Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01014559.1 Corchorus capsularis cultivar CVL-1 contig14580, 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: 3889
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Found at i:1259 original size:664 final size:664
Alignment explanation
Indices: 5--1601 Score: 2515
Period size: 664 Copynumber: 2.4 Consensus size: 664
1 TTAT
* * *
5 GCCAAGACTTCTTGAAATATCCATATTTATTTAACCAAATTTCAGCCATATTGGATTTAAGGATT
1 GCCAAGACTTCTTGAAATATCTATATTTATCTAACCAAATTTCAGCCAGATTGGATTTAAGGATT
* *
70 TGTTTTTACGAGCATCT--A--A-A--TC-A------TATAATTTAATTCATAAAAAATAGGGAA
66 TGTTTTTACGAGCATCTGAATCATATTTCGATTTTCTTAGAATTTAATTCATAAAAAATAGGAAA
* *
121 AACGATATTGAAAGCGTGAAATGCCTTTCAATCTTTTTGGCATTGAATTATATATTTTTTACTAG
131 AACGATATTGAAAGCGTGAAAAGCCTTTCAATCTTTTTGGCATTGAATTATATATTTTTTACGAG
* * *
186 TATTGTGTCCAAAAATTGAGTAAAACTTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATTA
196 TATTGTGTCCAAAAATTGAGGAAAAATTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCA
* *
251 TGTACTATCCATCACGAGTTTTGGCTAAAACTGCGTTCCGGGGCCCCGGCTCAGTTTTTCATGAA
261 TGTACTATCCATCACGATTTTTGGATAAAACTGCGTTCCGGGGCCCCGGCTCAGTTTTTCATGAA
* * * * *
316 TTTTTACGCCAAGATTCGTTGAAAAATCTATATTCATCTAACCAAATTTCAGCCACATTGGGTTT
326 TTTTTACGCCAAGACTCCTTGAAAAATCTATATTCATCTAACCAAATCTCAACCACATTGGATTT
381 AAGAATTTGTTTTTACAAGAATCTGAATCATATTTCAATTTAAATAGAAATTAATTCAGTAAAAA
391 AAGAATTTGTTTTTACAAGAATCTGAATCATATTTCAATTTAAATAGAAATTAATTCAGTAAAAA
*
446 TAGGAAAAACGATATTGAAAGCGTAAAAAGCCTTACAATCTTTTTGGCATTGAATTATATATTTT
456 TAGGAAAAACGATATTGAAAGCGTAAAAAGCCTTACAATCTTTTTGACATTGAATTATATATTTT
*
511 TTACGAGTATTGTGTCCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTGCAAAATTTTAGCC
521 TTACGAGTATTGTGTCCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTGGCAAAATTTTAGCC
* **
576 GAAATCATGTACTATCCATCACGATTTTTGGCTAAAACAA-CGTTCCGGGGCCCCGGCTCAGTTT
586 GAAATCATGTACTATCCATCACGATTTTTGGC-AAAAAAACCGTTCCGGGAACCCGGCTCAGTTT
* *
640 TTCATGATTTTTTAG
650 TTCATGATTGTTTAC
655 GCCAAGACTTCTTGAAATATCTATATTTATCTAACCAAATTTCAGCCAGATTGGATTTAAGGATT
1 GCCAAGACTTCTTGAAATATCTATATTTATCTAACCAAATTTCAGCCAGATTGGATTTAAGGATT
720 TGTTTTTACGAGCATCTGAATCATATTTCGATTTTCTTAGAATTTAATTCATAAAAAATAGGAAA
66 TGTTTTTACGAGCATCTGAATCATATTTCGATTTTCTTAGAATTTAATTCATAAAAAATAGGAAA
785 AACGATATTGAAAGCGTGAAAAGCCTTTCAATCTTTTTGGCATTGAATTATATATTTTTTACGAG
131 AACGATATTGAAAGCGTGAAAAGCCTTTCAATCTTTTTGGCATTGAATTATATATTTTTTACGAG
