Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020726.1 Corchorus olitorius cultivar O-4 contig20759, 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: 72885
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:980 original size:332 final size:314
Alignment explanation
Indices: 287--1031 Score: 867
Period size: 332 Copynumber: 2.3 Consensus size: 314
277 AGCCATGTTC
* * * *
287 GATTTAAGTATTTGTTTTTACGAGGCATCTGAATCTTGTTTCAATTTAATTAAAAATTCATTCGG
1 GATTTAAGGATTTGTTTTTACGA-GCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGG
* * * * *
352 -AAAAAATGGAAAAACGATATTAGAAGCGTGAAAGGCCCATCAATCTTTTTGGCGTTGAATTATA
65 AAAAAAATGGAAAAATGATATTAAAAGCGTGAAAGGACCATAAATCTTTTTGGCGTTGAACTATA
* * *** * *
416 TATTTTTCTGAGTGTTGTGGCAAAAAATTGAGAAAAAACTTTGCCGATCAGTTTTTAGCCGAATT
130 TATTTTTCTGAGTATTGTGGCAAAAAATTGAAAAAAAAAAATGCCGATCAGATTTTAGCCGAAAT
*
481 CGTGTGTCACGGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGACTCAATTTTGCATGATTTTTG
195 CGTGTATCACGGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGACTCAATTTTGCATGATTTTTG
* *
546 GCGCAAAGACTCATTGAAATATCTATATTCATCAAACCAAATGTCAGGCACATTG
260 GCGCAAAGACTCATTGAAATATCTATATTCATCAAACCAAATCTCAGGCACATTA
* *
601 GATATAGGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGA
1 GATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGA
*
666 AAAAAATTGGAAAAATGATATTAAAAGCGTGGAAA-GACCATAAATCTTTTTGGTGTTGAACTAT
66 AAAAAA-TGGAAAAATGATATTAAAAGCGT-GAAAGGACCATAAATCTTTTTGGCGTTGAACTAT
* *
730 ATATTTTGTCTGAGTATTGTGGCAAAAAATTCAGAAAAAAAAAAAT-CGGGTCAGATTTTAGCCG
129 ATATTTT-TCTGAGTATTGTGGCAAAAAATT--GAAAAAAAAAAATGCCGATCAGATTTTAGCCG
* ** * * *
794 AAAATCGTGTACACCATCATGGTTTTTGGGCTAAAAACGCGTTTCGGGGGCCCCGCCTCAGTTTT
191 -AAATCGTGT-----ATCACGGTTTTT-GGCTAAAAACGCG-TTCCCGAGCCCCGACTCAATTTT
*
859 GCATGATTTTTGGCAG-AAAGACTCCA-TGAAATATCTATATTCATCTAACC-AATCTCAGGCTC
248 GCATGATTTTTGGC-GCAAAGACT-CATTGAAATATCTATATTCATCAAACCAAATCTCA-G---
921 TCTGCCACATTA
307 ---G-CACATTA
* *
933 GTTTTAAGGATTTG-TTTTACCGAGCATCTGAATATTGTTTCGATTTAATTAG-AATTAGATTCT
1 GATTTAAGGATTTGTTTTTA-CGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTA-ATTC-
* * *
996 GGAAAAAAATAGAAAAATGATATTTAAAGCGAGAAA
63 GGAAAAAAATGGAAAAATGATATTAAAAGCGTGAAA
1032 AATATTTCAA
Statistics
Matches: 366, Mismatches: 38, Indels: 37
0.83 0.09 0.08
Matches are distributed among these distances:
313 38 0.10
314 26 0.07
315 53 0.14
316 26 0.07
317 15 0.04
318 17 0.05
323 10 0.03
324 19 0.05
325 63 0.17
326 3 0.01
331 15 0.04
332 72 0.20
333 9 0.02
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (314 bp):
GATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGA
AAAAAATGGAAAAATGATATTAAAAGCGTGAAAGGACCATAAATCTTTTTGGCGTTGAACTATAT
ATTTTTCTGAGTATTGTGGCAAAAAATTGAAAAAAAAAAATGCCGATCAGATTTTAGCCGAAATC
GTGTATCACGGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGACTCAATTTTGCATGATTTTTGG
CGCAAAGACTCATTGAAATATCTATATTCATCAAACCAAATCTCAGGCACATTA
Found at i:1762 original size:320 final size:318
Alignment explanation
Indices: 1095--2208 Score: 1429
Period size: 320 Copynumber: 3.4 Consensus size: 318
1085 TTTTTTTTGT
* *
1095 TTTTGCATGATTTTTGGCAGAAAGACTCCATGAAATATCTATATTCATCGAA-C-AATCTCCCAG
1 TTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCT--CAG
* * * * * * *
1158 CCACGTTCGATTTAAGTATTTGTTTTTACGAGCATCTGAATCTTATTTCAAATTAATTAAAAATT
64 CCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAAAATTT
* *
1223 AATTCGGAAATAAATGGAAAAACGATATTAGAAGCGCGAAAAGCCCGTCAATCTTTTTGGCGTTG
129 AATTCGGAAA-AAATGGAAAAACGATATTAAAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTG
* * *
1288 AATTATATATTTTTTCGGAGTATTGTGGCAAAAAATCGAGAAAAAAACTTTTCCGAACAGTTTTT
193 AATTATATA-TTTTTCTGAGTATTGTGGCAAAAAATTGAG-AAAAAAC-TTTCCGATCAGTTTTT
* * *
1353 AACCGAAATCGTGTACTAACCATCACAGTTTTTGGCTAAAAATGAGTTCCCGAGCCCTGACTCAA
255 AGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGAGTTCCCGAGCCC-GACTCAA
*
1418 TTTTGCATGATTTTTGGC-GCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGC
1 TTTTGCATGATTTTTGGCAG-AAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGC
1482 CACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAAAATTTA
65 CACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAAAATTTA
*
1547 ATTCGGAAAAAATGTAAAAACGATATTAAAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAA
130 ATTCGGAAAAAATGGAAAAACGATATTAAAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAA
*
1612 TTATATATTTTTCTGAGTGTTGTGGCAAAAAATTGAGAAAAAACTTTGCCGATCAGTTTTTAGCC
195 TTATATATTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTT-CCGATCAGTTTTTAGCC
*
1677 GAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGTGTTCCCGAGCCCAGACTCAA
259 GAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGAGTTCCCGAGCCC-GACTCAA
* *
1738 TTTTGCATGATTTTTGG-TGCAAAGACTACTTGAAATATCTATATTCATCAAACCAAA-CGTCAG
1 TTTTGCATGATTTTTGGCAG-AAAGACTCCTTGAAATATCTATATTCATCAAACCAAATC-TCAG
* *
1801 CCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATT-AGATAT
64 CCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAAAAT-T
* * * * *
1865 TAACTCGGAAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGTGT
128 TAATTCGG-AAAAAA-TGGAAAAACGATATTAAAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGT
* *** * * *
1930 TGAATTATATATTTTTCTGAGTATTGTGGCAAAAAAATTCAGAAAAAGAAAATCGGGTCAGATTT
