Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010881.1 Corchorus capsularis cultivar CVL-1 contig10902, 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: 17997
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Found at i:783 original size:324 final size:321
Alignment explanation
Indices: 1--2803 Score: 3031
Period size: 321 Copynumber: 8.6 Consensus size: 321
* * * *
1 CTCAA-TTTTTGCCACAATACTCAG-AAAAATATACAATTCATCACC-AAAATATTGACGGGTTT
1 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGGGCTT
* * * * * *
63 TTCACACTTGTAATATCATTTTTCAATTTTTTTCCCCGAAATAATATCTAATTAAATCGAAGCAA
66 TTCACGCTTCTAATATCGTTTTTCAATTTTTTT--CTGAAATAATTTCTAATTAAATCGAAACAA
** *
128 GATTCAGATGCTCTTAAAAACAAATTTTTAAATCCATTGTGTCTAATATTTGGTTAGAAGAATAT
129 GATTCAGATGCTCTTAAAAACAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTAGAAGAATAT
* * *
193 ATATATTTCAAGGAGTCTTTCAGCTAAAAATCTTACATAACTGAGCCGGGGCCCCGAAACGCGTT
194 ATATATTCCAAGGAGTCTTTCTGCTAAAAATCTTGCATAACTGAGCCGGGG-CCCGAAACGCGTT
* * * *
258 TTTATGCCAAAAACCGTAATAGTTAGTACACGATTTCGGTTAAAAATTTACCCGAAAATTTTTTT
258 TTTATGCCAAAAACCGTGAT-GGTAGTACACGATTTCGGCTAAAAATTGACCCGAAAA--TTTTT
323 TT
320 TT
* * * *
325 CTTAATTTTTTGCCAAAATACTCAGAAAAAATATACAATTCAACACCAAAAAGTTTGACGGGCTT
1 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGGGCTT
* *
390 TTCACGCTTCTAATATCGTTTTTCAATTTTTTTCTGAAATAAATTCTAATTAAATCCAAACAAGA
66 TTCACGCTTCTAATATCGTTTTTCAATTTTTTTCTGAAATAATTTCTAATTAAATCGAAACAAGA
* *
455 TTCAGATACTCTTAAAAATAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTAGAAGAATATAT
131 TTCAGATGCTCTTAAAAACAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTAGAAGAATATAT
* * * ** * ** *
520 ATAATCCAAGGAGCCTTTATGCTAAAAATCTTAAAAAACTGAGTTGGGGTCCCGAAACGTGTTTT
196 ATATTCCAAGGAGTCTTTCTGCTAAAAATCTTGCATAACTGAGCCGGGG-CCCGAAACGCGTTTT
* * * *
585 TATGGCAAAAACCGTGATGGTAGAACACGATTTTCGGCTAAAAATTGTCTCGAAAATTTTTTTT
260 TATGCCAAAAACCGTGATGGTAGTACACGA-TTTCGGCTAAAAATTGACCCGAAAA-TTTTTTT
*
649 CTCAATTTTTTGCCACAATACTCAGAAGAAATATATTAA-TCAACACCAAAAAGATTGACGGGCT
1 CTCAATTTTTTGCCACAATACTCAGAAAAAATATA-TAATTCAACACCAAAAAGATTGACGGGCT
* * *
713 TTTCACGGTTCTAATATTGTTTTTCAATTTTTTTCTGAAATAATTTCTAATTAAATCCAAACAAG
65 TTTCACGCTTCTAATATCGTTTTTCAATTTTTTTCTGAAATAATTTCTAATTAAATCGAAACAAG
* * **
778 ATTCAGATGCTCTTAAAAATAAATCTTTAAATCCATCATGTCTAAGATTTGGTTAGAAGAATATA
130 ATTCAGATGCTCTTAAAAACAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTAGAAG-----A
* * *
843 TATATATATATTCCAAGGAGTCTTTTTGCTAAAAATCTTACACAACTGAGCCGGGGCCCCGAAAC
190 -ATATATATATTCCAAGGAGTCTTTCTGCTAAAAATCTTGCATAACTGAGCCGGGG-CCCGAAAC
** * * * * *
908 AAGTTTTTATGCCAAAAACTGTGATGGTTTA-TGCATGATTTTCGGCTAGAAATTGACCCGAAAT
253 GCGTTTTTATGCCAAAAACCGTGATGG--TAGTACACGA-TTTCGGCTAAAAATTGACCCGAAAA
972 TTTTTTT
315 TTTTTTT
*
979 CACAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGGGCTT
1 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGGGCTT
* * *
1044 TTCACGCTTTTAGTATCGTTTTTCAATTTTTTTCCGAAATAATTTCTAATTAAATCGAAACAAGA
66 TTCACGCTTCTAATATCGTTTTTCAATTTTTTTCTGAAATAATTTCTAATTAAATCGAAACAAGA
* * * *
1109 TTCAGATGCTCCTAAAAATAATTCCTTAAATCCATTGTGTCTAAGATTTTGTTAGAAGAATATAT
131 TTCAGATGCTCTTAAAAACAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTAGAAGAATATAT
**
1174 ATATTCCAAGGAGTCTTTCTGCTAAAAATCTTGCATAACTGAGCCGGGGCCCCTAACGCGTTTTT
196 ATATTCCAAGGAGTCTTTCTGCTAAAAATCTTGCATAACTGAGCCGGGGCCCGAAACGCGTTTTT
* **
1239 ATGCCAAAAACCGTGAT--AACGTACTTGATTTTCGGCTAAAAATTGACCCGAAAATTTTTTT
261 ATGCCAAAAACCGTGATGGTA-GTACACGA-TTTCGGCTAAAAATTGACCCGAAAATTTTTTT
* * * *
1300 CTCAATTTTTTGCCACAATTCTCAGAAAAAATATATAATTCATCACCAAAAATATTGACGGGTTT
1 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGGGCTT
* * *
1365 TTCACACTTCTAATATCGTTTTTCAATTTTTTCCCT-AAATAATTTCTAATTAAATCGAAGCAAG
66 TTCACGCTTCTAATATCGTTTTTCAATTTTTT-TCTGAAATAATTTCTAATTAAATCGAAACAAG
*
1429 ATTCAGATGCTCTTAAAAACAAATCCTTAAATCTATTGTGTCTAAGATTTGGTTAGAAGAATATA
130 ATTCAGATGCTCTTAAAAACAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTAGAAGAATATA
* * * ** * *
1494 GATATTCGAAGGAGTCTTTCTACCGAAAATCTTGCATAACTGAGTCGGGTCCCCGAAACGCG-TT
195 TATATTCCAAGGAGTCTTTCTGCTAAAAATCTTGCATAACTGAGCCGGG-GCCCGAAACGCGTTT
* * * *
1558 TTATGCCAAAAACAGGGATTGTTAGTACACGATTTCGGCTAAAAATTGACCCGAAAAGTTTTTT
259 TTATGCCAAAAACCGTGA-TGGTAGTACACGATTTCGGCTAAAAATTGACCCGAAAATTTTTTT
*
1622 CTCAATTTTTT-CCTACAATACTCAGAAAAAATATATAATTCAATACACAAAAAGATTGACGGGC
1 CTCAATTTTTTGCC-ACAATACTCAGAAAAAATATATAATTCAACAC-CAAAAAGATTGACGGGC
* *
1686 TTTTCACGCTTCTAATATCGTTTTTCAATTATTTTTTTCCGAATTAATTTCTAATTAAATCGAAA
64 TTTTCACGCTTCTAATATCGTTTTTC-A--ATTTTTTTCTGAAATAATTTCTAATTAAATCGAAA
* * * *
1751 CAACATTCAGATACTCATAAAAACAAATCCTTAAATCCATTGTGCCTAAGATTTGGTTAGATA-A
126 CAAGATTCAGATGCTCTTAAAAACAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTAGA-AGA
* * * *
1815 ATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCTTGCATAACTGAGCAGGGGCCACGAAACG
190 ATATATATATTCCAAGGAGTCTTTCTGCTAAAAATCTTGCATAACTGAGCCGGGGCC-CGAAACG
* * * * *
1880 CGTTTTTATGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGGCACGGAAA-GT
254 CGTTTTTATGCCAAAAACCGTGATGG-TAGTACACGATTTCGGCTAAAAATTGACCCGAAAATTT
1944 TTTT
318 TTTT
* * * * * *