850 TATTGTGTCCAAAAATTGAGGAAAAATTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCA
196 TATTGTGTCCAAAAATTGAGGAAAAATTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCA
*
915 TGTACTATCCATCACGATTTTTGGATAAAACTGCGTTCCGGGGCCCCGGCTCAGTTTTTCATGAT
261 TGTACTATCCATCACGATTTTTGGATAAAACTGCGTTCCGGGGCCCCGGCTCAGTTTTTCATGAA
*
980 TTTTTACGCCAAGACTCCTTGAAATATCTATATTCATCTAACCAAATCTCAACCACATTGGATTT
326 TTTTTACGCCAAGACTCCTTGAAAAATCTATATTCATCTAACCAAATCTCAACCACATTGGATTT
* * *
1045 AAGAATTTGTTTTTACGAGCATCTGAATCATATTTCGATTTAAATAGAAATTAATTCAGTAAAAA
391 AAGAATTTGTTTTTACAAGAATCTGAATCATATTTCAATTTAAATAGAAATTAATTCAGTAAAAA
* **
1110 TAGGAAAAACGATATTGAAAGCGTGAAAAGCCTTTTAATCTTTTTGACATTGAATTATATATTTT
456 TAGGAAAAACGATATTGAAAGCGTAAAAAGCCTTACAATCTTTTTGACATTGAATTATATATTTT
*
1175 TTACGAGTATTGTGTCCAAAAATTGAGGAAAAATTTTTCGGGTCAATTTTGGCAAAATTTTAGCC
521 TTACGAGTATTGTGTCCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTGGCAAAATTTTAGCC
*
1240 GAAATCATGTACTATCCATCACGATTTTTGGCAAAAAAACTCGTTTCGGGAACCCGGCTCAGTTT
586 GAAATCATGTACTATCCATCACGATTTTTGGCAAAAAAAC-CGTTCCGGGAACCCGGCTCAGTTT
1305 TTCATGATTGTTTAC
650 TTCATGATTGTTTAC
* * * * * * * * *
1320 GCGACGGCTCCTTGAAATATCTATATTTATCTAACCAAATTTCCGCTAGGTAGGATTTGAGGATT
1 GCCAAGACTTCTTGAAATATCTATATTTATCTAACCAAATTTCAGCCAGATTGGATTTAAGGATT
* * * *
1385 TATTCTTACGGGCATCTGAATCATATTTCGATTTTCTTAGAATTTAATTCATAAAAAATAGTAAA
66 TGTTTTTACGAGCATCTGAATCATATTTCGATTTTCTTAGAATTTAATTCATAAAAAATAGGAAA
* ** * *
1450 AACGATATT-AGAAGCGTGAAAATCCTTTCAATAATTTTGGCATTGAACTATATATTTTATACGA
131 AACGATATTGA-AAGCGTGAAAAGCCTTTCAATCTTTTTGGCATTGAATTATATATTTTTTACGA
* * * ** * *
1514 GTATTGTATCTAAAAATTGAGGAAAAACTTTTCATGTCAATTTCTGCAAAATTTTAGCTGAAATC
195 GTATTGTGTCCAAAAATTGAGGAAAAATTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATC
*
1579 GTGTACTATCCATCACGATTTTT
260 ATGTACTATCCATCACGATTTTT
1602 TCATATTTCG
Statistics
Matches: 870, Mismatches: 60, Indels: 19
0.92 0.06 0.02
Matches are distributed among these distances:
650 79 0.09
652 1 0.00
654 1 0.00
655 1 0.00
657 2 0.00
658 1 0.00
663 6 0.01
664 491 0.56
665 288 0.33
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (664 bp):
GCCAAGACTTCTTGAAATATCTATATTTATCTAACCAAATTTCAGCCAGATTGGATTTAAGGATT
TGTTTTTACGAGCATCTGAATCATATTTCGATTTTCTTAGAATTTAATTCATAAAAAATAGGAAA
AACGATATTGAAAGCGTGAAAAGCCTTTCAATCTTTTTGGCATTGAATTATATATTTTTTACGAG
TATTGTGTCCAAAAATTGAGGAAAAATTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCA
TGTACTATCCATCACGATTTTTGGATAAAACTGCGTTCCGGGGCCCCGGCTCAGTTTTTCATGAA
TTTTTACGCCAAGACTCCTTGAAAAATCTATATTCATCTAACCAAATCTCAACCACATTGGATTT
AAGAATTTGTTTTTACAAGAATCTGAATCATATTTCAATTTAAATAGAAATTAATTCAGTAAAAA
TAGGAAAAACGATATTGAAAGCGTAAAAAGCCTTACAATCTTTTTGACATTGAATTATATATTTT
TTACGAGTATTGTGTCCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTGGCAAAATTTTAGCC
GAAATCATGTACTATCCATCACGATTTTTGGCAAAAAAACCGTTCCGGGAACCCGGCTCAGTTTT
TCATGATTGTTTAC
Found at i:1496 original size:333 final size:333
Alignment explanation
Indices: 96--1601 Score: 2270
Period size: 332 Copynumber: 4.5 Consensus size: 333
86 TAAATCATAT
* *
96 AATTTAATTCATAAAAAATAGGGAAAACGATATTGAAAGCGTGAAATGCCTTTCAATCTTTTTGG
1 AATTTAATTCATAAAAAATAGGAAAAACGATATTGAAAGCGTGAAAAGCCTTTCAATCTTTTTGG
* * *
161 CATTGAATTATATATTTTTTACTAGTATTGTGTCCAAAAATTGAGTAAAACTTTTTCGGGTCAAT
66 CATTGAATTATATATTTTTTACGAGTATTGTGTCCAAAAATTGAGGAAAAATTTTTCGGGTCAAT
* * *
226 TTTTGCAAAATTTTAGCCGAAATTATGTACTATCCATCACGAGTTTTGGC-TAAAACTGCGTTCC
131 TTTTGCAAAATTTTAGCCGAAATCATGTACTATCCATCACGATTTTTGGCAAAAAACTGCGTTCC
* * * *
290 GGGGCCCCGGCTCAGTTTTTCATGAATTTTTACGCCAAGATTCGTTGAAAAATCTATATTCATCT
196 GGGGCCCCGGCTCAGTTTTTCATGATTTTTTACGCCAAGACTCCTTGAAATATCTATATTCATCT
* * * *
355 AACCAAATTTCAGCCACATTGGGTTTAAGAATTTGTTTTTACAAGAATCTGAATCATATTTCAAT
261 AACCAAATTTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCATATTTCGAT
420 TTAAATAG
326 TTAAATAG
* * *
428 AAATTAATTCAGT-AAAAATAGGAAAAACGATATTGAAAGCGTAAAAAGCCTTACAATCTTTTTG
1 AATTTAATTCA-TAAAAAATAGGAAAAACGATATTGAAAGCGTGAAAAGCCTTTCAATCTTTTTG
*
492 GCATTGAATTATATATTTTTTACGAGTATTGTGTCCAAAAATTGAGGAAAAATCTTTCGGGTCAA
65 GCATTGAATTATATATTTTTTACGAGTATTGTGTCCAAAAATTGAGGAAAAATTTTTCGGGTCAA
* **
557 TTTTTGCAAAATTTTAGCCGAAATCATGTACTATCCATCACGATTTTTGGC-TAAAACAACGTTC
130 TTTTTGCAAAATTTTAGCCGAAATCATGTACTATCCATCACGATTTTTGGCAAAAAACTGCGTTC
* * *
621 CGGGGCCCCGGCTCAGTTTTTCATGATTTTTTAGGCCAAGACTTCTTGAAATATCTATATTTATC
195 CGGGGCCCCGGCTCAGTTTTTCATGATTTTTTACGCCAAGACTCCTTGAAATATCTATATTCATC
* *
686 TAACCAAATTTCAGCCAGATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCATATTTCGA
260 TAACCAAATTTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCATATTTCGA
***
751 TTTTCTTAG
325 TTTAAATAG
760 AATTTAATTCATAAAAAATAGGAAAAACGATATTGAAAGCGTGAAAAGCCTTTCAATCTTTTTGG
1 AATTTAATTCATAAAAAATAGGAAAAACGATATTGAAAGCGTGAAAAGCCTTTCAATCTTTTTGG
825 CATTGAATTATATATTTTTTACGAGTATTGTGTCCAAAAATTGAGGAAAAATTTTTCGGGTCAAT