191 TGAATTATATATTTTTCTGAGTATTGTGGC-AAAAAATTGAGAAAAA-ACTTTCCGATCAGTTTT
* * * * * **
1995 TAGCCGAAAATCGTGTACTAACCATCATGGTTTTTAGGGCTAAAAACGCGTT-TCGGGGCCGGTT
254 TAGCCG-AAATCGTGTACTAACCATCACGGTTTTT--GGCTAAAAACGAGTTCCCGAGCCCGACT
*
2059 CAG
316 CAA
*
2062 TTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATTTCTATATTCAT-ATAACCAATCTCAGGC
1 TTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCA-AACCAA----A---
** * * *
2126 TCTCAGCCACATTATATTTAAGGATTTG-TTTTACGAGCATCTGAATATTGTTTCGATTTAATTA
58 TCTCAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTA
*
2190 GAAA-TAAATTCGGAAAAAA
123 -AAATTTAATTCGGAAAAAA
2209 AAAGGTTGAT
Statistics
Matches: 707, Mismatches: 58, Indels: 46
0.87 0.07 0.06
Matches are distributed among these distances:
319 6 0.01
320 203 0.29
321 33 0.05
322 134 0.19
323 150 0.21
324 83 0.12
325 10 0.01
326 14 0.02
328 1 0.00
329 6 0.01
330 41 0.06
331 23 0.03
332 3 0.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Consensus pattern (318 bp):
TTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCC
ACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAAAATTTAA
TTCGGAAAAAATGGAAAAACGATATTAAAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAAT
TATATATTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTCCGATCAGTTTTTAGCCGA
AATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGAGTTCCCGAGCCCGACTCAA
Found at i:3753 original size:886 final size:883
Alignment explanation
Indices: 1418--6688 Score: 6085
Period size: 886 Copynumber: 6.0 Consensus size: 883
1408 CCTGACTCAA
* * * * * *
1418 TTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGCC
1 TTTTGCATGATTTTTGACGTAAATACTCCTTGAAATATCTATATTCATCGAACAAAATCTCAGCC
* * * * *
1483 ACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAAAATTTAA
66 ACGTTCGATTTAAGTATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAAAAATTAA
* *
1548 TTCGGAAAAAATGTAAAAACGATATTAAAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAAT
131 TTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAAT
* *
1613 TATATA-TTTTTCTGAGTGTTGTGGCAAAAAATTGAGAAAAAACTTTGCCGATCAGTTTTTAGCC
196 TATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTCCGATCAGTTTTTAGCC
* *
1677 GAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGTGTTCCCGAGCCCAGACTCAATTTT
261 GAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGACTCAATTTT
* * *
1742 GCATGATTTTTGGTGCAAAGACTACTTGAAATATCTATATTCATCAAACCAAACGTCAGCCACAT
326 GCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGCCACAT
* *
1807 TGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGATATTAACTCG
391 TGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCG
1872 G-AAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGTGTTGAATT
456 GTAAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGTGTTGAATT
*
1936 ATATA-TTTTTCTGAGTATTGTGGCAAAAAAATTCAGAAAAAGAAAATCGGGTCAGATTTTAGCC
521 ATATATTTTTTCTGAGTATTGTGGC-AAAAAATTCAGAAAAAAAAAATCGGGTCAGATTTTAGCC
*
2000 GAAAATCGTGTACTAACCATCATGGTTTTTAGGGCTAAAAACGCGTTTCGGGG-CCGGTTCAGTT
585 GAAAATCGTGTACTAACCATCATGGTTTTT-GGGCTAAAAACGCGTTTCGGGGCCCGGCTCAGTT
* *
2064 TTGCATGATTTTTGGCAGAAAGACTCCTTGAAATTTCTATATTCATATAACCAATCTCAGGCTCT
649 TTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAATCTCAGGCTCT
*
2129 CAGCCACATTATATTTAAGGATTTG-TTTTACGAGCATCTGAATATTGTTTCGATTTAATTAGAA
714 CAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATTTAATTAGAA
** *
2193 ATAAATTCGGAAAAAAAA-AG---GTTGATATTTAAAGCGAGGAAAATATTT-AATTTTTTTTTT
779 ATAAATTCGGAAAAAAAATAGAAAAATGATATTTAAAGCGAGAAAAATATTTCAA-TTTTTTTTT
2253 GCGTTTGAATTGTGTATTTTTTGCCGAAA-ATATATTTTTTGT
843 GC-TTTGAATTGTGTATTTTTTGCCGAAATATAT-TTTTTTGT
* * * * *
2295 TTTTGCATGATTTTGGATGTAAATATTCCTTAAAATATCTATATTCATCGAACAAAATCCCAGCC
1 TTTTGCATGATTTTTGACGTAAATACTCCTTGAAATATCTATATTCATCGAACAAAATCTCAGCC
*
2360 ACGTTCGATTTAAGTATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTCATTAAAAATTAA
66 ACGTTCGATTTAAGTATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAAAAATTAA
* * *
2425 TTCGG-AAAAATGGAAAAACGATATTAGAAGTGTGAAAAACCCGACAATCTTTTTGGCGTTGAAT
131 TTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAAT
* *
2489 TTTATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTCCGAACAGTTTTTAGCC
196 TATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTCCGATCAGTTTTTAGCC
* * *
2554 GAATTCG-G--------GT-ACGATTTTTGGCTAAAAACGCGTTCCCGAGCCCCGACTCAATTTT
261 GAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGACTCAATTTT
2609 GCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGCCACAT
326 GCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGCCACAT
* *
2674 TGGATATAATGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTCATTC-
391 TGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCG
* * *
2738 GTAAAAAAATTGGAAAAATGATATTAAAAGCGTGGAAAGACCATCAATCTTTTTGTTGTTGAACT
456 GTAAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGTGTTGAATT
*
2803 ATATATTTTTTCTGAGTATTATGGCAAAAAATTCAGAAAAAAAAAATCGGGTCAGATTTTAGCCG
521 ATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAAAAAATCGGGTCAGATTTTAGCCG
* * *
2868 AAAATCGTGTACTAACTTATCATTGTTTTTGGGCTAAAAACGCGTTTCAGGGGCCCGCCTCAGTT
586 AAAATCGTGTACTAAC-CATCATGGTTTTTGGGCTAAAAACGCGTTTC-GGGGCCCGGCTCAGTT
* * * *