1948 CTCAATTTTTTGCCTCAATACTCAGAAAAAATATATTATTCAATACCAAAACGATTAACGGGTTT
1 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGGGCTT
* * * *
2013 TTTACGTTTCTAATATCGTTTTTCAATTTTTTTC-CAAATTAATTTCT-TTTAAATCGAAACAAG
66 TTCACGCTTCTAATATCGTTTTTCAATTTTTTTCTGAAA-TAATTTCTAATTAAATCGAAACAAG
*
2076 ATTCAGATGCT-TATAAAAACAAATCCTTAAATCCATTATGCGGTATGCCTAAGATTTGGTTAGA
130 ATTCAGATGCTCT-TAAAAACAAATCCTTAAATCCA-T-T---G--TGTCTAAGATTTGGTTAGA
* * * * * * * * *
2140 TGAATATAGATATTTCAAGGAGTCTTTCTGCCATAATTCATGCAAAACTGAGCCGGGGCCCCATA
187 AGAATATATATATTCCAAGGAGTCTTTCTGCTAAAAATCTTGCATAACTGAGCCGGGGCCCGA-A
* ** * *
2205 ATGCACTTTTATGCCAAAAACCATGATGGTTAGTATACGATTTCGGCTAAAAATTGACCCGAAGA
251 ACGCGTTTTTATGCCAAAAACCGTGATGG-TAGTACACGATTTCGGCTAAAAATTGACCCGAA-A
*
2270 GTTTTTTT
314 ATTTTTTT
* * * * **
2278 CTCAA-TTTTTGCCACAATACTAAGAAAAAATATATAATTCCACACC-AAAAGTATTGTCCGATT
1 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAG-ATTGACGGGCT
* * * * * *
2341 TTTAACACTTCTAATATTGTTTTTCAATTTTTTTTTCTGAATTAACTTCTAATTAAATCGAAATA
65 TTTCACGCTTCTAATATCGTTTTTCAA--TTTTTTTCTGAAATAATTTCTAATTAAATCGAAACA
* * * * *
2406 AGATTTAGATGCTCGTAAAAGCAAATCCTTAAATTCAATGTCG-CTAAGATCTT-GTTAGATA-A
128 AGATTCAGATGCTCTTAAAAACAAATCCTTAAATCCATTGT-GTCTAAGAT-TTGGTTAGA-AGA
** * * **
2468 ATAT-TGATATTTAAAGGA--CTTTC-G-TCAAAAATCTTGCAAAACTGAGTCGAGACCCCGAAA
190 ATATAT-ATATTCCAAGGAGTCTTTCTGCT-AAAAATCTTGCATAACTGAGCCG-GGGCCCGAAA
* * * * * * * *
2528 CGCGTTTTTA-GTCAAAAACTGTAATGGTTAATACTCAATTTCGGTTAAAATTTTGCAAAAACTA
252 CGCGTTTTTATGCCAAAAACCGTGATGG-TAGTACACGATTTCGGCTAAAA-ATTG---------
* * *
2592 ACCCCAAACATTTTCTC
306 ACCCGAAA-ATTTTTTT
* * * * * * * *
2609 CTCAATTTTTGGCCAAAATACTC-GTAAAAAATATTTAATTCAACGCTAATAAGATTGAAGGTCT
1 CTCAATTTTTTGCCACAATACTCAG-AAAAAATATATAATTCAACACCAAAAAGATTGACGGGCT
* * * * * * * *
2673 TTTTA-GCCTTCTATTATAGATTTGTCTATTTTTTGT-TGAATTACTTTCTGATTAAATCGAAAC
65 TTTCACG-CTTCTAATATCG-TTTTTCAATTTTTT-TCTGAAATAATTTCTAATTAAATCGAAAC
* * * * * * *
2736 ATGATTTAGATACTCATAAAAACAAATCCTTAAACCCAATGTGTATGAA-ATTTGGTTAGACA-A
127 AAGATTCAGATGCTCTTAAAAACAAATCCTTAAATCCATTGTGTCT-AAGATTTGGTTAGA-AGA
2799 ATATA
190 ATATA
2804 GACATTTCAA
Statistics
Matches: 2130, Mismatches: 271, Indels: 148
0.84 0.11 0.06
Matches are distributed among these distances:
319 1 0.00
321 354 0.17
322 132 0.06
323 85 0.04
324 250 0.12
325 270 0.13
326 215 0.10
327 99 0.05
328 131 0.06
329 71 0.03
330 271 0.13
331 138 0.06
332 103 0.05
333 10 0.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (321 bp):
CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGGGCTT
TTCACGCTTCTAATATCGTTTTTCAATTTTTTTCTGAAATAATTTCTAATTAAATCGAAACAAGA
TTCAGATGCTCTTAAAAACAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTAGAAGAATATAT
ATATTCCAAGGAGTCTTTCTGCTAAAAATCTTGCATAACTGAGCCGGGGCCCGAAACGCGTTTTT
ATGCCAAAAACCGTGATGGTAGTACACGATTTCGGCTAAAAATTGACCCGAAAATTTTTTT
Found at i:1339 original size:20 final size:21
Alignment explanation
Indices: 1316--1354 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1306 TTTTTGCCAC
*
1316 AATTC-TCAGAAAAAATATAT
1 AATTCATCACAAAAAATATAT
*
1336 AATTCATCACCAAAAATAT
1 AATTCATCACAAAAAATAT
1355 TGACGGGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.54, C:0.15, G:0.03, T:0.28
Consensus pattern (21 bp):
AATTCATCACAAAAAATATAT
Found at i:1633 original size:654 final size:645
Alignment explanation
Indices: 1--2546 Score: 2988
Period size: 654 Copynumber: 3.9 Consensus size: 645
* *
1 CTCAA-TTTTTGCCACAATACTCAG-AAAAATATACAATTCATCACC-AAAATATTGACGGGTTT
1 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCATCACCAAAAAGATTGACGGGTTT
* * * * *
63 TTCACACTTGTAATATCATTTTTCAATTTTTTTCCCCGAAATAATATCTAATTAAATCGAAGCAA
66 TTCACACTTCTAATATCGTTTTTCAA-TTTTTT-CCCTAAATAATTTCTAATTAAATCGAAACAA
** * *
128 GATTCAGATGCTCTTAAAAACAAATTTTTAAATCCATTGTGTCTAATATTTGGTTAGAAGAATAT
129 GATTCAGATGCTCTTAAAAACAAATCCTTAAATCCATTATGTCTAAGATTTGGTTAGAAGAATAT
* *
193 ATATATTTCAAGGAGTCTTTC-AGCTAAAAATCTTACATAACTGAGCCGGGGCCCCGAAACGCGT
194 AGATATTTCAAGGAGTCTTTCTA-CCAAAAATCTTACATAACTGAGCCGGGGCCCCGAAACGCGT
* * * * *
257 TTTTATGCCAAAAACCGTAATAGTTAGTACACGATTTCGGTTAAAAATTTACCCGAAAATTTTTT
258 TTTTATGCCAAAAACAGTGATGGTTAGTACACGATTTCGGCTAAAAATTGACCCGAAAATTTTTT
* * * *
322 TTTCTT-AATTTTTTGCCAAAATACTCAGAAAAAATATACAATTCAACACCAAAAAGTTTGACGG
323 TTTTTTCAA-TTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGG
* * *
386 GCTTTTCACGCTTCTAATATCGTTTTTCAATTTTTTTCTGAAATAAATTCTAATTAAATCCAAAC
387 GCTTTTCACGCTTCTAATATCGTTTTTCAATTTTTTTCCGAAATAATTTCTAATTAAATCGAAAC
* *
451 AAGATTCAGATACTCTTAAAAATAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTAGA-AGAA
452 AAGATTCAGATACTCATAAAAACAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTAGATA-AA
* * * ** ** * *
515 TATATATAATCCAAGGAGCCTTTATGCTAAAAATCTTAAAAAACTGAGTTGGGGTCCCGAAACGT
516 TATATATATTCCAAGGAGTCTTTCTGCTAAAAATCTTGCAAAACTGAGCCGGGG-CCCCAAACGC
* * * *
580 GTTTTTATGGCAAAAACCGTGATGGTAGAACACGATTTTCGGCTAAAAATTGTCTCGAAAATTTT
580 GTTTTTATGCCAAAAACCGTGAT--TAGTACACGATTTTCGGCTAAAAATTGACACGAAAA-TTT
645 TTTT
642 TTTT
* * *
649 CTCAATTTTTTGCCACAATACTCAGAAGAAATATATTAA-TCAACACCAAAAAGATTGACGGGCT
1 CTCAATTTTTTGCCACAATACTCAGAAAAAATATA-TAATTCATCACCAAAAAGATTGACGGGTT
