAAATACTAATAATAATATATAACTCAACGCCAGAAAGATTGAAGGGCTTCTCAC
450 ATTTTTGGCCACAATACTCATAAAAATATATAACTCAACGCCAAAAAGATTGAAGGGCTTCTCAC
* * * *
3144 GCTTCTTATATC-ATTCCTATTTTTCTCCGAATTAATTTCTTATTAAATCGAAACCGGATGGAGA
515 GCTTCTAATATCTTTTCCTATTTTT-TCCGAATTAATTTCTAATTAAATCGAAACCGGATTGAGA
* * * *
3208 TGCTTGAAAAAACAAATCCTTAAATTCAATGTGGATGAGATTTTGTTAGATGAATATAGACATTT
579 TGCTCGAAAAAACAAATCCTTAAATTCAATGTGGCTGAGATTTCGTTAGATGAATATAGATATTT
*
3273 CAAGGAGTCATGGCG
644 CAATGAGTCATGGCG
* * **
3288 CCAAAAATCATGCAAAACTGAGACGGGACCCCGGAACGCGTTTTTAGCAAAAAACCGTGATGGTT
1 CCAAAAATCATGCAAAACTGAGACGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGA--ACT
* * * *
3353 ATTACACTATTTCGGCTAAAAATTTT-CAAAAATTTACTCGAAAGAATTGTCCTCAATTTTTGGC
64 AGTACACGATTTCGGCT-AAAATTTTGCAAAAATTTACCCGAAAGAATTTTCCTCAATTTTTGGC
* * *
3417 CACAATACTCATAAAAATTATATAATTTAACTCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAA
128 CACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAA
* *
3482 TATTGATTTTCCTATTTTTCTGAATTAATTTCCAATTAAATCGAAATATGATTCAGATGCTCGTA
193 TATTGATTTT-CTATTTTTCCGAATTAATTTCTAATTAAATCGAAATATGATTCAGATGCTCGTA
* * * *
3547 AAAGCAAATACTTAAATCCAATGTGGATGAGATTTGGTTAGATGAAAATATATATTTCAATGA-A
257 AAAGCAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGA
* * * ** **** * * * *
3611 CTTGGTGCCAAAAATCATGTAAAACAGAGACATGG-CTTATAACGCGTTTTTAGTCAAAAACCGC
322 CTTGGCGCCAAAAATCATGCAAAACAGAGCCGGGGCCCGGGAACGCGTTTATAGTAAAAAACTGT
* * * * *
3675 GATGATTAAGTACAAGATTTCGGATAAAATTTTGCAAAAA-TTGACTCGAAAAAATTTCCTCCAA
387 GATGGTT-ATTACACGATTTCGGCTAAAATTTTGCAAAAATTTGACCCG-AAAAA-TT--T-C--
** ** *
3739 AAGTTTTTCTCTCAATTTTCAGCCACAATACTTGTAAAATATATATAATTCAACGCCAAAAAGAT
444 -------TC-CTCAATTTTTGGCCACAATACTCATAAAA-ATATATAACTCAACGCCAAAAAGAT
* * * * * ** *
3804 TGAAGGGTTTTTCACGTTTCTAATATCGTTTTTCAAGTTTTTTCTTAATTAATTACTAATTAAAA
500 TGAAGGGCTTCTCACGCTTCTAATATC-TTTTCCTA-TTTTTTCCGAATTAATTTCTAATT-AAA
* *** * * * * * * * * *
3869 TCAAAATAAGATTCAGATGCTCG-TAAAA-GAAT-CTGCAAATCCCATATGGATGAGATTTGGTT
562 TCGAAACCGGATTGAGATGCTCGAAAAAACAAATCCT-TAAATTCAATGTGGCTGAGATTTCGTT
*
3931 AGATGAATATAGATATTTC-ATGGAGT-ATTGGTG
626 AGATGAATATAGATATTTCAAT-GAGTCA-TGGCG
* * * * * * * *
3964 CCAAAAATCATGCAAAAGTGAGCCTGGACCCCGGAACGTGTTTTTAGCCAAGAACTGTG-A-TGG
1 CCAAAAATCATGCAAAACTGAGACGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGAACTAG
* * * **
4027 TACA-GATTTCGG-TAAAATTTTACAAAAATTTACTCAGAAAGAATTTTCCTCAATTTTTTGTAA
66 TACACGATTTCGGCTAAAATTTTGCAAAAATTTAC-CCGAAAGAATTTTCCTCAATTTTTGGCCA
* * * *
4090 CAATACTCATAAAAAAATATATAATTCAACGTCAAAAAGATTGAATGGCTTTTCATGCTTCTAAT
130 CAATACTCAT-AAAAAATATATAATTCAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAAT
* * *
4155 ATT--TTTTCCTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATGATCCAAATGCTCGTAA
194 ATTGATTTT-CTATTTTTCCGAATTAATTTCTAATTAAATCGAAATATGATTCAGATGCTCGTAA
* * * *