66 CATTGAATTATATATTTTTTACGAGTATTGTGTCCAAAAATTGAGGAAAAATTTTTCGGGTCAAT
*
890 TTTTGCAAAATTTTAGCCGAAATCATGTACTATCCATCACGATTTTTGG-ATAAAACTGCGTTCC
131 TTTTGCAAAATTTTAGCCGAAATCATGTACTATCCATCACGATTTTTGGCAAAAAACTGCGTTCC
954 GGGGCCCCGGCTCAGTTTTTCATGATTTTTTACGCCAAGACTCCTTGAAATATCTATATTCATCT
196 GGGGCCCCGGCTCAGTTTTTCATGATTTTTTACGCCAAGACTCCTTGAAATATCTATATTCATCT
* *
1019 AACCAAATCTCAACCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCATATTTCGAT
261 AACCAAATTTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCATATTTCGAT
1084 TTAAATAG
326 TTAAATAG
* *
1092 AAATTAATTCAGT-AAAAATAGGAAAAACGATATTGAAAGCGTGAAAAGCCTTTTAATCTTTTTG
1 AATTTAATTCA-TAAAAAATAGGAAAAACGATATTGAAAGCGTGAAAAGCCTTTCAATCTTTTTG
*
1156 ACATTGAATTATATATTTTTTACGAGTATTGTGTCCAAAAATTGAGGAAAAATTTTTCGGGTCAA
65 GCATTGAATTATATATTTTTTACGAGTATTGTGTCCAAAAATTGAGGAAAAATTTTTCGGGTCAA
*
1221 TTTTGGCAAAATTTTAGCCGAAATCATGTACTATCCATCACGATTTTTGGCAAAAAAACT-CGTT
130 TTTTTGCAAAATTTTAGCCGAAATCATGTACTATCCATCACGATTTTTGGC-AAAAAACTGCGTT
* ** * * * * *
1285 TCGGGAACCCGGCTCAGTTTTTCATGATTGTTTACGCGACGGCTCCTTGAAATATCTATATTTAT
194 CCGGGGCCCCGGCTCAGTTTTTCATGATTTTTTACGCCAAGACTCCTTGAAATATCTATATTCAT
* * ** * * * * * *
1350 CTAACCAAATTTCCGCTAGGTAGGATTTGAGGATTTATTCTTACGGGCATCTGAATCATATTTCG
259 CTAACCAAATTTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCATATTTCG
***
1415 ATTTTCTTAG
324 ATTTAAATAG
* * **
1425 AATTTAATTCATAAAAAATAGTAAAAACGATATT-AGAAGCGTGAAAATCCTTTCAATAATTTTG
1 AATTTAATTCATAAAAAATAGGAAAAACGATATTGA-AAGCGTGAAAAGCCTTTCAATCTTTTTG
* * * * * **
1489 GCATTGAACTATATATTTTATACGAGTATTGTATCTAAAAATTGAGGAAAAACTTTTCATGTCAA
65 GCATTGAATTATATATTTTTTACGAGTATTGTGTCCAAAAATTGAGGAAAAATTTTTCGGGTCAA
* * *
1554 TTTCTGCAAAATTTTAGCTGAAATCGTGTACTATCCATCACGATTTTT
130 TTTTTGCAAAATTTTAGCCGAAATCATGTACTATCCATCACGATTTTT
1602 TCATATTTCG
Statistics
Matches: 1075, Mismatches: 91, Indels: 15
0.91 0.08 0.01
Matches are distributed among these distances:
331 1 0.00
332 789 0.73
333 278 0.26
334 7 0.01
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (333 bp):
AATTTAATTCATAAAAAATAGGAAAAACGATATTGAAAGCGTGAAAAGCCTTTCAATCTTTTTGG
CATTGAATTATATATTTTTTACGAGTATTGTGTCCAAAAATTGAGGAAAAATTTTTCGGGTCAAT
TTTTGCAAAATTTTAGCCGAAATCATGTACTATCCATCACGATTTTTGGCAAAAAACTGCGTTCC
GGGGCCCCGGCTCAGTTTTTCATGATTTTTTACGCCAAGACTCCTTGAAATATCTATATTCATCT
AACCAAATTTCAGCCACATTGGATTTAAGAATTTGTTTTTACGAGCATCTGAATCATATTTCGAT
TTAAATAG
Found at i:1752 original size:197 final size:197