** * * *
713 TTTCACGGTTCTAATATTGTTTTTCAATTTTTT-TCTGAAATAATTTCTAATTAAATCCAAACAA
65 TTTCACACTTCTAATATCGTTTTTCAATTTTTTCCCT-AAATAATTTCTAATTAAATCGAAACAA
* * *
777 GATTCAGATGCTCTTAAAAATAAATCTTTAAATCCATCATGTCTAAGATTTGGTTAGAAGAATAT
129 GATTCAGATGCTCTTAAAAACAAATCCTTAAATCCATTATGTCTAAGATTTGGTTAGAAG---A-
* * * * *
842 ATATATATATATTCCAAGGAGTCTTTTTGCTAAAAATCTTACACAACTGAGCCGGGGCCCCGAAA
190 ATATAGATAT-TT-CAAGGAGTCTTTCTACCAAAAATCTTACATAACTGAGCCGGGGCCCCGAAA
** * * * *
907 CAAGTTTTTATGCCAAAAACTGTGATGGTTTA-TGCATGATTTTCGGCTAGAAATTGACCCG-AA
253 CGCGTTTTTATGCCAAAAACAGTGATGG-TTAGTACACGA-TTTCGGCTAAAAATTGACCCGAAA
**
970 A--TTTTTTTTCACAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGA
316 ATTTTTTTTTTTTCAA-TTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGA
* *
1033 TTGACGGGCTTTTCACGCTTTTAGTATCGTTTTTCAATTTTTTTCCGAAATAATTTCTAATTAAA
380 TTGACGGGCTTTTCACGCTTCTAATATCGTTTTTCAATTTTTTTCCGAAATAATTTCTAATTAAA
* * * * *
1098 TCGAAACAAGATTCAGATGCTCCTAAAAATAATTCCTTAAATCCATTGTGTCTAAGATTTTGTTA
445 TCGAAACAAGATTCAGATACTCATAAAAACAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTA
*
1163 GA-AGAATATATATATTCCAAGGAGTCTTTCTGCTAAAAATCTTGCATAACTGAGCCGGGGCCCC
510 GATA-AATATATATATTCCAAGGAGTCTTTCTGCTAAAAATCTTGCAAAACTGAGCCGGGGCCCC
* * ** *
1227 TAACGCGTTTTTATGCCAAAAACCGTGATAACGTACTTGATTTTCGGCTAAAAATTGACCCGAAA
574 AAACGCGTTTTTATGCCAAAAACCGTGATTA-GTACACGATTTTCGGCTAAAAATTGACACGAAA
1292 ATTTTTTT
638 ATTTTTTT
* *
1300 CTCAATTTTTTGCCACAATTCTCAGAAAAAATATATAATTCATCACCAAAAATATTGACGGGTTT
1 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCATCACCAAAAAGATTGACGGGTTT
*
1365 TTCACACTTCTAATATCGTTTTTCAATTTTTTCCCTAAATAATTTCTAATTAAATCGAAGCAAGA
66 TTCACACTTCTAATATCGTTTTTCAATTTTTTCCCTAAATAATTTCTAATTAAATCGAAACAAGA
* *
1430 TTCAGATGCTCTTAAAAACAAATCCTTAAATCTATTGTGTCTAAGATTTGGTTAGAAGAATATAG
131 TTCAGATGCTCTTAAAAACAAATCCTTAAATCCATTATGTCTAAGATTTGGTTAGAAGAATATAG
* * * *
1495 ATA-TTCGAAGGAGTCTTTCTACCGAAAATCTTGCATAACTGAGTCGGGTCCCCGAAACGCG-TT
196 ATATTTC-AAGGAGTCTTTCTACCAAAAATCTTACATAACTGAGCCGGGGCCCCGAAACGCGTTT
* * *
1558 TTATGCCAAAAACAGGGATTGTTAGTACACGATTTCGGCTAAAAATTGACCCGAAAA---GTTTT
260 TTATGCCAAAAACAGTGATGGTTAGTACACGATTTCGGCTAAAAATTGACCCGAAAATTTTTTTT
* * *
1620 TTCTCAATTTTTTCCTACAATACTCAGAAAAAATATATAATTCAATACACAAAAAGATTGACGGG
325 TTTTCAATTTTTGCC-ACAATACTCAGAAAAAATATATAATTCAACAC-CAAAAAGATTGACGGG
*
1685 CTTTTCACGCTTCTAATATCGTTTTTCAATTATTTTTTTCCGAATTAATTTCTAATTAAATCGAA
388 CTTTTCACGCTTCTAATATCGTTTTTC-A--ATTTTTTTCCGAAATAATTTCTAATTAAATCGAA
* *
1750 ACAACATTCAGATACTCATAAAAACAAATCCTTAAATCCATTGTGCCTAAGATTTGGTTAGATAA
450 ACAAGATTCAGATACTCATAAAAACAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTAGATAA
* * * * * *
1815 ATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCTTGCATAACTGAGCAGGGGCCACGAAACG
515 ATATATATATTCCAAGGAGTCTTTCTGCTAAAAATCTTGCAAAACTGAGCCGGGGCC-CCAAACG
* * * *
1880 CGTTTTTATGCCAAAAACCGTGATGGTTAGTACACGA-TTTCGGCTAAAAACTGGCACGGAAA-G
579 CGTTTTTATGCCAAAAACCGTGA---TTAGTACACGATTTTCGGCTAAAAATTGACACGAAAATT
1943 TTTTT
641 TTTTT
* * * *
1948 CTCAATTTTTTGCCTCAATACTCAGAAAAAATATATTATTCAAT-ACCAAAACGATTAACGGGTT
1 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTC-ATCACCAAAAAGATTGACGGGTT
* ** * *
2012 TTTTACGTTTCTAATATCGTTTTTCAATTTTTTTCC-AAATTAATTTCT-TTTAAATCGAAACAA
65 TTTCACACTTCTAATATCGTTTTTCAATTTTTTCCCTAAA-TAATTTCTAATTAAATCGAAACAA
2075 GATTCAGATGCT-TATAAAAACAAATCCTTAAATCCATTATGCGGTATGCCTAAGATTTGGTTAG
129 GATTCAGATGCTCT-TAAAAACAAATCCTTAAATCCATTAT---G--T--CTAAGATTTGGTTAG
* * * * * * *
2139 ATGAATATAGATATTTCAAGGAGTCTTTCTGCCATAATTCATGCAAAACTGAGCCGGGGCCCC-A
186 AAGAATATAGATATTTCAAGGAGTCTTTCTACCAAAAATCTTACATAACTGAGCCGGGGCCCCGA
* ** *
2203 TAATGCACTTTTATGCCAAAAACCA-TGATGGTTAGTATACGATTTCGGCTAAAAATTGACCCGA
251 -AACGCGTTTTTATGCCAAAAA-CAGTGATGGTTAGTACACGATTTCGGCTAAAAATTGACCCGA
* * * * *
2267 AGA--GTTTTTTTCTCAATTTTTGCCACAATACTAAGAAAAAATATATAATTCCACACC-AAAAG
314 AAATTTTTTTTTTTTCAATTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAG
* * ** * * * * * *
2329 TATTGTCCGATTTTTAACACTTCTAATATTGTTTTTCAATTTTTTTTTCTGAATTAACTTCTAAT
379 -ATTGACGGGCTTTTCACGCTTCTAATATCGTTTTTCAA--TTTTTTTCCGAAATAATTTCTAAT
* * * * * * *
2394 TAAATCGAAATAAGATTTAGATGCTCGTAAAAGCAAATCCTTAAATTCAATGTCG-CTAAGATCT
441 TAAATCGAAACAAGATTCAGATACTCATAAAAACAAATCCTTAAATCCATTGT-GTCTAAGAT-T
** *
2458 T-GTTAGATAAATAT-TGATATTTAAAGGA--CTTTC-G-TCAAAAATCTTGCAAAACTGAGTCG
504 TGGTTAGATAAATATAT-ATATTCCAAGGAGTCTTTCTGCT-AAAAATCTTGCAAAACTGAGCCG
* * *
2517 AGACCCCGAAACGCGTTTTTA-GTCAAAAAC
567 GGGCCCC-AAACGCGTTTTTATGCCAAAAAC
2547 TGTAATGGTT
Statistics
Matches: 1656, Mismatches: 188, Indels: 107
0.85 0.10 0.05
Matches are distributed among these distances:
642 7 0.00
643 64 0.04
644 70 0.04
645 47 0.03
646 1 0.00
647 202 0.12
648 136 0.08
649 130 0.08
650 68 0.04
651 219 0.13
652 33 0.02
653 151 0.09
654 325 0.20
655 162 0.10
656 41 0.02
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.34
Consensus pattern (645 bp):
CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCATCACCAAAAAGATTGACGGGTTT
TTCACACTTCTAATATCGTTTTTCAATTTTTTCCCTAAATAATTTCTAATTAAATCGAAACAAGA
TTCAGATGCTCTTAAAAACAAATCCTTAAATCCATTATGTCTAAGATTTGGTTAGAAGAATATAG