4218 AAACAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGGATATAGATATTTCAATTAGGC
258 AAGCAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGAC
* * * * * ** *
4283 TTGGCGCCAAAAATCATGCAAAATAGAGCCGGGTCCCCGAAACGCGTTTTTAGTCGAAAACTATG
323 TTGGCGCCAAAAATCATGCAAAACAGAGCCGGGGCCCGGGAACGCGTTTATAGTAAAAAACTGTG
* * ** * * *
4348 ATGGTTA-TACACGATTTTGGTTAAAATTTTGCAAAAA-TTGA-CTAAAAAATTCCTCATTAATT
388 ATGGTTATTACACGATTTCGGCTAAAATTTTGCAAAAATTTGACCCGAAAAATTTCTCCTCAATT
* * * * *
4410 TTCGGGCACAATACTCATAAAAATTATATAACTAAACGTCAAAAAGATTGAAGGGCTTCTTACGC
453 TTTGGCCACAATACTCATAAAAA-TATATAACTCAACGCCAAAAAGATTGAAGGGCTTCTCACGC
*
4475 TTCTAATATCGTTTTCTTTTCCTATTTTGTTCCGAATTAATTTCTAATTAAATCGAAACTGGATT
517 TTCTAATA------TCTTTTCCTATTTT-TTCCGAATTAATTTCTAATTAAATCGAAACCGGATT
* * * * *
4540 GAGATGCTCGTAAAAACAAATGCTTAAATCCAATGTGGCTAAGATTTTGTTAGATGAATATAGAT
575 GAGATGCTCGAAAAAACAAATCCTTAAATTCAATGTGGCTGAGATTTCGTTAGATGAATATAGAT
* * **
4605 ATTTGAATGAGTCTTAACG
640 ATTTCAATGAGTCATGGCG
* * * * *** * *
4624 GCAAAAA-CTACGCAAAACCGAGCCGGAATCCCGGAACGCGTTTTTAGCCAAAAACCATGATAAT
1 CCAAAAATC-ATGCAAAACTGAGACGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGA-ACT
* * * * * * * *
4688 AATACACGATTTCGGTTAGATTTTTGCAGAAATTTAACCGAAAG--TTTCTCCCCCAATTTTTAG
64 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTTACCCGAAAGAATTT-T-CCTCAATTTTTGG
* * * * * *
4751 CCACAATACTCATAAAATATATATAAATTCAATGCCAAAAATATTGAACGGCTTTTCACACTTCT
127 CCACAATACTCATAAAAAATATAT-AATTCAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCT
* * * *
4816 AATA-TCATTTATCCTATTTTTTTTCCGAATTAATTTCTTATTAAATCGAAACAAGATTCAGATG
191 AATATTGATTT-T-CTA---TTTTTCCGAATTAATTTCTAATTAAATCGAAATATGATTCAGATG
*
4880 CTCGTAAGAA--AAATCCTTAAATCCAATGTGGATGAGATTTGGTTAGATGAATATAGATATTTC
251 CTCGTAA-AAGCAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTC
* * * * ** ** * * *
4943 AAGGAGTCTTGGCGCCAAAAATTATACAAAAGTGAGCTTGGGCCTC-GGAACGTGTTTTTA-TCC
315 AATGAGACTTGGCGCCAAAAATCATGCAAAACAGAGCCGGGGCC-CGGGAACGCGTTTATAGT-A
* * * * * *
5006 AAAAA-TCGTGTTAGTTAGTACACGATTTTGGCTAAAATTTTGCAAAAATGT-ACCCGAAGGAAT
378 AAAAACT-GTGATGGTTATTACACGATTTCGGCTAAAATTTTGCAAAAATTTGACCCGAA-AAAT
* * ** *
5069 TT-TCCTCAATTTTTGGCCACGATACTCATAAAAAGTATATAATTCAACATCAAAAAGATTGAAA
441 TTCTCCTCAATTTTTGGCCACAATACTCATAAAAA-TATATAACTCAACGCCAAAAAGATTGAAG
* ** *
5133 GGCTTTTCACATTTCTAATATCGTTTTTCCTA-TTTTTCCGAATTAATTAATTTCTAATTGAATC
505 GGCTTCTCACGCTTCTAATATC--TTTTCCTATTTTTTCCG----AATTAATTTCTAATTAAATC
* *** * * * * *
5197 AAAACATAATTCAGATTCTCGTAAAAAA-AAATCCTTAAATCCAATGTGGGTGATATTT-GATTA
564 GAAACCGGATTGAGATGCTCG-AAAAAACAAATCCTTAAATTCAATGTGGCTGAGATTTCG-TTA
* *
5260 GATGGATATAGATATTTCAATGAGAT-TTGGCG
627 GATGAATATAGATATTTCAATGAG-TCATGGCG
* * * ** * * * * *
5292 CAAAAAATCATTCAAAA-TAGAGCCTAGGCCCCAGAATGCATTTTTAGTCAGAAACCGTACGTGA
1 CCAAAAATCATGCAAAACT-GAGACGGGGCCCCGGAACGCGTTTTTAGCCA-AAAAC---CGTGA