Alignment explanation
Indices: 1405--1775 Score: 591
Period size: 197 Copynumber: 1.9 Consensus size: 197
1395 GGCATCTGAA
* *
1405 TCATATTTCGATTTTCTTAGAATTTAATTCATAAAAAATAGTAAAAACGATATTAGAAGCGTGAA
1 TCATATTTCGATTTTCTTAGAATGTAATTCATAAAAAATAGGAAAAACGATATTAGAAGCGTGAA
* *
1470 AATCCTTTCAATAATTTTGGCATTGAACTATATATTTTATACGAGTATTGTATCTAAAAATTGAG
66 AAACCTTTCAATAATTTTGGCATTGAACTATATATTTTATACGAGTATTGTATCCAAAAATTGAG
* *
1535 GAAAAACTTTTCATGTCAATTTCTGCAAAATTTTAGCTGAAATCGTGTACTATCCATCACGATTT
131 GAAAAACTTTTCAGGTCAATTTCTGCAAAATTTTAGCCGAAATCGTGTACTATCCATCACGATTT
1600 TT
196 TT
1602 TCATATTTCGATTTTCTTAGAATGTAATTCATAAAAAATAGGAAAAACGATATT-GAAAGCGTGA
1 TCATATTTCGATTTTCTTAGAATGTAATTCATAAAAAATAGGAAAAACGATATTAG-AAGCGTGA
** * * * *
1666 AAAACCTTTCAATCTTTTTGGCATTGGATTATATATTTTTTACGAGTATTGTGTCCAAAAATTGA
65 AAAACCTTTCAATAATTTTGGCATTGAACTATATATTTTATACGAGTATTGTATCCAAAAATTGA
* * *
1731 GGAAAAATTTTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATC
130 GGAAAAACTTTTCAGGTCAATTTCTGCAAAATTTTAGCCGAAATC
1776 ACGATTTTTG
Statistics
Matches: 158, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
196 1 0.01
197 157 0.99
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (197 bp):
TCATATTTCGATTTTCTTAGAATGTAATTCATAAAAAATAGGAAAAACGATATTAGAAGCGTGAA
AAACCTTTCAATAATTTTGGCATTGAACTATATATTTTATACGAGTATTGTATCCAAAAATTGAG
GAAAAACTTTTCAGGTCAATTTCTGCAAAATTTTAGCCGAAATCGTGTACTATCCATCACGATTT
TT
Found at i:2596 original size:318 final size:322
Alignment explanation
Indices: 1880--2837 Score: 1266
Period size: 318 Copynumber: 2.9 Consensus size: 322
1870 AACTCGTTAC
* * * *
1880 GGCCCCTGGCTCAGTTTTTCATGATTTTTTACGCCAAGACTCCTTAAAATATCTATATTAATCTA
1 GGCCCC-GGCTCAGTTATTCATAATTTTTTACGCCAAGACTCCTTGAAATATCTATATTCATCTA
* * * * * *
1945 ACCGAATCTCAACC-TATTGGATTTAAGAATTTGTTTTTACGAGCAGCTGAATCATATTTCGATT
65 ACCAAATTTCAGCCATATTGAATTTAAGGATTTGTTTTTACGA--AG--GAATCATA--T--ATA
* * *
2009 TAAATAGAAATTAATTCAGT-AAAAATAGGAAAAACGATATTGAAAGCGTGAAAAGCCTTTTAAT
122 T-CATAGAATTTAATTCA-TAAAAAATAGGAAAAACGATATTGAAAGCGTGAAAAGCCTTTCAAT
*
2073 CTTTTTGGCATTGAATTATATATTTTTTACGAGTATTGTGTCCAAAAATTGAGGAAAATCTTTCG
185 CTTTTTGGCATTGAATTATATATTTTTTACGAGTATTGTGTCCAAAAATTGAGGAAAATTTTTCG
* *
2138 GGTCAGTTTTCTGCAAAATTTTAGCCGAAATCATGTACTATCCATCACGATTTTTGGCTAAAACT
250 GGTCAATTTT-TGCAAAATTTTAGCCGAAATCATGTACTATCCATCACGAGTTTTGGCTAAAACT
2203 GCGTTCCGG
314 GCGTTCCGG
2212 GGCCCCGGCTCAGTTATTCATAATTTTTTACGCCAAGACTCCTTGAAATATCTATATTCATCTAA