ATATTTCAAGGAGTCTTTCTACCAAAAATCTTACATAACTGAGCCGGGGCCCCGAAACGCGTTTT
TATGCCAAAAACAGTGATGGTTAGTACACGATTTCGGCTAAAAATTGACCCGAAAATTTTTTTTT
TTTCAATTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGGGCTT
TTCACGCTTCTAATATCGTTTTTCAATTTTTTTCCGAAATAATTTCTAATTAAATCGAAACAAGA
TTCAGATACTCATAAAAACAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTAGATAAATATAT
ATATTCCAAGGAGTCTTTCTGCTAAAAATCTTGCAAAACTGAGCCGGGGCCCCAAACGCGTTTTT
ATGCCAAAAACCGTGATTAGTACACGATTTTCGGCTAAAAATTGACACGAAAATTTTTTT
Found at i:2130 original size:975 final size:964
Alignment explanation
Indices: 1--2535 Score: 3148
Period size: 975 Copynumber: 2.6 Consensus size: 964
* *
1 CTCAA-TTTTTGCCACAATACTCAG-AAAAATATACAATTC-ATCACCAAAATATTGACGGGTTT
1 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAAT-ACCAAAAGATTGACGGGTTT
* * * * *
63 TTCACACTTGTAATATCATTTTTCAATTTTTTTCCCCGAAATAATATCTAATTAAATCGAAGCAA
65 TTCAC-GTTTTAATATCGTTTTTCAATTTTTTT--CCGAAATAATTTCTAATTAAATCGAAACAA
** *
128 GATTCAGATGCTCTTAAAAACAAATTTTTAAATCCATTGTGTCTAATATTTGGTTAGAAGAATAT
127 GATTCAGATGCT-TTAAAAACAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTAGAAGAATAT
* *
193 ATATATTTCAAGGAGTCTTTCAGCTAAAAATCTTACATAACTGAGCCGGGGCCCCGA-AACGCGT
191 ATATATTTCAAGGAGTCTTTCTGCTAAAAATCTTGCATAACTGAGCCGGGGCCCC-ATAACGCGT
* * * *
257 TTTTATGCCAAAAACCGTAATAGTTAGTACACGATTTCGGTTAAAAATTTACCCGAAAATTTTTT
255 TTTTATGCCAAAAACCGTGATA---AGTACTCGATTTCGGCTAAAAATTGACCCGAAAA--TTTT
* * *
322 TTTCTTAATTTTTTGCCAAAATACTCAGAAAAAATATACAATTCAACACCAAAAAGT-TTGACGG
315 TTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTC-ACACCAAAAA-TATTGACGG
* * *
386 GCTTTTCACGCTTCTAATATCGTTTTTCAATTTTTTTCTGAAATAAATTCTAATTAAATCCAAAC
378 GTTTTTCACACTTCTAATATCGTTTTTCAATTTTTTTCTGAAATAAATTCTAATTAAATCGAAAC
* * *
451 AAGATTCAGATACTCTTAAAAATAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTAGAAGAAT
443 AAGATTCAGATGCTCTTAAAAACAAATCCTTAAATCTATTGTGTCTAAGATTTGGTTAGAAGAAT
* * * * * ** * *
516 ATATATAATCCAAGGAGCCTTTATGCTAAAAATCTTAAAAAACTGAGTTGGGGT-CCCGAAACGT
508 ATAGATATTCAAAGGAG-CTTTCT-CCAAAAATCTTGCAAAACTGAG-TCGGGTCCCCGAAACGC
* * * * * *
580 GTTTTTATGGCAAAAACCGTGATGGTAGAACACGATTTTCGGCTAAAAATTGTCTCGAAAATTTT
570 G-TTTTATGCCAAAAACAGGGATGGTAGAACACGATTTTCGGCTAAAAATTGACCCGAAAATGTT
*
645 TTTTCTCAATTTTTTGCCACAATACTCAGAAGAAATATATTAATCAACACCAAAAAGATTGACGG
634 TTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATTAATCAACACCAAAAAGATTGACGG
* * *
710 GCTTTTCACGGTTCTAATATTGTTTTTCAATTTTTTTCTGAAATAATTTCTAATTAAATCCAAAC
699 GCTTTTCACGCTTCTAATATCGTTTTTCAATTTTTTTCCGAAATAATTTCTAATTAAATCCAAAC
* * * * * *
775 AAGATTCAGATGCTCTTAAAAATAAATCTTTAAATCCATCATGTCTAAGATTTGGTTAGAAGAAT
764 AACATTCAGATACTCATAAAAACAAATCCTTAAATCCATCATGCCTAAGATTTGGTT--AAGAAT
* * * * *
840 ATATATATATATATTCCAAGGAGTCTTTTTGCTAAAAATCTTACACAACTGAGCCGGGGCCCCGA
827 ATATATATAGATATTCCAAGGAGTCTTTCTGCCAAAAATCTTACACAACTGAGCAGGGGCCACGA
* * * * *
905 AACAAGTTTTTATGCCAAAAACTGTGATGGTTTATGCATGATTTTCGGCTAGAAATTGACCCGAA
892 AACAAGTTTTTATGCCAAAAACCGTGATGGTTTATACACGATTTTCGGCTAAAAACTGACCCGAA
*
970 ATTTTTTTT
957 A-TGTTTTT
* * *
979 CACAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACGGGCTT
1 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATACC-AAAAGATTGACGGGTTT
*
1044 TTCACGCTTTTAGTATCGTTTTTCAATTTTTTTCCGAAATAATTTCTAATTAAATCGAAACAAGA
65 TTCACG-TTTTAATATCGTTTTTCAATTTTTTTCCGAAATAATTTCTAATTAAATCGAAACAAGA
* * * *
1109 TTCAGATGCTCCTAAAAATAATTCCTTAAATCCATTGTGTCTAAGATTTTGTTAGAAGAATATAT
129 TTCAGATGCT-TTAAAAACAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTAGAAGAATATAT
*
1174 ATATTCCAAGGAGTCTTTCTGCTAAAAATCTTGCATAACTGAGCCGGGGCCCC-TAACGCGTTTT
193 ATATTTCAAGGAGTCTTTCTGCTAAAAATCTTGCATAACTGAGCCGGGGCCCCATAACGCGTTTT
*
1238 TATGCCAAAAACCGTGATAACGTACTTGATTTTCGGCTAAAAATTGACCCGAAAATTTTTTTCTC
258 TATGCCAAAAACCGTGATAA-GTACTCGA-TTTCGGCTAAAAATTGACCCGAAAATTTTTTTCTC
*
1303 AATTTTTTGCCACAATTCTCAGAAAAAATATATAATTCATCACCAAAAATATTGACGGGTTTTTC
321 AATTTTTTGCCACAATACTCAGAAAAAATATATAATTCA-CACCAAAAATATTGACGGGTTTTTC
* * *
1368 ACACTTCTAATATCGTTTTTCAATTTTTTCCCT-AAATAATTTCTAATTAAATCGAAGCAAGATT
385 ACACTTCTAATATCGTTTTTCAATTTTTT-TCTGAAATAAATTCTAATTAAATCGAAACAAGATT
1432 CAGATGCTCTTAAAAACAAATCCTTAAATCTATTGTGTCTAAGATTTGGTTAGAAGAATATAGAT
449 CAGATGCTCTTAAAAACAAATCCTTAAATCTATTGTGTCTAAGATTTGGTTAGAAGAATATAGAT
* * *
1497 ATTCGAAGGAGTCTTTCTACCGAAAATCTTGCATAACTGAGTCGGGTCCCCGAAACGCGTTTTAT
514 ATTCAAAGGAG-CTTTCT-CCAAAAATCTTGCAAAACTGAGTCGGGTCCCCGAAACGCGTTTTAT
* *
1562 GCCAAAAACAGGGATTGTTAGTACACGA-TTTCGGCTAAAAATTGACCCGAAAA-GTTTTTTCTC
577 GCCAAAAACAGGGA-TGGTAGAACACGATTTTCGGCTAAAAATTGACCCGAAAATGTTTTTTCTC
*
1625 AATTTTTT-CCTACAATACTCAGAAAAAATATA-TAATTCAATACACAAAAAGATTGACGGGCTT
641 AATTTTTTGCC-ACAATACTCAGAAAAAATATATTAA-TCAACAC-CAAAAAGATTGACGGGCTT
* *
1688 TTCACGCTTCTAATATCGTTTTTCAATTATTTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
703 TTCACGCTTCTAATATCGTTTTTC-A--ATTTTTTTCCGAAATAATTTCTAATTAAATCCAAACA
**
1753 ACATTCAGATACTCATAAAAACAAATCCTTAAATCCATTGTGCCTAAGATTTGGTT-AG-ATA-A
765 ACATTCAGATACTCATAAAAACAAATCCTTAAATCCATCATGCCTAAGATTTGGTTAAGAATATA
* * *
1815 -ATATAGATATTTCAAGGAGTCTTTCTGCCAAAAATCTTGCATAACTGAGCAGGGGCCACGAAAC
830 TATATAGATATTCCAAGGAGTCTTTCTGCCAAAAATCTTACACAACTGAGCAGGGGCCACGAAAC