** * * * * *
5356 TGGTTAATACACGATTTCGGCTAAAATTTTGTAAAAATTGACCCGAAA-AATTTATCTTCAATTC
61 --ACTAGTACACGATTTCGGCTAAAATTTTGCAAAAATTTACCCGAAAGAATTT-TCCTCAATTT
** * ** * * * * *
5420 TTATCCATAATACTCATAAAACGTATATAACTCAACGCCAAAAAG-TTGGAATGGCTTCTCATGC
123 TTGGCCACAATACTCATAAAAAATATATAATTCAACGCCAAAAAGATT-GAAAGGTTTTTCACGC
** *
5484 TTCTAATATCGTTTTTAATTCTACCTTTTTCTGAATTAATTTCTAATTAAA
187 TTCTAATAT--TGATT--TTCTA--TTTTTCCGAATTAATTTCTAATTAAA
5535 ATATTATATT
Statistics
Matches: 4023, Mismatches: 643, Indels: 384
0.80 0.13 0.08
Matches are distributed among these distances:
635 96 0.02
636 75 0.02
637 16 0.00
638 4 0.00
639 7 0.00
640 149 0.04
642 2 0.00
643 11 0.00
645 1 0.00
646 2 0.00
648 233 0.06
649 82 0.02
650 102 0.03
651 124 0.03
652 186 0.05
653 30 0.01
654 121 0.03
655 101 0.03
656 1 0.00
657 28 0.01
658 357 0.09
659 140 0.03
660 105 0.03
661 39 0.01
662 41 0.01
663 23 0.01
664 159 0.04
665 120 0.03
666 70 0.02
667 76 0.02
668 302 0.08
669 98 0.02
670 242 0.06
671 231 0.06
672 190 0.05
673 141 0.04
674 105 0.03
675 61 0.02
676 104 0.03
677 24 0.01
678 24 0.01
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (658 bp):
CCAAAAATCATGCAAAACTGAGACGGGGCCCCGGAACGCGTTTTTAGCCAAAAACCGTGAACTAG
TACACGATTTCGGCTAAAATTTTGCAAAAATTTACCCGAAAGAATTTTCCTCAATTTTTGGCCAC
AATACTCATAAAAAATATATAATTCAACGCCAAAAAGATTGAAAGGTTTTTCACGCTTCTAATAT
TGATTTTCTATTTTTCCGAATTAATTTCTAATTAAATCGAAATATGATTCAGATGCTCGTAAAAG
CAAATCCTTAAATCCAATGTGGGTGAGATTTGGTTAGATGAATATAGATATTTCAATGAGACTTG
GCGCCAAAAATCATGCAAAACAGAGCCGGGGCCCGGGAACGCGTTTATAGTAAAAAACTGTGATG
GTTATTACACGATTTCGGCTAAAATTTTGCAAAAATTTGACCCGAAAAATTTCTCCTCAATTTTT
GGCCACAATACTCATAAAAATATATAACTCAACGCCAAAAAGATTGAAGGGCTTCTCACGCTTCT
AATATCTTTTCCTATTTTTTCCGAATTAATTTCTAATTAAATCGAAACCGGATTGAGATGCTCGA
AAAAACAAATCCTTAAATTCAATGTGGCTGAGATTTCGTTAGATGAATATAGATATTTCAATGAG
TCATGGCG
Found at i:5638 original size:27 final size:26
Alignment explanation
Indices: 5603--5668 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 26
5593 AAAAATACAC
*
5603 AAAATTATATTTTAATATTGGCATAGTT
1 AAAA-TATATTTTAATAATGGCA-AGTT
*
5631 AAAATATATTTTAATAATGGCAATTT
1 AAAATATATTTTAATAATGGCAAGTT
5657 AGAAATATATTT
1 A-AAATATATTT
5669 AAAAAAATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 4 0.11
27 27 0.77
28 4 0.11
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (26 bp):
AAAATATATTTTAATAATGGCAAGTT
Found at i:5692 original size:96 final size:95
Alignment explanation
Indices: 5592--5770 Score: 252
Period size: 96 Copynumber: 1.9 Consensus size: 95
5582 ATATATTTGC
* * * * *
5592 AAAAAATACACAAAATTATATTTTAATATTGGCATAGTTAAAATATATTTTAATAATGGCAATTT
1 AAAAAATACACAAAATTATACTTTAATAATGACATAATTAAAATA-A-TTTAATAATGACAATTT
*
5657 AGAAATATATTT-AAAAAAATGATACAATGTG
64 AAAAATATATTTGAAAAAAATGATACAATGTG
* * *
5688 AAAAAATACATAAAATTATGCTTTAATAATGACATAATTAAAATAATTTAATAATGATAATTTAA
1 AAAAAATACACAAAATTATACTTTAATAATGACATAATTAAAATAATTTAATAATGACAATTTAA