2933 TTGCATGATTTTTGGTAAAAAGACTCCATGAAATATCTATATTCATCTAATCAATCTCAGGCTCT
649 TTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAATCTCAGGCTCT
* * ** *
2998 CAGCTACATTAGATTTAAGGAATTGTTTTTACGAGCATCTGAATATTGTTTAAATTTGATTAGAA
714 CAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATTTAATTAGAA
*
3063 ATAGATTCGGAAAAAAAATAGAAAAATGATATTTAAAGCGAGAAAAATATTTCAA-TTTTTTTTG
779 ATAAATTCGGAAAAAAAATAGAAAAATGATATTTAAAGCGAGAAAAATATTTCAATTTTTTTTTG
*
3127 CTTTGAATTCTGTATTTTTTGCCGAAAATATATATTTTTTGT
844 CTTTGAATTGTGTATTTTTTGCCG-AAATATAT-TTTTTTGT
3169 TTTTGCATGATTTTTGACGTAAATACTCCTTGAAATATCTATAATT-ATCGAACAAAATCTCAGC
1 TTTTGCATGATTTTTGACGTAAATACTCCTTGAAATATCTAT-ATTCATCGAACAAAATCTCAGC
*
3233 CACGTTCGATTTAAGTATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAAAATTTA
65 CACGTTCGATTTAAGTATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAAAAATTA
*
3298 ATTCGGAAAAAAATAGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGA
130 ATTCGG-AAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGA
* * * *
3363 ATT-TCATATTTTTCCT-AGTATTGTGGCATAAAATTGAGAAAAAAAATATTCCGATCAGTTTTT
194 ATTAT-ATATTTTTTCTGAGTATTGTGGCAAAAAATTGAG-AAAAAACTTTTCCGATCAGTTTTT
* * ** *
3426 AGGCGAAATAGTGTACTAACCATCACAATTTTTGGCTAAAAACGCGTTCTCGAGCCCCGACTCAA
257 AGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGACTCAA
* *
3491 TTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTTATCAAACCAAATATCAGCC
322 TTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGCC
* * * *
3556 ACATTGGATATAAAGATTTGTTTTTACGAGAATCTGAATCTTGTTTCGATTTAATTTGATATTAA
387 ACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
* * * *
3621 TTCTG-AAAAAAATTTG-AAAATGATTTTAAAAGCGTGAAAAGACCATCAATCTTTTTGGTATTG
452 TTCGGTAAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGTGTTG
* * * *
3684 AATTATATA-TTTTTCTGATTATTGTGGTAAAAGATTCAGAAAAAAAAAATTTCAGGTCAGATTT
517 AATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAAAAAA--TCGGGTCAGATTT
* * * *
3748 TAGCCGAAAATTGTGTAGTAACCATCATGCTTTTTGGGCTAAAAACGCGTTTCGGGAGTCCTGGC
580 TAGCCGAAAATCGTGTACTAACCATCATGGTTTTTGGGCTAAAAACGCGTTTCGGG-G-CCCGGC
3813 TCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAA-CTTC
643 TCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAATC-TC
*
3877 AGGCTCTCAGCCACATTAGATTTAAGGAATTGTTTTTACGAGCATCTGAATATTGTTTCGATTTA
707 AGGCTCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATTTA
** *
3942 ATTAGAAATAAATTCGGGCAAAAAATAGAAAAATAATATTTAAAGCGAGAAAAATATTTCAAAAT
772 ATTAGAAATAAATTCGGAAAAAAAATAGAAAAATGATATTTAAAGCGAGAAAAATATTTC--AA-
*
4007 TTTTTTTTTGCGTTGAATTGTGTATTTTTTGCCGAAA-ATATTTTTTTTGT
834 TTTTTTTTTGCTTTGAATTGTGTATTTTTTGCCGAAATATA-TTTTTTTGT
* * ** * *
4057 TTTTGCATGATTTTTGACGTTAATATTTTTCTGAATTATCTATATTCATCGAACAAAATCCCAGC
1 TTTTGCATGATTTTTGACGTAAATACTCCT-TGAAATATCTATATTCATCGAACAAAATCTCAGC
* *
4122 CACGTTCAATTTAAGTATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAACTAAAAATTA
65 CACGTTCGATTTAAGTATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAAAAATTA
* * * * *
4187 ATACAGAAAAAAAATGGAAAAATGTTATTAGAAGCGTGAAAAGCCCGTCAGTCTTTTTGGCGTTG
130 ATTC-G-GAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTG
* * ** * *
4252 AATTATATATTTTTTTTGAGTATTGTGGCAAAAAATTCAGAAAAAAAATTTCGGGTCAGTTTTTA
193 AATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTCCGATCAGTTTTTA
* ** * * *
4317 GCCGAAAATCGTGTACTAACCATCATGGTTTTTGGGCTAAAAACGCGTTTCGGGGGCCCCGGCTT
258 GCCG-AAATCGTGTACTAACCATCACGGTTTTT-GGCTAAAAACGCG-TTCCCGAGCCCCGACTC
* * * *
4382 AGTTTTGCCTGATTTTTGGCAG-AAAAACTCCTTGAAATATTTATATTCATCTAACCAATCTCAG
320 AATTTTGCATGATTTTTGGC-GCAAAGACTCCTTGAAATATCTATATTCATC--A--AA-C-CA-
* * * * *
4446 ACTCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATTTAAT
377 AATGTCAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAAT
* * * ** * *
4511 TAGAAATGT-ATTCGG-AAAAGAA-TAGAAAAATGATATTTAAAGCAAGAAAAATATC-TCAATT
442 TAGAAAT-TAATTCGGTAAAAAAATTGGAAAAATGATATTAAAAGCGTG-AAAAGACCATCAA--
* * * * * * * * ** * **
4572 TTTTTTTTGAGTTGAATTGTGTATTTTTTGTTGAAAATATTTTTTTGGTTTTGC-ATGATTTTTG
503 TCTTTTTGGTGTTGAATTATATATTTTTT-CTG--AGTA-----TT-G--TGGCAAAAAATTCAG
*** * * ** ** * * * ** * * * * *
4636 ACGTAAATACTCCTTGAAAAATCTATATTCATCGAACAAAATCCCAGCCACGT-TCGAT-TTAAG
557 AAAAAAAAAAT-CGGGTCAGAT-TTTA-GC--CG---AAAAT-CGTG-TAC-TAACCATCAT-GG
* *** * ** * *** ** ** * ** ** *
4699 TATTTGTTTTTACGA-GCATTT-GAATCTTGTTTCAATTTAATTAAAAATTAATTCGG-A-AAA-
610 TTTTTGGGCTAAAAACGCGTTTCGGGGCCCGGCTCAGTTT--TGCATGATT--TTTGGCAGAAAG
* * * * * * * *** * * *
4759 A---ATAGAAAAAT-GATATT-A--GAAGC-GTGAAAAGC-C-C-GTCA-ATCT---TTT-TGG-
671 ACTCCTTGAAATATCTATATTCATCTAACCAATCTCAGGCTCTCAGCCACAT-TAGATTTAAGGA
* ** * * * *
4807 --CG---TT--GA--AT-TTCATATT-TTTCTGA-GTATTGTGGCAAA-AAATT--GAGAAAAAA
735 TTTGTTTTTACGAGCATCTGAATATTGTTTC-GATTTAAT-TAG-AAATAAATTCGGAAAAAAAA
****** * * ** ** *** * ** **
4857 TTTTCCGATCAGT-TTT-TAGCCGA-AATAGTGTACTAACCATCACCGTTTTTGGC-TAAAAACG
797 TAGAAAAATGA-TATTTAAAG-CGAGAA-A-AATA-T-TTCA--ATTTTTTTTTGCTTTGAATTG
* * *** *
4918 CGT-TCTCGAGCCCCG-ACTCA-A---------
854 TGTATTTTTTG--CCGAAAT-ATATTTTTTTGT
* * * *
4939 TTTTGCATGATTTTTG-CGCAAAGACTCCTTGAAATAACTATATTCAT-GAAACCAAA-CGTCAG
1 TTTTGCATGATTTTTGACGTAAATACTCCTTGAAATATCTATATTCATCG-AACAAAATC-TCAG
* * * * **
5001 CCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGCTTTAATTAAAAATT
64 CCACGTTCGATTTAAGTATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAAAAATT
* * * * ** *
5066 AATTCGGACAAAAATTGGAAAAATGATACTAAAAGCGTGAAAAGACTATCAATCTTTTTGGTGTT
129 AATTCGGA-AAAAA-TGGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTT
* *
5131 GAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTTCGAACAGTTTTT
192 GAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTCCGATCAGTTTTT
*
5196 AGCCGAATTCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGACTCAA
257 AGCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGACTCAA
5261 TTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGCC
322 TTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGCC
* * *
5326 ACATTGGATATAATGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTATAAATTCA
387 ACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA
* *
5391 TTC-GTAAAAAAATTGGAAAATTGATATTAAAAGCGTGGAAAGACCATCAATCTTTTTGGTGTTG
452 TTCGGTAAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGTGTTG
*
5455 AACTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAAAAAAATCGGGTCAGATTTT
517 AATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAG-AAAAAAAAAATCGGGTCAGATTTT
*
5520 AGCCGAAAATCGTGTACTAATCATCATGGTTTTTGGGCTAAAAACGCGTTTCGGGGGCCCCGGCT
581 AGCCGAAAATCGTGTACTAACCATCATGGTTTTTGGGCTAAAAACGCGTTTC-GGGG-CCCGGCT
* *
5585 TAGTTTTGCCTGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAATCTCAG
644 CAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAATCTCAG
*
5650 GCTCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGTATCTGAATATTGTTTCGATTTAAT
709 GCTCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATTTAAT
* * *
5715 TAAAAATAAATACAG-AAAAAAATAGAAAAATGATATTTAAAGCGAGAAAAATATTTCAAATTTT
774 TAGAAATAAATTCGGAAAAAAAATAGAAAAATGATATTTAAAGCGAGAAAAATATTTC-AATTTT
5779 TTTTTG-TGTTGAATTGTGTATTTTTTGCCGAAA-ATATTTTTTTGT
838 TTTTTGCT-TTGAATTGTGTATTTTTTGCCGAAATATATTTTTTTGT
* * * *
5824 TTTTTCATGATTTTTGACGTAAATACTCCTAGAAATATCTATATTCATCGAATAAAAAC-CAAGC
1 TTTTGCATGATTTTTGACGTAAATACTCCTTGAAATATCTATATTCATCGAACAAAATCTC-AGC
* * * * *
5888 CTCGTTCGATTTAAGTATTTGTTTTTACGCGCATGTGAATCTTTTTTCTATTTAATTAAAAATTA
65 CACGTTCGATTTAAGTATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAAAAATTA
* * *
5953 ATTCGGAAAAAATGAAAAAACGATATTAGAAGTGTGAAAAGCCTGTCAATCTTTTTGGCGTTGAA
130 ATTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAA
* * * *
6018 TTATATATTTTTTCTAAGTATTTTGACAAAAAAATTGAGAAAAAACTTTTCCGATAAGTTTTTAG
195 TTATATATTTTTTCTGAGTATTGTGGC-AAAAAATTGAGAAAAAACTTTTCCGATCAGTTTTTAG
* *** * *
6083 CCAAAATCGTGTACTAATTGTCACGGTTTTTGGCTAAAAACGCGTTCCCGAGCCTC-AATCAATT
259 CCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGACTCAATT
* * * *
6147 TTGCATGATTTGT-GCGCAAACACTCCTTGAAATATCTATATTCATGAAACCAAACGTCAGCCAC
324 TTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGCCAC
*
6211 ATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGCTTTAATTAGAAATTAATT
389 ATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATT
*
6276 CGGAAAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGTGTTGAA
454 CGGTAAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGTGTTGAA
*
6341 TTATATATTTTTTCTGAGTATTGTGGCAAAAAATCCAGAAAAAAAAAACATCGGGTCA-ATTTTT
519 TTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAG-AAAAAAAAA-ATCGGGTCAGA-TTTT
* *
6405 AGCTGAAAATCGTGTACTAACCATCATGGTTTTTGGGATAAAAACGCGTTTCGGGGGCCCTGGCT
581 AGCCGAAAATCGTGTACTAACCATCATGGTTTTTGGGCTAAAAACGCGTTTC-GGGGCCC-GGCT
* * *
6470 CAATTTTGCATGATTTTTGGCAGAAAGGCTCTTTGAAATATCTATATTCATCTAACCAATCTCAG
644 CAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAATCTCAG
* * * *
6535 GCCCTCAGCCACATTAGATTTTAGGATTTGTTTTTACGAGCATTTAAATATTGTTTCGATTTAAT
709 GCTCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATTTAAT
* * *
6600 TAAAAATAGATTCGG-AAAAAAATAGAAAAATAATATTTAAAGCGAGAAAAATATTTCAATTATT
774 TAGAAATAAATTCGGAAAAAAAATAGAAAAATGATATTTAAAGCGAGAAAAATATTTCAATT-TT
6664 TTTTTG-TGTTGAA-TGTGTATTTTTT
838 TTTTTGCT-TTGAATTGTGTATTTTTT
6689 CTGACTATTG
Statistics
Matches: 3685, Mismatches: 522, Indels: 367
0.81 0.11 0.08
Matches are distributed among these distances:
849 1 0.00
850 17 0.00
851 9 0.00
852 12 0.00
853 2 0.00
854 7 0.00
855 2 0.00
856 7 0.00
857 6 0.00
858 7 0.00
859 10 0.00
860 10 0.00
861 6 0.00
862 1 0.00
863 1 0.00
864 4 0.00
865 2 0.00
866 4 0.00
867 305 0.08
868 38 0.01
869 115 0.03
870 133 0.04
871 28 0.01
872 23 0.01
873 15 0.00
874 164 0.04
875 29 0.01
876 169 0.05
877 245 0.07
878 24 0.01
879 50 0.01
880 214 0.06
881 12 0.00
882 16 0.00
883 110 0.03
884 253 0.07
885 446 0.12
886 483 0.13
887 3 0.00
888 42 0.01
889 101 0.03
890 143 0.04
891 63 0.02
892 40 0.01
893 64 0.02
894 1 0.00
895 3 0.00
897 4 0.00
898 1 0.00
899 4 0.00
900 95 0.03
901 7 0.00
902 17 0.00
903 7 0.00
904 5 0.00
906 5 0.00
907 4 0.00
908 1 0.00
909 1 0.00
910 3 0.00
911 6 0.00
912 6 0.00
913 13 0.00
914 8 0.00
915 7 0.00
916 2 0.00
917 9 0.00
918 1 0.00
919 14 0.00
920 8 0.00
921 16 0.00
922 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (883 bp):
TTTTGCATGATTTTTGACGTAAATACTCCTTGAAATATCTATATTCATCGAACAAAATCTCAGCC
ACGTTCGATTTAAGTATTTGTTTTTACGAGCATCTGAATCTTGTTTCAATTTAATTAAAAATTAA
TTCGGAAAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAAT
TATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTCCGATCAGTTTTTAGCC
GAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGACTCAATTTT
GCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGCCACAT
TGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCG
GTAAAAAAATTGGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGTGTTGAATT
ATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAAAAAATCGGGTCAGATTTTAGCCG
AAAATCGTGTACTAACCATCATGGTTTTTGGGCTAAAAACGCGTTTCGGGGCCCGGCTCAGTTTT
GCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCTAACCAATCTCAGGCTCTCA
GCCACATTAGATTTAAGGATTTGTTTTTACGAGCATCTGAATATTGTTTCGATTTAATTAGAAAT
AAATTCGGAAAAAAAATAGAAAAATGATATTTAAAGCGAGAAAAATATTTCAATTTTTTTTTGCT
TTGAATTGTGTATTTTTTGCCGAAATATATTTTTTTGT
Found at i:5364 original size:323 final size:321
Alignment explanation
Indices: 4620--5764 Score: 1501
Period size: 323 Copynumber: 3.5 Consensus size: 321
4610 ATTTTTTTGG
* * * * * * *
4620 TTTTGCATGATTTTTGACGTAAATACTCCTTGAAAAATCTATATTCATCGAACAAAATCCCAGCC
1 TTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCC
* * * * * *
4685 ACGTTCGATTTAAGTATTTGTTTTTACGAGCATTTGAATCTTGTTTCAATTTAATTAAAAATTAA
66 ACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAA
* * * *
4750 TTCGGAAAAAA-TAGAAAAATGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGAA
131 TTCGGAAAAAATTAGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGTGTTGAA
*
4814 TT-TCATA-TTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAATTTTCCGATCAGTTTTTAGC
196 TTAT-ATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAATTTTTCGATCAGTTTTTAGC
* * *
4877 CGAAATAGTGTACTAACCATCACCGTTTTTGGCTAAAAACGCGTTCTCGAGCCCCGACTCAA
260 CGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGACTCAA
* *
4939 TTTTGCATGATTTTT-GCGCAAAGACTCCTTGAAATAACTATATTCATGAAACCAAA-CGTCAGC
1 TTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATC-TCAGC
*
5002 CACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGCTTTAATTAAAAATTA
65 CACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTA
* * *
5067 ATTCGGACAAAAATTGGAAAAATGATACTAAAAGCGTGAAAAGACTATCAATCTTTTTGGTGTTG
130 ATTCGGA-AAAAATTAGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGTGTTG
*
5132 AATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTTCGAACAGTTTTTA
194 AATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAA-TTTTTCGATCAGTTTTTA
*
5197 GCCGAATTCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGACTCAA
258 GCCGAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGACTCAA
*
5261 TTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGCC
1 TTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCC
* * *
5326 ACATTGGATATAATGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTATAAATTCA
66 ACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAA
* * * *
5391 TTCGTAAAAAAATTGGAAAATTGATATTAAAAGCGTGGAAAGACCATCAATCTTTTTGGTGTTGA
131 TTCG-GAAAAAATTAGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGTGTTGA
* * **** * *
5456 ACTATATATTTTTTCTGAGTATTGTGGCAAAAAATTCAGAAAAAAAAAAATCGGGTCAGATTTTA
195 ATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAG-AAAAAATTTTTC-GATCAGTTTTTA
* * ** * * *
5521 GCCGAAAATCGTGTACTAATCATCATGGTTTTTGGGCTAAAAACGCGTTTCGGGGGCCCCGGCTT
258 GCCG-AAATCGTGTACTAACCATCACGGTTTTT-GGCTAAAAACGCG-TTCCCGAGCCCCGACTC
*
5586 AG
320 AA
* *
5588 TTTTGCCTGATTTTTGGCAG-AAAGACTCCTTGAAATATCTATATTCATCTAACCAATCTCAGGC
1 TTTTGCATGATTTTTGGC-GCAAAGACTCCTTGAAATATCTATATTCATCAAACCAA----A---
* * * *
5652 TCTCAGCCACATTAGATTTAAGGATTTGTTTTTACGAGTATCTGAATATTGTTTCGATTTAATTA
58 TCTCAGCCACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTA
* * * * * *
5717 AAAATAAATACAGAAAAAAATAGAAAAATGATATTTAAAGCGAGAAAA
123 AAAATTAATTCGGAAAAAATTAGAAAAATGATATTAAAAGCGTGAAAA
5765 ATATTTCAAA
Statistics
Matches: 725, Mismatches: 79, Indels: 30
0.87 0.09 0.04
Matches are distributed among these distances:
317 1 0.00
318 102 0.14
319 20 0.03
320 51 0.07
321 37 0.05
322 91 0.13
323 203 0.28
324 20 0.03
325 25 0.03
326 13 0.02
327 65 0.09
328 1 0.00
331 1 0.00
333 29 0.04
334 66 0.09
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Consensus pattern (321 bp):
TTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCC
ACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAAAAATTAA
TTCGGAAAAAATTAGAAAAATGATATTAAAAGCGTGAAAAGACCATCAATCTTTTTGGTGTTGAA
TTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGAAAAAATTTTTCGATCAGTTTTTAGCC
GAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCCGAGCCCCGACTCAA
Found at i:8148 original size:318 final size:321
Alignment explanation
Indices: 7530--8768 Score: 1504
Period size: 318 Copynumber: 3.9 Consensus size: 321
7520 TTTGCAAAAC
* * * * *
7530 TTTATCCGAAATCGTTTAC--TCATCACGGCTTATGGCTAAAAACGCGTTCCGGGGCCCCGGCTC
1 TTTAGCCGAAATCGTGTACTATCATCACGGATTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTC
* * * * *
7593 AGTTTTGCAAGATTTTTGGCGTAAAGGCTCCTTGAAAATATCTATATTCATCGAACCAAATCCCA
66 AATTTTGCATGATTTTTGGCGCAAAGACTCCTTG-AAATATCTATATTCATCGAACCAAATCTCA
* * * * *
7658 GTCATATTGAATATATGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGACTTAATTAGAAAT
130 GCCATATTGGATATAAGGATTTGTTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAAT
* *
7723 TAATTC-GG-AAAAATGGAAAAACGATATTAGAAGCGTGAAAAGCTCGTCAATCTTTTTGGCGTT