** * *
1879 GCGTTTTTATGCCAAAAACCGTGATGG-TTAGTACACGA-TTTCGGCTAAAAACTGGCACGGAAA
895 AAGTTTTTATGCCAAAAACCGTGATGGTTTA-TACACGATTTTCGGCTAAAAACTGAC-CCGAAA
1942 -GTTTTT
958 TGTTTTT
* * *
1948 CTCAATTTTTTGCCTCAATACTCAGAAAAAATATATTATTCAATACCAAAACGATTAACGGGTTT
1 CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATACCAAAA-GATTGACGGGTTT
* *
2013 TTTACGTTTCTAATATCGTTTTTCAATTTTTTTCC-AAATTAATTTCT-TTTAAATCGAAACAAG
65 TTCACGTTT-TAATATCGTTTTTCAATTTTTTTCCGAAA-TAATTTCTAATTAAATCGAAACAAG
* *
2076 ATTCAGATGCTTATAAAAACAAATCCTTAAATCCATTATGCGGTATGCCTAAGATTTGGTTAGAT
128 ATTCAGATGCTT-TAAAAACAAATCCTTAAATCCA-T-T---G--TGTCTAAGATTTGGTTAGAA
* * * * * *
2141 GAATATAGATATTTCAAGGAGTCTTTCTGCCATAATTCATGCAAAACTGAGCCGGGGCCCCATAA
185 GAATATATATATTTCAAGGAGTCTTTCTGCTAAAAATCTTGCATAACTGAGCCGGGGCCCCATAA
* ** * *
2206 TGCACTTTTATGCCAAAAACCATGATGGTTAGTA-TACGATTTCGGCTAAAAATTGACCCGAAGA
250 CGCGTTTTTATGCCAAAAACC--G-TGATAAGTACT-CGATTTCGGCTAAAAATTGACCCGAA-A
* * *
2270 GTTTTTTTCTCAA-TTTTTGCCACAATACTAAGAAAAAATATATAATTCCACACCAAAAGTATTG
310 ATTTTTTTCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATT-CACACCAAAAATATTG
* * * * * * *
2334 TCCGATTTTTAACACTTCTAATATTGTTTTTCAATTTTTTTTTCTGAATTAACTTCTAATTAAAT
374 ACGGGTTTTTCACACTTCTAATATCGTTTTTCAA--TTTTTTTCTGAAATAAATTCTAATTAAAT
* * * * *
2399 CGAAATAAGATTTAGATGCTCGTAAAAGCAAATCCTTAAAT-TCAATGTCG-CTAAGATCTT-GT
437 CGAAACAAGATTCAGATGCTCTTAAAAACAAATCCTTAAATCT-ATTGT-GTCTAAGAT-TTGGT
* * * *
2461 TAGATA-AATATTGATATTTAAAGGA-CTTTCGT-CAAAAATCTTGCAAAACTGAGTCGAGACCC
499 TAGA-AGAATATAGATATTCAAAGGAGCTTTC-TCCAAAAATCTTGCAAAACTGAGTCGGGTCCC
2523 CGAAACGCGTTTT
562 CGAAACGCGTTTT
2536 TAGTCAAAAA
Statistics
Matches: 1364, Mismatches: 146, Indels: 96
0.85 0.09 0.06
Matches are distributed among these distances:
968 56 0.04
969 97 0.07
970 19 0.01
971 90 0.07
972 6 0.00
973 47 0.03
974 90 0.07
975 308 0.23
976 68 0.05
977 208 0.15
978 57 0.04
979 253 0.19
980 21 0.02
981 44 0.03
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (964 bp):
CTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAATACCAAAAGATTGACGGGTTTT
TCACGTTTTAATATCGTTTTTCAATTTTTTTCCGAAATAATTTCTAATTAAATCGAAACAAGATT
CAGATGCTTTAAAAACAAATCCTTAAATCCATTGTGTCTAAGATTTGGTTAGAAGAATATATATA
TTTCAAGGAGTCTTTCTGCTAAAAATCTTGCATAACTGAGCCGGGGCCCCATAACGCGTTTTTAT
GCCAAAAACCGTGATAAGTACTCGATTTCGGCTAAAAATTGACCCGAAAATTTTTTTCTCAATTT
TTTGCCACAATACTCAGAAAAAATATATAATTCACACCAAAAATATTGACGGGTTTTTCACACTT
CTAATATCGTTTTTCAATTTTTTTCTGAAATAAATTCTAATTAAATCGAAACAAGATTCAGATGC
TCTTAAAAACAAATCCTTAAATCTATTGTGTCTAAGATTTGGTTAGAAGAATATAGATATTCAAA
GGAGCTTTCTCCAAAAATCTTGCAAAACTGAGTCGGGTCCCCGAAACGCGTTTTATGCCAAAAAC
AGGGATGGTAGAACACGATTTTCGGCTAAAAATTGACCCGAAAATGTTTTTTCTCAATTTTTTGC
CACAATACTCAGAAAAAATATATTAATCAACACCAAAAAGATTGACGGGCTTTTCACGCTTCTAA
TATCGTTTTTCAATTTTTTTCCGAAATAATTTCTAATTAAATCCAAACAACATTCAGATACTCAT
AAAAACAAATCCTTAAATCCATCATGCCTAAGATTTGGTTAAGAATATATATATAGATATTCCAA
GGAGTCTTTCTGCCAAAAATCTTACACAACTGAGCAGGGGCCACGAAACAAGTTTTTATGCCAAA
AACCGTGATGGTTTATACACGATTTTCGGCTAAAAACTGACCCGAAATGTTTTT
Found at i:3561 original size:26 final size:26
Alignment explanation
Indices: 3524--6408 Score: 2399
Period size: 26 Copynumber: 104.7 Consensus size: 26
3514 AACTATATGG
* *
3524 TATGAGCGCTACTGAATATGCGACTA
1 TATGAGCCCTACTGAATATGCAACTA
*
3550 TATGACCCCTACTGAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
*** *
3576 TA-CCCCCCTACTGAATACGCAACTATATA
1 TATGAGCCCTACTGAATATGCAAC----TA
3605 GTATGAGCCCTACTGAATATGCAACTATA
1 -TATGAGCCCTACTGAATATGCAAC--TA
3634 TGGTATGAGCCCTACTGAATATGCAACTATA
1 ---TATGAGCCCTACTGAATATGCAAC--TA
* * *
3665 TGGTATGAGCCCAATTGAATAGGCAACTA
1 ---TATGAGCCCTACTGAATATGCAACTA
*
3694 TATGAGCGCTACTGAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
3720 TATG-GCCCCTACTGAATATGCAACTA
1 TATGAG-CCCTACTGAATATGCAACTA
3746 TATGA-CGCCTACTGAATATGCAACTA
1 TATGAGC-CCTACTGAATATGCAACTA
3772 TATG-GCCCCTACTGAATATGCAACTA
1 TATGAG-CCCTACTGAATATGCAACTA
3798 TATG-GCCCCTACTGAATATGCAACTATA
1 TATGAG-CCCTACTGAATATGCAAC--TA
3826 TGGTATGAGCCCTACTGAATATGCAACTA
1 ---TATGAGCCCTACTGAATATGCAACTA
3855 TATG-GCCCCTACTGAATATGCAACTA
1 TATGAG-CCCTACTGAATATGCAACTA
* *
3881 TATTATCCCTACTGAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
*
3907 TATGACCCTCCCTACTGAATATGCAACTA
1 TATGA---GCCCTACTGAATATGCAACTA
*
3936 TATGAACCCTACTGAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
3962 TATGAGCCCTACTGAATATGCAACTATA
1 TATGAGCCCTACTGAATATGCAAC--TA
*
3990 TGGTATGAGCCCTACTAAATATGCAACTATA
1 ---TATGAGCCCTACTGAATATGCAAC--TA
* * *
4021 TGGTATGAGCCATACAGAATATACAACTATA
1 ---TATGAGCCCTACTGAATATGCAAC--TA
*
4052 TGGTATGAGCCCTCCTGAATATGCAACTAAA
1 ---TATGAGCCCTACTGAATATGCAACT--A
* *
4083 TGGAATGAGTCCTACTGAGTATGCAACTA
1 T---ATGAGCCCTACTGAATATGCAACTA
*
4112 TATGACCCCTACTGAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
4138 TATGAGCCCTACTGAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
4164 TATG-GCCCCTACTGAATATGCAACTATA
1 TATGAG-CCCTACTGAATATGCAAC--TA
* *
4192 TGGAATGAGTCCTACTAAATATGCAACTA
1 T---ATGAGCCCTACTGAATATGCAACTA
* *
4221 TATGAGCCCAACTGAATGTGCAACT-
1 TATGAGCCCTACTGAATATGCAACTA
* * *
4246 TCATGACCCCGACTGAATATGCATCTA
1 T-ATGAGCCCTACTGAATATGCAACTA
