Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold293
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: 1704560
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 5 of 12
Found at i:627826 original size:22 final size:20
Alignment explanation
Indices: 627796--627835 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
627786 AGTTTAATAT
*
627796 TATATATTTATTAATTATATGA
1 TATAAATTTA-TAA-TATATGA
627818 TATAAATTTATAATATAT
1 TATAAATTTATAATATAT
627836 TATGTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 3 0.18
22 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TATAAATTTATAATATATGA
Found at i:628109 original size:3 final size:3
Alignment explanation
Indices: 628103--628137 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
628093 ATAGAAGAAA
628103 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
628138 AAAAAAGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:635311 original size:5 final size:5
Alignment explanation
Indices: 635301--635328 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
635291 ATTCTTGCCC
635301 ATTAA ATTAA ATTAA ATTAA ATTAA ATT
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATT
635329 CTTCAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATTAA
Found at i:637526 original size:18 final size:17
Alignment explanation
Indices: 637483--637526 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
637473 TCTCGAATTT
637483 TATTTTATTTCAAAAAA
1 TATTTTATTTCAAAAAA
*
637500 TATTATTATTTCAAATAAC
1 TATT-TTATTTCAAA-AAA
637519 TATTTTAT
1 TATTTTAT
637527 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 14 0.58
19 6 0.25
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTTTATTTCAAAAAA
Found at i:638931 original size:21 final size:21
Alignment explanation
Indices: 638907--638947 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
638897 AAGCCTTAGC
* *
638907 TCCTTCCTTAATTTACAAAAA
1 TCCTTCATTAATTAACAAAAA
638928 TCCTTCATTAATTAACAAAA
1 TCCTTCATTAATTAACAAAA
638948 CCAAACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (21 bp):
TCCTTCATTAATTAACAAAAA
Found at i:639358 original size:6 final size:6
Alignment explanation
Indices: 639349--639414 Score: 52
Period size: 6 Copynumber: 11.3 Consensus size: 6
639339 TTAATAATTT
* *
639349 TAAATA TAAATGA T-AATA -AAATA TAAAAA TAATTA -AAATA T-AATA
1 TAAATA TAAAT-A TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA
639394 T-AATA TTAATATA TAAATA TA
1 TAAATA -TAA-ATA TAAATA TA
639415 TCAATATTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
5 18 0.37
6 22 0.45
7 6 0.12
8 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (6 bp):
TAAATA
Found at i:639380 original size:16 final size:17
Alignment explanation
Indices: 639350--639412 Score: 74
Period size: 17 Copynumber: 3.6 Consensus size: 17
639340 TAATAATTTT
*
639350 AAATATAAATGATAATA
1 AAATATAAATAATAATA
639367 AAATATAAA-AATAATTA
1 AAATATAAATAATAA-TA
*
639384 AAATATAATATAATATTA
1 AAATATAA-ATAATAATA
*
639402 ATATATAAATA
1 AAATATAAATA
639413 TATCAATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
16 4 0.10
17 22 0.55
18 10 0.25
19 4 0.10
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAATATAAATAATAATA
Found at i:639403 original size:22 final size:24
Alignment explanation
Indices: 639363--639414 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
639353 TATAAATGAT
*
639363 AATAAAATATAAAAATAAT-TA-A
1 AATATAATATAAAAATAATATATA
* *
639385 AATATAATATAATATTAATATATA
1 AATATAATATAAAAATAATATATA
639409 AATATA
1 AATATA
639415 TCAATATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 16 0.64
23 2 0.08
24 7 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AATATAATATAAAAATAATATATA
Found at i:639415 original size:16 final size:16
Alignment explanation
Indices: 639348--639443 Score: 68
Period size: 18 Copynumber: 5.7 Consensus size: 16
639338 TTTAATAATT
639348 TTAA-ATATAAATGATA
1 TTAATATATAAAT-ATA
* * *
639364 ATAAAATATAAAAATAA
1 TTAATATATAAATAT-A
*
639381 TTAAAATATAATATAATA
1 TTAATATATAA-AT-ATA
639399 TTAATATATAAATATA
1 TTAATATATAAATATA
* * *
639415 TCAATATTTATATATAAA
1 TTAATA--TATAAATATA
639433 TTAATATATAA
1 TTAATATATAA
639444 TTTAAAAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
16 17 0.27
17 20 0.31
18 25 0.39
19 2 0.03
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (16 bp):
TTAATATATAAATATA
Found at i:639420 original size:22 final size:21
Alignment explanation
Indices: 639391--639433 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
639381 TTAAAATATA
639391 ATATAATATTAATATATAAAT
1 ATATAATATTAATATATAAAT
*
639412 ATATCAATATTTATATATAAAT
1 ATAT-AATATTAATATATAAAT
639434 TAATATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATAATATTAATATATAAAT
Found at i:641524 original size:18 final size:18
Alignment explanation
Indices: 641503--641537 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
641493 TTTAAACCTG
*
641503 AAAATATAAAATATATAT
1 AAAAAATAAAATATATAT
*
641521 AAAAAATAAATTATATA
1 AAAAAATAAAATATATA