5753 AAATATATTTGAAAAAAA
66 AAATATATTTGAAAAAAA
5771 GGGATAATAT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
94 26 0.36
95 8 0.11
96 39 0.53
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (95 bp):
AAAAAATACACAAAATTATACTTTAATAATGACATAATTAAAATAATTTAATAATGACAATTTAA
AAATATATTTGAAAAAAATGATACAATGTG
Found at i:5755 original size:25 final size:25
Alignment explanation
Indices: 5709--5762 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 25
5699 AAAATTATGC
5709 TTTAATAATGACATAATTAAAATA-A
1 TTTAATAATGA-ATAATTAAAATATA
5734 TTTAATAATG-ATAATTTAAAAATATA
1 TTTAATAATGAATAA-TT-AAAATATA
5760 TTT
1 TTT
5763 GAAAAAAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.15
24 2 0.08
25 16 0.62
26 4 0.15
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (25 bp):
TTTAATAATGAATAATTAAAATATA
Found at i:8842 original size:22 final size:22
Alignment explanation
Indices: 8824--8864 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8814 TAATATATTT
8824 TTGCAATATA-TATAGTATAGC
1 TTGCAATATAGTATAGTATAGC
*
8845 TTGCCATATAGTATAGTATA
1 TTGCAATATAGTATAGTATA
8865 CTATAGCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (22 bp):
TTGCAATATAGTATAGTATAGC
Found at i:10249 original size:21 final size:24
Alignment explanation
Indices: 10220--10270 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
10210 TTTTGAACTC
10220 ATTATT-TATTATTTAA-AATATAT
1 ATTATTAT-TTATTTAATAATATAT
10243 -TTATTATTTATTTAATAATATAT
1 ATTATTATTTATTTAATAATATAT
10266 ATTAT
1 ATTAT
10271 ATCTAAGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.52
23 8 0.32
24 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTATTATTTATTTAATAATATAT
Found at i:10265 original size:25 final size:25
Alignment explanation
Indices: 10220--10268 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
10210 TTTTGAACTC
*
10220 ATTATTTATTATTTAAAATATATTT
1 ATTATTTATTATATAAAATATATTT
*
10245 ATTATTTATT-TAATAATATATATT
1 ATTATTTATTAT-ATAAAATATATT
10269 ATATCTAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTATTTATTATATAAAATATATTT
Found at i:12015 original size:114 final size:114
Alignment explanation
Indices: 11857--12066 Score: 305
Period size: 114 Copynumber: 1.8 Consensus size: 114
11847 CACGTTGACT
* * * *
11857 ATATTCGATAATCACATTGAATTCCGATTAGTCTGAAATGGAGCCACATCGACCCCATTCAACTC
1 ATATTCGATAATCACATTGAATTCCGATTAATCCGAAATGGAGCCACATCAACCCCATTCAACCC
* *
11922 ATATGTCATTTCCCGTTGTTTGTCAATGCCATTTTTTGGTACTAACTTCG
66 ATATGCCATTTCCC-CTGTTTGTCAATGCCATTTTTTGGTACTAACTTCG
* * **
11972 ATATTCGATAATCACATTGAGTT-CGATTAATCCGAAATTGAGCCACATCAACCCCATTGGACCC
1 ATATTCGATAATCACATTGAATTCCGATTAATCCGAAATGGAGCCACATCAACCCCATTCAACCC
*
12036 ATATGCCATTTCCCCTGTTTTTCAATGCCAT
66 ATATGCCATTTCCCCTGTTTGTCAATGCCAT
12067 GATTCTTCTA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
113 15 0.18
114 47 0.56
115 22 0.26