*
4273 TATG-GCCCCTACTGAATATGCATCTA
1 TATGAG-CCCTACTGAATATGCAACTA
*
4299 TACG-GCCCCTACTGAATATGCAAC--
1 TATGAG-CCCTACTGAATATGCAACTA
*
4323 TATGA-CCCTACTAAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
* ** *
4348 TATGAGCCTTAGAGAATATGCAAATA
1 TATGAGCCCTACTGAATATGCAACTA
* *
4374 TATGACCCCTACTTAATATGCAACTATA
1 TATGAGCCCTACTGAATATGCAAC--TA
4402 TGGTATGAGCCCTACTGAATATGCAACTA
1 ---TATGAGCCCTACTGAATATGCAACTA
4431 TATGAGCCCTACTGAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
4457 TATG-GACCCTACTGAATATGCAACTA
1 TATGAG-CCCTACTGAATATGCAACTA
4483 TAT-AGACCCTACTGAATATGCAACTA
1 TATGAG-CCCTACTGAATATGCAACTA
4509 TATGAGCCCTACTGAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
* *
4535 TATG-TCTCCTACTAAATATGCAACTATA
1 TATGAGC-CCTACTGAATATGCAAC--TA
*
4563 TGGTATGAGCCCTACTGAAAATGCAACTA
1 ---TATGAGCCCTACTGAATATGCAACTA
* * * *
4592 TATGATCCTTAGTGAATATGCAAATA
1 TATGAGCCCTACTGAATATGCAACTA
* *
4618 TATGAGCCCTAGTGAATATGCAAATA
1 TATGAGCCCTACTGAATATGCAACTA
4644 TATG-GCCCTACAT-AATATGCAACAATA
1 TATGAGCCCTAC-TGAATATGCAAC--TA
*
4671 TGGTATGAGCCCTACTAAATATGCAACTA
1 ---TATGAGCCCTACTGAATATGCAACTA
**
4700 TATGAGTTCTACTGAATATGCAACTATA
1 TATGAGCCCTACTGAATATGCAAC--TA
*
4728 TGGTATGAGCCCTACTGAATATACAACTA
1 ---TATGAGCCCTACTGAATATGCAACTA
*
4757 TATGACCCCTACTGAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
4783 TATGAGCCCTACTGAATATGCAAC--
1 TATGAGCCCTACTGAATATGCAACTA
* *
4807 ---GACCCCTACTGAATATGAAACTA
1 TATGAGCCCTACTGAATATGCAACTA
*
4830 TATG-GCCCCTACTGAATATGAAACTA
1 TATGAG-CCCTACTGAATATGCAACTA
* *
4856 TATGACCCCTATTGAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
* *
4882 TATGAGCCTTACTAAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
*** *
4908 TATGGTAAGAGTTTTACTGAATATGCAATTATA
1 TA---T--GAGCCCTACTGAATATGCAA--CTA
*
4941 TGGTATGAGCCATACTGAATATGCAACTATA
1 ---TATGAGCCCTACTGAATATGCAAC--TA
4972 TGGTATGAGCCCTACTGAATATGCAACTA
1 ---TATGAGCCCTACTGAATATGCAACTA
*
5001 TATGA-CCCTTACTGAATATGCAAATA
1 TATGAGCCC-TACTGAATATGCAACTA
* * ** *
5027 TATAAGCCTTAGAGAATATGCAAATA
1 TATGAGCCCTACTGAATATGCAACTA
*
5053 TATG-GCCCCTACTTAATATGCAACCATA
1 TATGAG-CCCTACTGAATATGCAA-C-TA
5081 TGGTATGAGCCCTACTGAATATGCAACTA
1 ---TATGAGCCCTACTGAATATGCAACTA
* *
5110 TATGGGCCCTACTTAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
5136 TATGA-CCCTACTGAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
*
5161 TATGAGCCCTACTAAATATGCAACTATA
1 TATGAGCCCTACTGAATATGCAAC--TA
5189 TGGTATGAGCCCTACTGAATATGCAACTA
1 ---TATGAGCCCTACTGAATATGCAACTA
* * * *
5218 TATGATCCCTAGTGAATATTCAAATA
1 TATGAGCCCTACTGAATATGCAACTA
* *
5244 TATGAGCCCTAGTGAATATGCAAATA
1 TATGAGCCCTACTGAATATGCAACTA
5270 TATG-GCCCTACAT-AATATGCAACAATA
1 TATGAGCCCTAC-TGAATATGCAAC--TA
*
5297 TGGTATGAGCCCTACTAAATATGCAACTA
1 ---TATGAGCCCTACTGAATATGCAACTA
**
5326 TATGAGTTCTACTGAATATGCAACTATA
1 TATGAGCCCTACTGAATATGCAAC--TA
* *
5354 TGGTATGAGCCTTACTGAATATACAACTA
1 ---TATGAGCCCTACTGAATATGCAACTA
*
5383 TATGACCCCTACTGAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
5409 TATGAGCCCTACTGAATATGCAAC--
1 TATGAGCCCTACTGAATATGCAACTA
* *
5433 ---GA-CCCGTACTGAATATGAAATTA
1 TATGAGCCC-TACTGAATATGCAACTA
* *
5456 TATG-GCCCCTGCTGAATATGAAACTA
1 TATGAG-CCCTACTGAATATGCAACTA
* *
5482 TATGACCCCTATTGAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
*
5508 TATGAGCCTTACTGAATATGCAACTATA
1 TATGAGCCCTACTGAATATGCAAC--TA
*** *
5536 TGGTATGAGTTTTACTGAATATGCAATTATA
1 ---TATGAGCCCTACTGAATATGCAA--CTA
*
5567 TGGTATGAGCCATACTGAATATGCAACTATA
1 ---TATGAGCCCTACTGAATATGCAAC--TA
5598 TGGTATGAGCCCTACTGAATATGCAACTATA
1 ---TATGAGCCCTACTGAATATGCAAC--TA
* *
5629 TGGAATGAGTCCTACTGAATATGCAACCA
1 T---ATGAGCCCTACTGAATATGCAACTA
5658 TATGAGCCCTACTGAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
*** * *
5684 TATGGTATTAGTTTTACTAAATATGCAATTATA
1 TAT-G----AGCCCTACTGAATATGCAA--CTA
*
5717 TGGTATGAGCCATACTGAATATGCAACTATA
1 ---TATGAGCCCTACTGAATATGCAAC--TA
*
5748 TGGTATGAGCCCTACTGAATCTGCAACTATA
1 ---TATGAGCCCTACTGAATATGCAAC--TA
*
5779 TGGAATGAGTCCTACTGAATATGCAACTATA
1 T---ATGAGCCCTACTGAATATGCAAC--TA
*
5810 TCGAATGAGTCCTACTGAATATGCAACTA
1 T---ATGAGCCCTACTGAATATGCAACTA
*
5839 TATGAACCCTACTGAATATGCAACTATA
1 TATGAGCCCTACTGAATATGCAAC--TA
*
5867 TGGTATGAGCCATACTGAATATGCAACTA
1 ---TATGAGCCCTACTGAATATGCAACTA
* *
5896 TATGACCCCTACTGAGTATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
* **
5922 TATAAGCCCTACAAAATATGCAAC--
1 TATGAGCCCTACTGAATATGCAACTA
5946 TATGA-CTCCTACTGAATATGCAACTA
1 TATGAGC-CCTACTGAATATGCAACTA
5972 TATGGTAGGAGCCCTACTGAATATGCAACTA
1 TA---T--GAGCCCTACTGAATATGCAACTA
6003 TATGA-CCCTACTGAATATGCAACTA
1 TATGAGCCCTACTGAATATGCAACTA
* *
6028 TATGAGCCCTAGTGAATATGCAAATA
1 TATGAGCCCTACTGAATATGCAACTA
* **
6054 TATG-GTCCTACAT-AATATATAACAATA
1 TATGAGCCCTAC-TGAATATGCAAC--TA
6081 TGGTATGAGCCCTACTGAATATGCAACTA
1 ---TATGAGCCCTACTGAATATGCAACTA
*
6110 TATG-GCCCATATTGAATATGCAACTA
1 TATGAGCCC-TACTGAATATGCAACTA
6136 TATGGTATGAACCCTACTGAATATGCAACTATA
1 TAT-G-A-G--CCCTACTGAATATGCAAC--TA
6169 TGGTATGAGCCCTACTGAATATGCAACTA
1 ---TATGAGCCCTACTGAATATGCAACTA
* * *
6198 TATGACCCCTACTGAATATGCAATTT
1 TATGAGCCCTACTGAATATGCAACTA
*
6224 TATG-GCCACTACTGAATATGCAACTC
1 TATGAGCC-CTACTGAATATGCAACTA