1 GGCCCCGGCTCAGTTATTCATAATTTTTTACGCCAAGACTCCTTGAAATATCTATATTCATCTAA
* * *
2277 CCAAATTTCAGCCATATTGGATTTAAGGATTTGTTTTTACG-A-GCATC-TA-A-ATCATATAAT
66 CCAAATTTCAGCCATATTGAATTTAAGGATTTGTTTTTACGAAGGAATCATATATATCATAGAAT
*
2337 TTAATTCATAAAAAATAGGAAAAACGATATTGAAAGCGTGAAAAGCCTTTCAATCTTTTTGTCAT
131 TTAATTCATAAAAAATAGGAAAAACGATATTGAAAGCGTGAAAAGCCTTTCAATCTTTTTGGCAT
*
2402 TGAATTATATATTTTTTACGAGTATTGTGTCCAGAAATTGAGGAAAACTTTTTCGGGTCAATTTT
196 TGAATTATATATTTTTTACGAGTATTGTGTCCAAAAATTGAGGAAAA-TTTTTCGGGTCAATTTT
*
2467 TGCAAAATTTTAGCCGAAATTATGTACTATCCATCACGAGTTTTGGCTAAAACTGCGTTCCGG
260 TGCAAAATTTTAGCCGAAATCATGTACTATCCATCACGAGTTTTGGCTAAAACTGCGTTCCGG
* * *
2530 GGCCCCGGCTCAGTTTTTCATGAA-TTTTTACGCCAAGATTCGTTGAAATATCTATATTCATCTA
1 GGCCCCGGCTCAGTTATTCAT-AATTTTTTACGCCAAGACTCCTTGAAATATCTATATTCATCTA
2594 ACCAAATTTCAGCCATATTGAATTTAAGGATTTGTTTTTACGAACAAGTGAATCATATTTCGATT
65 ACCAAATTTCAGCCATATTGAATTTAAGGATTTGTTTTTACG---AAG-GAATCATA--T--A-T
* * ** * * * *
2659 TTCCTAGAATTTAATTCATAAAAAATAATAAAAACAATATTAAAAGCGTGAAAATCATTTCAATC
121 ATCATAGAATTTAATTCATAAAAAATAGGAAAAACGATATTGAAAGCGTGAAAAGCCTTTCAATC
* * * ** *
2724 TTTTTGGCATTGGATTATATATTTTTTACGAATATCGTGTTTAAAAATTGATGAAAAATTTTTCG
186 TTTTTGGCATTGAATTATATATTTTTTACGAGTATTGTGTCCAAAAATTGA-GGAAAATTTTTCG
* * *
2789 AGTCAATTTTTGCAAAATTTTAGCCAAAATCACGTACTATCCATCACGA
250 GGTCAATTTTTGCAAAATTTTAGCCGAAATCATGTACTATCCATCACGA
2838 TTAGTAAAGT
Statistics
Matches: 561, Mismatches: 46, Indels: 38
0.87 0.07 0.06
Matches are distributed among these distances:
317 1 0.00
318 272 0.48
319 18 0.03
320 1 0.00
322 1 0.00
324 4 0.01
325 4 0.01
326 4 0.01
329 1 0.00
330 1 0.00
331 65 0.12
332 184 0.33
333 5 0.01
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (322 bp):
GGCCCCGGCTCAGTTATTCATAATTTTTTACGCCAAGACTCCTTGAAATATCTATATTCATCTAA
CCAAATTTCAGCCATATTGAATTTAAGGATTTGTTTTTACGAAGGAATCATATATATCATAGAAT
TTAATTCATAAAAAATAGGAAAAACGATATTGAAAGCGTGAAAAGCCTTTCAATCTTTTTGGCAT
TGAATTATATATTTTTTACGAGTATTGTGTCCAAAAATTGAGGAAAATTTTTCGGGTCAATTTTT
GCAAAATTTTAGCCGAAATCATGTACTATCCATCACGAGTTTTGGCTAAAACTGCGTTCCGG
Found at i:3181 original size:14 final size:14
Alignment explanation
Indices: 3162--3190 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3152 TGGACCAATA
3162 ATTGTCTCTATGAT
1 ATTGTCTCTATGAT
3176 ATTGTCTCTATGAT
1 ATTGTCTCTATGAT
3190 A
1 A
3191 CGAGCTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (14 bp):
ATTGTCTCTATGAT
Done.