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (114 bp):
ATATTCGATAATCACATTGAATTCCGATTAATCCGAAATGGAGCCACATCAACCCCATTCAACCC
ATATGCCATTTCCCCTGTTTGTCAATGCCATTTTTTGGTACTAACTTCG
Found at i:26218 original size:15 final size:15
Alignment explanation
Indices: 26198--26236 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
26188 GTTTAGTACC
26198 AAAAAGAGGAAAAAA
1 AAAAAGAGGAAAAAA
* *
26213 AAAAAGAAGAAGAAA
1 AAAAAGAGGAAAAAA
26228 AAAAAGAGG
1 AAAAAGAGG
26237 TTGCTCTGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AAAAAGAGGAAAAAA
Found at i:30819 original size:27 final size:27
Alignment explanation
Indices: 30781--30890 Score: 116
Period size: 27 Copynumber: 3.9 Consensus size: 27
30771 GTTCGAGTCG
*
30781 TTGCCTGTTGGTAGACTCACCCACCCC
1 TTGCCTATTGGTAGACTCACCCACCCC
30808 TTGCCTATTGGTAGACTCACCCACCAAACCC
1 TTGCCTATTGGTAGACTCACCCA-C---CCC
* **
30839 AGGTG-C-AAAGGTAGACTCACCCACCCC
1 --TTGCCTATTGGTAGACTCACCCACCCC
30866 TTGCCTATTGGTAGACTCACCCACC
1 TTGCCTATTGGTAGACTCACCCACC
30891 AAACCCAGGT
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
25 2 0.03
26 1 0.01
27 42 0.62
28 1 0.01
30 1 0.01
31 18 0.26
32 1 0.01
33 2 0.03
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.22
Consensus pattern (27 bp):
TTGCCTATTGGTAGACTCACCCACCCC
Found at i:30880 original size:58 final size:58
Alignment explanation
Indices: 30790--30905 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
30780 GTTGCCTGTT
30790 GGTAGACTCACCCACCCCTTGCCTATTGGTAGACTCACCCACCAAACCCAGGTGCAAA
1 GGTAGACTCACCCACCCCTTGCCTATTGGTAGACTCACCCACCAAACCCAGGTGCAAA
30848 GGTAGACTCACCCACCCCTTGCCTATTGGTAGACTCACCCACCAAACCCAGGTGCAAA
1 GGTAGACTCACCCACCCCTTGCCTATTGGTAGACTCACCCACCAAACCCAGGTGCAAA
30906 ACCCGGGTCG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.28, C:0.38, G:0.17, T:0.17
Consensus pattern (58 bp):
GGTAGACTCACCCACCCCTTGCCTATTGGTAGACTCACCCACCAAACCCAGGTGCAAA
Found at i:48027 original size:6 final size:6
Alignment explanation
Indices: 48016--48041 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48006 TTTAGTAGTT
48016 GAATCG GAATCG GAATCG GAATCG GA
1 GAATCG GAATCG GAATCG GAATCG GA
48042 TGCTTTGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.35, T:0.15
Consensus pattern (6 bp):
GAATCG
Found at i:60771 original size:14 final size:15
Alignment explanation
Indices: 60752--60784 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
60742 CTTAATCAAG
60752 AAAAAAAT-GAAA-T
1 AAAAAAATGGAAACT
60765 AAAAAAATGGAAACT
1 AAAAAAATGGAAACT
60780 AAAAA
1 AAAAA
60785 TTATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 4 0.22
15 6 0.33
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (15 bp):
AAAAAAATGGAAACT
Found at i:93964 original size:58 final size:58
Alignment explanation
Indices: 93894--94006 Score: 190
Period size: 58 Copynumber: 1.9 Consensus size: 58
93884 AATGTGGGAT
* *