195 TAATTCAGGAAAAAAT-AAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTT
* * * *
7786 GAATTATATATTTTTTCTGAGTATTGTGGCAAAAATTTGATAAAAAAACTTTTAGGGTCCGTT
259 GAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGATAAAAACTTTTAGGGTCAGTT
* * *
7849 TTTAGCCGAAATCGTGTA-T-TCATCACAG-TTTTCGGCTAAAAACGCGTTCCGGAGCTCTGGCT
1 TTTAGCCGAAATCGTGTACTATCATCACGGATTTT-GGCTAAAAACGCGTTCCGGAGCCCCGGCT
*
7911 CAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATTTTCATCGAACCAAATCTCA
65 CAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCA
* * *
7976 GTCATATTGGATATAAGGATTTATTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAGAAAT
130 GCCATATTGGATATAAGGATTTGTTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAAT
*
8041 TAATTC-GGAAAAAA-AAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGTGTTG
195 TAATTCAGGAAAAAATAAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTG
* *
8104 AATTATATA-TTTTTCTGAGTATTGTGGCAAAAAATTGAGATAAAAA-TTTTTGGGTCGGTT
260 AATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGATAAAAACTTTTAGGGTCAGTT
* * * * * * *
8164 TTTAGCCAAAATCATGTACTAACCATCACGGTTTTTGGCTAAAAACGCATTTCAGAGCCCCGGCT
1 TTTAGCCGAAATCGTGTACT-ATCATCACGGATTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCT
** *
8229 CAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGATTTATCTATATTCATCGAACCAAATGTCA
65 CAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCA
* * * * *
8294 GCCACATTGGATATGAGGATTTGTTTTTACGAGCATCTGAATATTATTTCGATTTAATTAGAAAT
130 GCCATATTGGATATAAGGATTTGTTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAAT
* * * * *
8359 TAATTCGGGAAAAAATGAAAAAACGATATTGGAAGCGTGAAAAACCCGTTAATCTTTTTGGAGTT
195 TAATTCAGGAAAAAAT-AAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTT
* **
8424 GAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAG--AGAAACTTTCGGGGTCAGTT
259 GAATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGATAAAAACTTTTAGGGTCAGTT
* * * * * * * * * *
8485 TTCAGCCGAAATCGTGTACTAACTATCACTGATTGTGACTAAAAACGCCTTCCGGGGTCACGGTT
1 TTTAGCCGAAATCGTGTACTATC-ATCACGGATTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCT
** * * ** * * * *
8550 CTGTTTTGCATGGTTTTTGGTGCTGAGACTCCTTAAAATATCTTTATT-AGTCTAATCAAATCT-
65 CAATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCA-TCGAACCAAATCTC
* **
8613 AGGCCATATTGGATTTAAGGATTTGTTTTTAC-ATGCATCAGAATCTTGTTTCGATTTAATTAGA
129 A-GCCATATTGGATATAAGGATTTGTTTTTACGA-GCATCTCAATCTTGTTTCGATTTAATTAGA
* * *
8677 AATTAATTCAGAAAAAAATATGAAAAACGATATTAAAAGCGTGAAAAGTCC-TCCAATCTTTTTG
192 AATTAATTCAGGAAAAAATA--AAAAACGATATTAGAAGCGTGAAAAGCCCGT-CAATCTTTTTG
* *
8741 GCGTTCAATTATATATATTTTTATGAGT
254 GCGTTGAATTATATAT-TTTTTCTGAGT
8769 GTTTTTACCA
Statistics
Matches: 802, Mismatches: 98, Indels: 36
0.86 0.10 0.04
Matches are distributed among these distances:
315 28 0.03
316 35 0.04
317 55 0.07
318 255 0.32
319 98 0.12
320 10 0.01
321 232 0.29
322 79 0.10
323 10 0.01
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (321 bp):
TTTAGCCGAAATCGTGTACTATCATCACGGATTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTC
AATTTTGCATGATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAG
CCATATTGGATATAAGGATTTGTTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATT
AATTCAGGAAAAAATAAAAAACGATATTAGAAGCGTGAAAAGCCCGTCAATCTTTTTGGCGTTGA
ATTATATATTTTTTCTGAGTATTGTGGCAAAAAATTGAGATAAAAACTTTTAGGGTCAGTT
Found at i:8663 original size:639 final size:640
Alignment explanation
Indices: 7550--8761 Score: 1624
Period size: 639 Copynumber: 1.9 Consensus size: 640
7540 ATCGTTTACT
* * * * *
7550 CATCACGGCTTATGGCTAAAAACGCGTTCCGGGGCCCCGGCTCAGTTTTGCAAGATTTTTGGCGT
1 CATCACGGCTTATGGCTAAAAACGCATTCCAGAGCCCCGGCTCAATTTTGCAAGATTTTTGGCGC
* * *
7615 AAAGGCTCCTTGAAAATATCTATATTCATCGAACCAAATCCCAGTCATATTGAATATATGGATTT
66 AAAGACTCCTTGAAAATATCTATATTCATCGAACCAAATCCCAGCCACATTGAATATATGGATTT
* * * *
7680 GTTTTTTCGAGCATCTCAATCTTGTTTCGACTTAATTAGAAATTAATTCGGAAAAATGGAAAAAC
131 GTTTTTACGAGCATCTCAATATTATTTCGACTTAATTAGAAATTAATTCGGAAAAATGAAAAAAC
* * *
7745 GATATTAGAAGCGTGAAAAGCTCGTCAATCTTTTTGGCGTTGAATTATATATTTTTTCTGAGTAT
196 GATATTAGAAGCGTGAAAAACCCGTCAATCTTTTTGGAGTTGAATTATATATTTTTTCTGAGTAT
* * * * *
7810 TGTGGCAAAAATTTGATAAAAAAACTTTTAGGGTCCGTTTTTAGCCGAAATCGTGTATTCATCAC
261 TGTGGCAAAAAATTGA-AAAAAAACTTTCAGGGTCAGTTTTCAGCCGAAATCGTGTATACATCAC
* * * *
7875 AGTTTTCGGCTAAAAACGCGTTCCGGAGCTCTGGCTCAATTTTGCATGATTTTTGGCGCAAAGAC
325 AGTTGTCGACTAAAAACGCCTTCCGGAGCTCCGGCTCAATTTTGCATGATTTTTGGCGCAAAGAC
* * *
7940 TCCTTGAAATATCTATTTTCATCGAACCAAATCTCAGTCATATTGGATATAAGGATTTATTTTTT
390 TCCTTAAAATATCTATTTTCATCGAACCAAATCTCAGCCATATTGGATATAAGGATTTATTTTTA
* *
8005 CGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTC-GGAAAAAA-A-AAAAACGATAT
455 CGAGCATCACAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAAATAGAAAAACGATAT
* * *
8067 TAGAAGCGTGAAAAGCCCGT-CAATCTTTTTGGTGTTGAATTATATAT-TTTTCTGAGTATTGTG
520 TAAAAGCGTGAAAAGCCC-TCCAATCTTTTTGGCGTTCAATTATATATATTTTCTGAGTATTGTG
8130 GCAAAAAATTGAGATAAAAATTTTTGGGTCGGTTTTTAGCCAAAATCATGTACTAAC
584 GCAAAAAATTGAGATAAAAATTTTTGGGTCGGTTTTTAGCCAAAATCATGTACTAAC
* * * *
8187 CATCACGGTTTTTGGCTAAAAACGCATTTCAGAGCCCCGGCTCAATTTTGCATGATTTTTGGCGC
1 CATCACGGCTTATGGCTAAAAACGCATTCCAGAGCCCCGGCTCAATTTTGCAAGATTTTTGGCGC
** ** *
8252 AAAGACTCCTTG-ATTTATCTATATTCATCGAACCAAATGTCAGCCACATTGGATATGA-GGATT