6250 TATGAGCCCTACTGAATATGCAACTATA
1 TATGAGCCCTACTGAATATGCAAC--TA
*
6278 TGGTATGAGTCCTACTGAATATGCAACTA
1 ---TATGAGCCCTACTGAATATGCAACTA
6307 TATG-GCCCCTACTGAATATGCAACTA
1 TATGAG-CCCTACTGAATATGCAACTA
6333 TATG-GCCCCTACTGAATATGCAACTATA
1 TATGAG-CCCTACTGAATATGCAAC--TA
*
6361 TGGTATGAGCCCTACTAAATATGCAACTA
1 ---TATGAGCCCTACTGAATATGCAACTA
6390 TATGA-CACCTACTGAATAT
1 TATGAGC-CCTACTGAATAT
6409 AACCCCTACT
Statistics
Matches: 2427, Mismatches: 223, Indels: 418
0.79 0.07 0.14
Matches are distributed among these distances:
20 3 0.00
21 34 0.01
23 18 0.01
24 22 0.01
25 133 0.05
26 1265 0.52
27 20 0.01
28 30 0.01
29 77 0.03
30 19 0.01
31 778 0.32
32 9 0.00
33 8 0.00
34 1 0.00
35 2 0.00
36 8 0.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.29
Consensus pattern (26 bp):
TATGAGCCCTACTGAATATGCAACTA
Found at i:3574 original size:57 final size:56
Alignment explanation
Indices: 3505--6393 Score: 2068
Period size: 57 Copynumber: 52.3 Consensus size: 56
3495 ATGCAAGTAA
* * *
3505 TGAATATGCAACTATATGGTATGAGCGCTACTGAATATGCGACTATATGACCCCTAC
1 TGAATATGCAACTATAT-GTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
*** *
3562 TGAATATGCAAC--TA--TA-CCCCCCTACTGAATACGCAACTATATAGTATGAGCCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAAC----TA-TATGAGCCCTAC
* *
3618 TGAATATGCAACTATATGGTATGAGCCCTACTGAATATGCAACTATATGGTATGAGCCCAAT
1 TGAATATGCAACTATAT-GTATGAGCCCTACTGAATATGCAAC--TA---TATGAGCCCTAC
* *
3680 TGAATAGGCAAC--TA--TATGAGCGCTACTGAATATGCAACTATATG-GCCCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAG-CCCTAC
*
3732 TGAATATGCAACTATATG-A--CG-CCTACTGAATATGCAACTATATG-GCCCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAG-CCCTAC
*
3784 TGAATATGCAACTATATG---G-CCCCTACTGAATATGCAACTATATGGTATGAGCCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAAC--TA---TATGAGCCCTAC
* * *
3841 TGAATATGCAACTATATG---G-CCCCTACTGAATATGCAACTATATTATCCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
**** *
3893 TGAATATGCAACTATATG-ACCCTCCCTACTGAATATGCAACTATATGAACCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
3948 TGAATATGCAAC--TA--TATGAGCCCTACTGAATATGCAACTATATGGTATGAGCCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAAC--TA---TATGAGCCCTAC
* * * * *
4005 TAAATATGCAACTATATGGTATGAGCCATACAGAATATACAACTATATGGTATGAGCCCTCC
1 TGAATATGCAACTATAT-GTATGAGCCCTACTGAATATGCAAC--TA---TATGAGCCCTAC
* * * * *
4067 TGAATATGCAACTAAATGGAATGAGTCCTACTGAGTATGCAACTATATGACCCCTAC
1 TGAATATGCAACTATAT-GTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
4124 TGAATATGCAAC--TA--TATGAGCCCTACTGAATATGCAACTATATG-GCCCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAG-CCCTAC
* * * *
4176 TGAATATGCAACTATATGGAATGAGTCCTACTAAATATGCAACTATATGAGCCCAAC
1 TGAATATGCAACTATAT-GTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
* * * * *
4233 TGAATGTGCAAC--T-T-CATGACCCCGACTGAATATGCATCTATATG-GCCCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAG-CCCTAC
* * *
4285 TGAATATGCATCTATACG---G-CCCCTACTGAATATGCAAC--TATGA-CCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
* * ** * *
4334 TAAATATGCAAC--TA--TATGAGCCTTAGAGAATATGCAAATATATGACCCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
*
4386 TTAATATGCAACTATATGGTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
1 TGAATATGCAACTATAT-GTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
4443 TGAATATGCAACTATATG---GA-CCCTACTGAATATGCAACTATAT-AGACCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAG-CCCTAC
*
4495 TGAATATGCAAC--TA--TATGAGCCCTACTGAATATGCAACTATATG-TCTCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAGC-CCTAC
* * * * *
4547 TAAATATGCAACTATATGGTATGAGCCCTACTGAAAATGCAACTATATGATCCTTAG
1 TGAATATGCAACTATAT-GTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
* *
4604 TGAATATGCAA--ATA--TATGAGCCCTAGTGAATATGCAAATATATG-GCCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
* * **
4655 AT-AATATGCAACAATATGGTATGAGCCCTACTAAATATGCAACTATATGAGTTCTAC
1 -TGAATATGCAACTATAT-GTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
* *
4712 TGAATATGCAACTATATGGTATGAGCCCTACTGAATATACAACTATATGACCCCTAC
1 TGAATATGCAACTATAT-GTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
*
4769 TGAATATGCAAC--TA--TATGAGCCCTACTGAATATGCAAC-----GACCCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
* * * * *
4816 TGAATATGAAACTATATG---G-CCCCTACTGAATATGAAACTATATGACCCCTAT
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
* * ***
4868 TGAATATGCAAC--TA--TATGAGCCTTACTAAATATGCAACTATATGGTAAGAGTTTTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATA---T--GAGCCCTAC
* *
4925 TGAATATGCAATTATATGGTATGAGCCATACTGAATATGCAACTATATGGTATGAGCCCTAC
1 TGAATATGCAACTATAT-GTATGAGCCCTACTGAATATGCAAC--TA---TATGAGCCCTAC
* * * *
4987 TGAATATGCAAC--TA--TATGA-CCCTTACTGAATATGCAAATATATAAGCCTTAG
1 TGAATATGCAACTATATGTATGAGCCC-TACTGAATATGCAACTATATGAGCCCTAC
* *
5039 AGAATATGCAA--ATA--TATG-GCCCCTACTTAATATGCAACCATATGGTATGAGCCCTAC
1 TGAATATGCAACTATATGTATGAG-CCCTACTGAATATGCAA-C-TA---TATGAGCCCTAC
*
5096 TGAATATGCAACTATATG---G-GCCCTACTTAATATGCAACTATATGA-CCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
*