93894 ATTACCATTCTAGCACGCCCCCTCACGTGTAGCCTGGGACAACACTGAAACAGAATGG
1 ATTACCATTCTAGCACGCCCACTCACGTGTAGCCTGGGACAACACCGAAACAGAATGG
* *
93952 ATTACCATTCTAGCACGCCCATTCACGTGTAGTCTGGGACAACACCGAAACAGAA
1 ATTACCATTCTAGCACGCCCACTCACGTGTAGCCTGGGACAACACCGAAACAGAA
94007 CGGACCTACA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.19
Consensus pattern (58 bp):
ATTACCATTCTAGCACGCCCACTCACGTGTAGCCTGGGACAACACCGAAACAGAATGG
Found at i:98949 original size:30 final size:30
Alignment explanation
Indices: 98913--98974 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
98903 CTTATATACA
*
98913 TGAAAAACCTCTGGCC-ATTCGATTTTAGAT
1 TGAAAAACCTCTGACCAATT-GATTTTAGAT
98943 TGAAAAACCTCTGACCAATTGATTTTAGAT
1 TGAAAAACCTCTGACCAATTGATTTTAGAT
98973 TG
1 TG
98975 GATGCTTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (30 bp):
TGAAAAACCTCTGACCAATTGATTTTAGAT
Found at i:100838 original size:24 final size:25
Alignment explanation
Indices: 100801--100878 Score: 57
Period size: 24 Copynumber: 3.5 Consensus size: 25
100791 CTTTGTTTAA
* *
100801 ATTTGTATCTAAATTTTATGAATTG
1 ATTTGCATGTAAATTTTATGAATTG
100826 ATTTG-ATGTAAA--TT-T-AA---
1 ATTTGCATGTAAATTTTATGAATTG
* *
100843 ATTTGCATTTAAATTTTAGGAATTG
1 ATTTGCATGTAAATTTTATGAATTG
100868 ATTTG-ATGTAA
1 ATTTGCATGTAA
100879 CACAATTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 17
0.66 0.06 0.27
Matches are distributed among these distances:
17 5 0.12
18 6 0.15
20 4 0.10
21 1 0.02
22 4 0.10
24 11 0.27
25 10 0.24
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.49
Consensus pattern (25 bp):
ATTTGCATGTAAATTTTATGAATTG
Found at i:100843 original size:42 final size:42
Alignment explanation
Indices: 100796--100878 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
100786 CTAAACTTTG
* *
100796 TTTAAATTTGTATCTAAATTTTATGAATTGATTTGATGTAAA
1 TTTAAATTTGCATCTAAATTTTAGGAATTGATTTGATGTAAA
*
100838 TTTAAATTTGCATTTAAATTTTAGGAATTGATTTGATGTAA
1 TTTAAATTTGCATCTAAATTTTAGGAATTGATTTGATGTAA
100879 CACAATTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.49
Consensus pattern (42 bp):
TTTAAATTTGCATCTAAATTTTAGGAATTGATTTGATGTAAA
Found at i:112782 original size:1 final size:1
Alignment explanation
Indices: 112724--112768 Score: 90
Period size: 1 Copynumber: 45.0 Consensus size: 1
112714 TCCAACTCTC
112724 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
112769 CCCTTTTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:127697 original size:18 final size:20
Alignment explanation
Indices: 127663--127704 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
127653 AAAATGCACA
*
127663 TTAAACAATGTAATCTTCAG
1 TTAAACAATGTAATCTTAAG
127683 TTAAACAA-G-AATCTTAAG
1 TTAAACAATGTAATCTTAAG
127701 TTAA
1 TTAA
127705 GGTACAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.57
19 1 0.05
20 8 0.38
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (20 bp):
TTAAACAATGTAATCTTAAG