66 AAAGACTCCTTGAAAATATCTATATTCATCGAACCAAATCCCAGCCACATTGAATAT-ATGGATT
* *
8315 TGTTTTTACGAGCATCTGAATATTATTTCGATTTAATTAGAAATTAATTCGGGAAAAAATGAAAA
130 TGTTTTTACGAGCATCTCAATATTATTTCGACTTAATTAGAAATTAATTC-GG-AAAAATGAAAA
* *
8380 AACGATATTGGAAGCGTGAAAAACCCGTTAATCTTTTTGGAGTTGAATTATATATTTTTTCTGAG
193 AACGATATTAGAAGCGTGAAAAACCCGTCAATCTTTTTGGAGTTGAATTATATATTTTTTCTGAG
* * *
8445 TATTGTGGCAAAAAATTG-AGAGAAACTTTCGGGGTCAGTTTTCAGCCGAAATCGTGTACTAACT
258 TATTGTGGCAAAAAATTGAAAAAAAACTTTCAGGGTCAGTTTTCAGCCGAAATCGTGTA-T-AC-
* * * ** * *
8509 ATCACTGATTGT-GACTAAAAACGCCTTCCGG-GGTCACGGTTCTGTTTTGCATGGTTTTTGGTG
320 ATCACAG-TTGTCGACTAAAAACGCCTTCCGGAGCTC-CGGCTCAATTTTGCATGATTTTTGGCG
** * * *
8572 CTGAGACTCCTTAAAATATCT-TTATT-AGTCTAATCAAATCT-AGGCCATATTGGATTTAAGGA
383 CAAAGACTCCTTAAAATATCTATT-TTCA-TCGAACCAAATCTCA-GCCATATTGGATATAAGGA
* *
8634 TTTGTTTTTAC-ATGCATCAGAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAAATAT
445 TTTATTTTTACGA-GCATCACAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAAATA-
*
8698 GAAAAACGATATTAAAAGCGTGAAAAGTCCTCCAATCTTTTTGGCGTTCAATTATATATATTTT
508 GAAAAACGATATTAAAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTCAATTATATATATTTT
8762 TATGAGTGTT
Statistics
Matches: 494, Mismatches: 63, Indels: 29
0.84 0.11 0.05
Matches are distributed among these distances:
636 121 0.24
637 71 0.14
638 96 0.19
639 138 0.28
640 10 0.02
641 1 0.00
642 1 0.00
643 52 0.11
644 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (640 bp):
CATCACGGCTTATGGCTAAAAACGCATTCCAGAGCCCCGGCTCAATTTTGCAAGATTTTTGGCGC
AAAGACTCCTTGAAAATATCTATATTCATCGAACCAAATCCCAGCCACATTGAATATATGGATTT
GTTTTTACGAGCATCTCAATATTATTTCGACTTAATTAGAAATTAATTCGGAAAAATGAAAAAAC
GATATTAGAAGCGTGAAAAACCCGTCAATCTTTTTGGAGTTGAATTATATATTTTTTCTGAGTAT
TGTGGCAAAAAATTGAAAAAAAACTTTCAGGGTCAGTTTTCAGCCGAAATCGTGTATACATCACA
GTTGTCGACTAAAAACGCCTTCCGGAGCTCCGGCTCAATTTTGCATGATTTTTGGCGCAAAGACT
CCTTAAAATATCTATTTTCATCGAACCAAATCTCAGCCATATTGGATATAAGGATTTATTTTTAC
GAGCATCACAATCTTGTTTCGATTTAATTAGAAATTAATTCAGAAAAAAATAGAAAAACGATATT
AAAAGCGTGAAAAGCCCTCCAATCTTTTTGGCGTTCAATTATATATATTTTCTGAGTATTGTGGC
AAAAAATTGAGATAAAAATTTTTGGGTCGGTTTTTAGCCAAAATCATGTACTAAC
Found at i:11232 original size:54 final size:53
Alignment explanation
Indices: 11125--11234 Score: 150
Period size: 54 Copynumber: 2.1 Consensus size: 53
11115 AAAGTGCAAC
* *
11125 ATCTACAAACCAAACGGGTGAGCTGAGATTACCACCCAAGATCACCGCGGGTG
1 ATCTACAAACCAAACGGGTGAGCTGAGATTACCACCCAAAATCACCGCAGGTG
* * *
11178 ATCTGCAAACCAAACGAGGTGATCTGAGATTACCACTCAAAATCACCAG-AGGTG
1 ATCTACAAACCAAACG-GGTGAGCTGAGATTACCACCCAAAATCACC-GCAGGTG
11232 ATC
1 ATC
11235 AAAGATCACC
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 15 0.30
54 34 0.68
55 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (53 bp):
ATCTACAAACCAAACGGGTGAGCTGAGATTACCACCCAAAATCACCGCAGGTG
Found at i:13784 original size:27 final size:28
Alignment explanation
Indices: 13727--13784 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 28
13717 TTCTTGGTCT
*
13727 AAATGAATAATTTACTCGTGGAAATTTGA
1 AAATGAATAATTTACTC-TGGAAATTAGA
13756 AAATGAATAATTTACT-TGGAAATTAGA
1 AAATGAATAATTTACTCTGGAAATTAGA
13783 AA
1 AA
13785 GGATATGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 12 0.43
29 16 0.57
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.33
Consensus pattern (28 bp):
AAATGAATAATTTACTCTGGAAATTAGA
Found at i:15660 original size:31 final size:31
Alignment explanation
Indices: 15625--15684 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
15615 TCTAAAGTGG
* *
15625 CAGTCCATTTAAACTCAAGGGTGCAAAGTAA
1 CAGTCCATATAAACTCAAGAGTGCAAAGTAA
*
15656 CAGTCCGTATAAACTCAAGAGTGCAAAGT
1 CAGTCCATATAAACTCAAGAGTGCAAAGT
15685 GGCATTTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (31 bp):
CAGTCCATATAAACTCAAGAGTGCAAAGTAA
Found at i:19021 original size:42 final size:43
Alignment explanation
Indices: 18970--19063 Score: 138
Period size: 45 Copynumber: 2.2 Consensus size: 43
18960 AGTGCATTAC
*
18970 CTAA-ATTCTACTCC-ATCTCTAGGTAATTCATCAAAATAAAG
1 CTAATATTCTACTCCTATCTCTAGATAATTCATCAAAATAAAG
*
19011 CTAATATTCTACTCCTGTATTTCTAGATAATTCATCAAAATAAAG
1 CTAATATTCTACTCC--TATCTCTAGATAATTCATCAAAATAAAG
19056 CTAATATT
1 CTAATATT
19064 ATTTGTTGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
41 4 0.09
42 10 0.21
45 33 0.70
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.36
Consensus pattern (43 bp):
CTAATATTCTACTCCTATCTCTAGATAATTCATCAAAATAAAG
Found at i:21075 original size:21 final size:21
Alignment explanation
Indices: 21051--21098 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
21041 TTGATTACAT
*
21051 TCTCATATGTACAGTATCTAA
1 TCTCATATGTACAGTAACTAA
*
21072 TCTCATCTGTACAGTAACTAA
1 TCTCATATGTACAGTAACTAA
21093 TCTCAT
1 TCTCAT
21099 TGCCACCGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (21 bp):
TCTCATATGTACAGTAACTAA
Found at i:21334 original size:15 final size:15
Alignment explanation
Indices: 21289--21327 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 15
21279 TAATTTAAAC
21289 ATTTTACTTATATTTTTT
1 ATTTTACTTATA---TTT
21307 ATTTTACTTATATTT
1 ATTTTACTTATATTT
21322 ATTTTA
1 ATTTTA
21328 TTCATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
18 12 0.57
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTACTTATATTT
Found at i:21380 original size:39 final size:39
Alignment explanation
Indices: 21335--21418 Score: 100
Period size: 39 Copynumber: 2.1 Consensus size: 39
21325 TTATTCATAT
21335 ATATATATAAA-CTAAATAATTTAATTAAA-AAATTAAAATAC
1 ATATATA-AAAGCTAAA-AATTT-ATTAAATAAA-TAAAATAC
* *
21376 ATATATAAAAGTTAAAAATTTATTAAATAAATATAATAC
1 ATATATAAAAGCTAAAAATTTATTAAATAAATAAAATAC
21415 ATAT
1 ATAT
21419 TTATGTTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
39 17 0.44
40 11 0.28
41 11 0.28
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.36
Consensus pattern (39 bp):
ATATATAAAAGCTAAAAATTTATTAAATAAATAAAATAC
Found at i:23949 original size:21 final size:21
Alignment explanation
Indices: 23894--23949 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
23884 ACTGCTCTAA
23894 TAATCTCATTTGTACAGTATC
1 TAATCTCATTTGTACAGTATC
* * * *
23915 TAATATAATCTGTACAGTATG
1 TAATCTCATTTGTACAGTATC
23936 TAATCTCATTTGTA
1 TAATCTCATTTGTA
23950 TAGTTATTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (21 bp):
TAATCTCATTTGTACAGTATC
Found at i:26649 original size:15 final size:15
Alignment explanation
Indices: 26626--26669 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
26616 CTTATCAGGA
26626 TCTTCTTCTTCCTCTT
1 TCTT-TTCTTCCTCTT
26642 TCTTTTCTTCCTCTT
1 TCTTTTCTTCCTCTT
* *
26657 CCTCTTCTTCCTC
1 TCTTTTCTTCCTC
26670 GGGAGGATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (15 bp):
TCTTTTCTTCCTCTT
Found at i:29659 original size:31 final size:31
Alignment explanation
Indices: 29595--29660 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
29585 GCCCTTTACC
* * *
29595 TTTTCAAAATGATCAAATAAATCCTCTATCT
1 TTTTCAAAATGACCAAATAAATCCTCAAACT
29626 TTTTCAAAATGACCAAAT-AATCTCTCAAACT
1 TTTTCAAAATGACCAAATAAATC-CTCAAACT
29657 TTTT
1 TTTT
29661 TTCAAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.39
Consensus pattern (31 bp):
TTTTCAAAATGACCAAATAAATCCTCAAACT
Found at i:30479 original size:128 final size:126
Alignment explanation
Indices: 30237--30466 Score: 335
Period size: 122 Copynumber: 1.8 Consensus size: 126
30227 CCATTTTAAA
* * * *
30237 TAAATGCATCAAGCATCGTTTTTGCGCGTCACACAATATCATCATGCACATGCACAAATCCAGTA
1 TAAAAGCATCAAGCATCGTTTTTGCGCGT-ACACAATATCATCATGAACA-GAACAAATCCAATA
*
30302 AATATAGTAATAGTAAAATGACTAGTGGAAATTTTCATTTTGAACAAATGGTACTATGGATTT
64 AATATAGTAATAGTAAAATGACTAGTGGAAATTTTCATTTTCAACAAATGGTACTATGGATTT
* *
30365 TAAAAGCATCAAGCATCGTTTTTGCGCGT-CACAATATCA-CATGAACA-AATATATCCAATAAA
1 TAAAAGCATCAAGCATCGTTTTTGCGCGTACACAATATCATCATGAACAGAACAAATCCAATAAA
30427 TA-A-TCAATAGTAAAATGACTAGTGGAAATTTTCATTTTCA
66 TATAGT-AATAGTAAAATGACTAGTGGAAATTTTCATTTTCA
30467 TTTTCATCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
121 1 0.01
122 35 0.37
123 13 0.14
125 7 0.07
126 10 0.11
128 28 0.30
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.31
Consensus pattern (126 bp):
TAAAAGCATCAAGCATCGTTTTTGCGCGTACACAATATCATCATGAACAGAACAAATCCAATAAA
TATAGTAATAGTAAAATGACTAGTGGAAATTTTCATTTTCAACAAATGGTACTATGGATTT
Found at i:36447 original size:31 final size:31
Alignment explanation
Indices: 36409--36472 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
36399 TGAAGATGAG
36409 ATTAGTTTTCTTGTTTGCTTACCTTTGCCCT
1 ATTAGTTTTCTTGTTTGCTTACCTTTGCCCT
36440 ATTAGTTTTCTTGTTTGCTTACCTTTGCCCT
1 ATTAGTTTTCTTGTTTGCTTACCTTTGCCCT
36471 AT
1 AT
36473 GCCGTTTGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.11, C:0.22, G:0.12, T:0.55
Consensus pattern (31 bp):
ATTAGTTTTCTTGTTTGCTTACCTTTGCCCT
Found at i:39336 original size:17 final size:17
Alignment explanation
Indices: 39316--39348 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39306 GTTTTGACAT
39316 TTTTTAAAATAATATTC
1 TTTTTAAAATAATATTC
*
39333 TTTTTAATATAATATT
1 TTTTTAAAATAATATT
39349 AAAATATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTTAAAATAATATTC
Found at i:39426 original size:32 final size:32
Alignment explanation
Indices: 39390--39452 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
39380 TTATTTCTGA
39390 TTTAACAGATAATATAAATTGTATTTAACGAT
1 TTTAACAGATAATATAAATTGTATTTAACGAT
39422 TTTAACAGATAATATAAATTGTATTTAACGA
1 TTTAACAGATAATATAAATTGTATTTAACGA
39453 AGTGTCACGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (32 bp):
TTTAACAGATAATATAAATTGTATTTAACGAT
Found at i:66495 original size:79 final size:79
Alignment explanation
Indices: 66364--66514 Score: 275
Period size: 79 Copynumber: 1.9 Consensus size: 79
66354 TGTAAAAGTA
* *
66364 ATATAAACAGATTAATACTCCAAAAAACTGAAACAGAACATAGTTGTAAGAATTATTCTAAATCA
1 ATATAAACAGATTAATACTCCAAAAAACTGAAACAGAACAGAGCTGTAAGAATTATTCTAAATCA
66429 TACACCTTGTCTTT
66 TACACCTTGTCTTT
*
66443 ATATAAACAGATTAATACTCCAAAAAACTGAAACAGAACAGAGCTGTAAGAATTATTCTGAATCA
1 ATATAAACAGATTAATACTCCAAAAAACTGAAACAGAACAGAGCTGTAAGAATTATTCTAAATCA
66508 TACACCT
66 TACACCT
66515 CTTAATATGA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (79 bp):
ATATAAACAGATTAATACTCCAAAAAACTGAAACAGAACAGAGCTGTAAGAATTATTCTAAATCA
TACACCTTGTCTTT
Found at i:68362 original size:13 final size:13
Alignment explanation
Indices: 68346--68370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68336 TTGGTTTGGA
68346 AAAAGTGTTTTTG
1 AAAAGTGTTTTTG
68359 AAAAGTGTTTTT
1 AAAAGTGTTTTT
68371 TTAAATTGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
AAAAGTGTTTTTG
Done.