5147 TGAATATGCAAC--TA--TATGAGCCCTACTAAATATGCAACTATATGGTATGAGCCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAAC--TA---TATGAGCCCTAC
* * * *
5204 TGAATATGCAACTATATG-AT---CCCTAGTGAATATTCAAATATATGAGCCCTAG
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
5256 TGAATATGCAA--ATA--TATG-GCCCTACAT-AATATGCAACAATATGGTATGAGCCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTAC-TGAATATGCAAC--TA---TATGAGCCCTAC
* ** *
5312 TAAATATGCAAC--TA--TATGAGTTCTACTGAATATGCAACTATATGGTATGAGCCTTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAAC--TA---TATGAGCCCTAC
* *
5369 TGAATATACAAC--TA--TATGACCCCTACTGAATATGCAACTATATGAGCCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
* * *
5421 TGAATATGCAAC---------GA-CCCGTACTGAATATGAAATTATATG-GCCCCTGC
1 TGAATATGCAACTATATGTATGAGCCC-TACTGAATATGCAACTATATGAG-CCCTAC
* * * *
5468 TGAATATGAAAC--TA--TATGACCCCTATTGAATATGCAACTATATGAGCCTTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
*** * *
5520 TGAATATGCAACTATATGGTATGAGTTTTACTGAATATGCAATTATATGGTATGAGCCATAC
1 TGAATATGCAACTATAT-GTATGAGCCCTACTGAATATGCAA--CTA---TATGAGCCCTAC
*
5582 TGAATATGCAACTATATGGTATGAGCCCTACTGAATATGCAACTATATGGAATGAGTCCTAC
1 TGAATATGCAACTATAT-GTATGAGCCCTACTGAATATGCAAC--TAT---ATGAGCCCTAC
* ***
5644 TGAATATGCAAC--CA--TATGAGCCCTACTGAATATGCAACTATATGGTATTAGTTTTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATAT-G----AGCCCTAC
* * *
5701 TAAATATGCAATTATATGGTATGAGCCATACTGAATATGCAACTATATGGTATGAGCCCTAC
1 TGAATATGCAACTATAT-GTATGAGCCCTACTGAATATGCAAC--TA---TATGAGCCCTAC
* * * *
5763 TGAATCTGCAACTATATGGAATGAGTCCTACTGAATATGCAACTATATCGAATGAGTCCTAC
1 TGAATATGCAACTATAT-GTATGAGCCCTACTGAATATGCAAC--TAT---ATGAGCCCTAC
*
5825 TGAATATGCAACTATATG-A--A-CCCTACTGAATATGCAACTATATGGTATGAGCCATAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAAC--TA---TATGAGCCCTAC
* * *
5882 TGAATATGCAAC--TA--TATGACCCCTACTGAGTATGCAACTATATAAGCCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
**
5934 AAAATATGCAAC------TATGA-CTCCTACTGAATATGCAACTATATGGTAGGAGCCCTAC
1 TGAATATGCAACTATATGTATGAGC-CCTACTGAATATGCAACTATA---T--GAGCCCTAC
*
5989 TGAATATGCAAC--TA--TATGA-CCCTACTGAATATGCAACTATATGAGCCCTAG
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
* **
6040 TGAATATGCAA--ATA--TATG-GTCCTACAT-AATATATAACAATATGGTATGAGCCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTAC-TGAATATGCAAC--TA---TATGAGCCCTAC
*
6096 TGAATATGCAAC--TA--TATG-GCCCATATTGAATATGCAACTATATGGTATGAACCCTAC
1 TGAATATGCAACTATATGTATGAGCCC-TACTGAATATGCAACTATAT-G-A-G--CCCTAC
*
6153 TGAATATGCAACTATATGGTATGAGCCCTACTGAATATGCAACTATATGACCCCTAC
1 TGAATATGCAACTATAT-GTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
*
6210 TGAATATGCAA-T-T-T-TATG-GCCACTACTGAATATGCAACTCTATGAGCCCTAC
1 TGAATATGCAACTATATGTATGAGCC-CTACTGAATATGCAACTATATGAGCCCTAC
*
6262 TGAATATGCAACTATATGGTATGAGTCCTACTGAATATGCAACTATATG-GCCCCTAC
1 TGAATATGCAACTATAT-GTATGAGCCCTACTGAATATGCAACTATATGAG-CCCTAC
*
6319 TGAATATGCAACTATATG---G-CCCCTACTGAATATGCAACTATATGGTATGAGCCCTAC
1 TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAAC--TA---TATGAGCCCTAC
*
6376 TAAATATGCAACTATATG
1 TGAATATGCAACTATATG
6394 ACACCTACTG
Statistics
Matches: 2353, Mismatches: 233, Indels: 492
0.76 0.08 0.16
Matches are distributed among these distances:
46 4 0.00
47 76 0.03
48 2 0.00
49 37 0.02
50 37 0.02
51 131 0.06
52 629 0.27
53 28 0.01
54 24 0.01
55 97 0.04
56 145 0.06
57 737 0.31
58 12 0.01
59 16 0.01
60 16 0.01
61 4 0.00
62 343 0.15
63 4 0.00
64 5 0.00
66 1 0.00
67 5 0.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.29
Consensus pattern (56 bp):
TGAATATGCAACTATATGTATGAGCCCTACTGAATATGCAACTATATGAGCCCTAC
Found at i:6443 original size:26 final size:26
Alignment explanation
Indices: 6414--6478 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
6404 AATATAACCC
* *
6414 CTACTAAATATGTGTTATATGATGCT
1 CTACTAAATATGCGCTATATGATGCT
*
6440 CTACTAATTATGCGCTATATGATGCT
1 CTACTAAATATGCGCTATATGATGCT
*
6466 CTACTAAGTATGC
1 CTACTAAATATGC
6479 ATGCAACTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (26 bp):
CTACTAAATATGCGCTATATGATGCT
Found at i:13687 original size:19 final size:19
Alignment explanation
Indices: 13665--13702 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13655 AATCTTAATC
13665 TACTATCTGACTGAAAATA
1 TACTATCTGACTGAAAATA
*
13684 TACTATCTGACTTAAAATA
1 TACTATCTGACTGAAAATA
13703 GCATACTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (19 bp):
TACTATCTGACTGAAAATA
Found at i:17440 original size:74 final size:74
Alignment explanation
Indices: 17319--17466 Score: 228
Period size: 74 Copynumber: 2.0 Consensus size: 74
17309 TATTACTTTT
* *
17319 TGTTTTCTTTTTCGATTGTTAGGGTTTTGTAGCAAAGCAGACTGGAACTAGTAGAATGAATCCAA
1 TGTTTTCTTTTTCGATTGTTAGGGTTTTGTAGCAAAGCAGACTGGAACCAGTAGAATGAACCCAA
17384 GCTCGAATC
66 GCTCGAATC
* *
17393 TGTTTTCTTTTTCGATT-TTCAGGGTTTTGTTA-CAAAGCAGATTGGAACCAGTAGGATGAACCC
1 TGTTTTCTTTTTCGATTGTT-AGGGTTTTG-TAGCAAAGCAGACTGGAACCAGTAGAATGAACCC
17456 AAGCTCGAATC
64 AAGCTCGAATC
17467 GAGCGCCGAT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
73 2 0.03
74 64 0.94
75 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (74 bp):
TGTTTTCTTTTTCGATTGTTAGGGTTTTGTAGCAAAGCAGACTGGAACCAGTAGAATGAACCCAA
GCTCGAATC
Done.