Found at i:130305 original size:31 final size:31
Alignment explanation
Indices: 130270--130354 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 31
130260 TGTATATATC
*
130270 ATTAATTATTAATTAATATTAATGACGTATT
1 ATTAATTATTAATTAATATTAATGACGTAAT
* *
130301 ATTAATTATTAATTGATATTAACGACGTAAT
1 ATTAATTATTAATTAATATTAATGACGTAAT
*
130332 A-TAATATATATAA-TAATAATAAT
1 ATTAAT-TAT-TAATTAATATTAAT
130355 AATAAAATGG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
30 4 0.09
31 39 0.85
32 3 0.07
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.44
Consensus pattern (31 bp):
ATTAATTATTAATTAATATTAATGACGTAAT
Found at i:140919 original size:84 final size:84
Alignment explanation
Indices: 140778--141193 Score: 636
Period size: 84 Copynumber: 5.0 Consensus size: 84
140768 CTGGTTTGGA
* * * * * *
140778 CTTCTAGGCATTTGCGTATTCATCTGATTAGCATTCTGATGCTGAGGATAGCTCTGATTCTGCTG
1 CTTCTGGGCATTTGTGTATTCGTCTGATTAGCATTCTGATGTTGAGCATAGCCCTGATTCTGCTG
140843 GGGATTCCATTGATTCGGG
66 GGGATTCCATTGATTCGGG
140862 CTTCTGGGCATTTGTGTATTCGTCTGATTAGCATTCTGATGTTGAGCATAGCCCTGATTCTGCTG
1 CTTCTGGGCATTTGTGTATTCGTCTGATTAGCATTCTGATGTTGAGCATAGCCCTGATTCTGCTG
140927 GGGATTCCATTGATTCGGG
66 GGGATTCCATTGATTCGGG
*
140946 CTTCTGGGCATTTGTGTATTCGTCTGGTTAGCATTCTGATGTTGAGCATAGCCCTGATTCTGCTG
1 CTTCTGGGCATTTGTGTATTCGTCTGATTAGCATTCTGATGTTGAGCATAGCCCTGATTCTGCTG
141011 GGGATTCCATTGATTCGGG
66 GGGATTCCATTGATTCGGG
* * * *
141030 CTTCTGGGCATTTGTGTGTTCGTCTGATTAGCATTCTGAAGTTGAGTATAGCCTTGATTCTGCTG
1 CTTCTGGGCATTTGTGTATTCGTCTGATTAGCATTCTGATGTTGAGCATAGCCCTGATTCTGCTG
*
141095 GGGATTCCATTGATTAGGG
66 GGGATTCCATTGATTCGGG
* * * * * * *
141114 CTTCTGGGCATTTGAGTATTCATCTGATTAGCATTTTCGA-ATTGAGAATAACTCTGATTCTGCT
1 CTTCTGGGCATTTGTGTATTCGTCTGATTAGCATTCT-GATGTTGAGCATAGCCCTGATTCTGCT
*
141178 GGGGATTCCACTGATT
65 GGGGATTCCATTGATT
141194 AGGATTACGG
Statistics
Matches: 308, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
84 306 0.99
85 2 0.01
ACGTcount: A:0.17, C:0.18, G:0.26, T:0.38
Consensus pattern (84 bp):
CTTCTGGGCATTTGTGTATTCGTCTGATTAGCATTCTGATGTTGAGCATAGCCCTGATTCTGCTG
GGGATTCCATTGATTCGGG
Found at i:141246 original size:21 final size:21
Alignment explanation
Indices: 141216--141256 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
141206 TTCTCGTTGT
* * *
141216 GGATACCCCTGTCCTTGATTG
1 GGATAACCCTGACCCTGATTG
141237 GGATAACCCTGACCCTGATT
1 GGATAACCCTGACCCTGATT
141257 AGGAGGGTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
GGATAACCCTGACCCTGATTG
Found at i:142158 original size:22 final size:23
Alignment explanation
Indices: 142116--142159 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
142106 TAACAAAGTA
142116 AAATTACAATAAGTCTTTTTTTAT
1 AAATTACAATAAG-CTTTTTTTAT
*
142140 AAATTTCAATAA-CTTTTTTT
1 AAATTACAATAAGCTTTTTTT
142160 TCTTCCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.52
Consensus pattern (23 bp):
AAATTACAATAAGCTTTTTTTAT
Done.