641538 CTATATATCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAAATAAAATATATAT
Found at i:642143 original size:33 final size:33
Alignment explanation
Indices: 642088--642152 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
642078 GAAAAGTTTT
*
642088 AAAATAATATTTATTCTCAATATAATTAAATTA
1 AAAATAATATTTATTCTCAATATAACTAAATTA
* * *
642121 AAAATAATATTTATTTTTAATATTACTAAATT
1 AAAATAATATTTATTCTCAATATAACTAAATT
642153 CAAATTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (33 bp):
AAAATAATATTTATTCTCAATATAACTAAATTA
Found at i:642285 original size:23 final size:23
Alignment explanation
Indices: 642236--642292 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
642226 ATTAAAATTT
** *
642236 TAATTTATTAA-TATTTATTTTA
1 TAATTTATTAATTAAATATTATA
*
642258 AAATTTATTAATTAAATATTATA
1 TAATTTATTAATTAAATATTATA
642281 TAATTTATTAAT
1 TAATTTATTAAT
642293 AATATTTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TAATTTATTAATTAAATATTATA
Found at i:643174 original size:14 final size:15
Alignment explanation
Indices: 643140--643177 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
643130 AATAAATTAA
*
643140 AAATTATTAATTTTTT
1 AAATT-TTAATTTTAT
643156 AAATTTTAA-TTTAT
1 AAATTTTAATTTTAT
643170 AAATTTTA
1 AAATTTTA
643178 TTAAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.57
15 4 0.19
16 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AAATTTTAATTTTAT
Found at i:643794 original size:3 final size:3
Alignment explanation
Indices: 643786--643820 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
643776 TACTGATTCT
643786 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
643821 TAAATAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:644569 original size:23 final size:22
Alignment explanation
Indices: 644540--644592 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
644530 AAAAAATAAT
* *
644540 TAAATATATTATAATATTAAATA
1 TAAATATAGTAT-ATATTAAACA
644563 TAAATATAGTATATATTAAACA
1 TAAATATAGTATATATTAAACA
644585 TATAATAT
1 TA-AATAT
644593 TAATATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
TAAATATAGTATATATTAAACA
Found at i:645244 original size:2 final size:2
Alignment explanation
Indices: 645237--645261 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
645227 TTCAAGAAAT
645237 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
645262 TCACATGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:651730 original size:22 final size:22
Alignment explanation
Indices: 651693--651757 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
651683 TTTAATTATT
*
651693 ATTTACTTAATAAAATTATTTAA
1 ATTTAATT-ATAAAATTATTTAA
*
651716 ATTTAATTATAAAA-TATATAA
1 ATTTAATTATAAAATTATTTAA
*
651737 ATATTAA-AATAAAAATTATTT
1 AT-TTAATTAT-AAAATTATTT
651758 TTAATATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 10 0.29
22 14 0.40
23 11 0.31
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTTAATTATAAAATTATTTAA
Found at i:652223 original size:10 final size:10
Alignment explanation
Indices: 652208--652236 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
652198 TAATTCAAAA
652208 TTTAAAATTT
1 TTTAAAATTT
652218 TTTAAAA-TT
1 TTTAAAATTT
652227 TTTAAAATTT
1 TTTAAAATTT
652237 GATCCGAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTAAAATTT
Found at i:653933 original size:16 final size:16
Alignment explanation
Indices: 653887--653935 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
653877 TAAAATTTTG
*
653887 TAATCAAATTATATAAT
1 TAAT-AAATTATATTAT
*
653904 TAA-AAATTTTATTAT
1 TAATAAATTATATTAT
*
653919 TAATAAATTAAATTAT
1 TAATAAATTATATTAT
653935 T
1 T
653936 TATATTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 13 0.48
16 11 0.41
17 3 0.11
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATAAATTATATTAT
Found at i:655323 original size:22 final size:21
Alignment explanation
Indices: 655276--655333 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 21
655266 ATATATTTTG
*
655276 ATATATTATTTTAAATTTATT
1 ATATATTATTATAAATTTATT
655297 A-ATATT-TTATAAATTATATAT
1 ATATATTATTATAAATT-TAT-T
655318 ATATATATATGTATAA
1 ATATAT-TAT-TATAA
655334 CCCAATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
19 8 0.27
20 8 0.27
21 3 0.10
22 4 0.13
23 1 0.03
24 1 0.03
25 5 0.17
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATATATTATTATAAATTTATT
Found at i:656293 original size:23 final size:24
Alignment explanation
Indices: 656258--656310 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
656248 TTAAGAATAA
*
656258 AAAAATTATATAT-ATTAAAATTT
1 AAAAATTAAATATGATTAAAATTT
* * *
656281 AAAATTTAAATATGTTTAAATTTT
1 AAAAATTAAATATGATTAAAATTT
656305 AAAAAT
1 AAAAAT
656311 ATTATGTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AAAAATTAAATATGATTAAAATTT
Found at i:656492 original size:21 final size:21
Alignment explanation
Indices: 656462--656513 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
656452 AGATTAGAAG
* * *
656462 ATTAATTATTTTAGTGGTGAA
1 ATTAAATATTTTAGTAGTAAA
656483 ATTAAATATTTTAGTAGTAAA
1 ATTAAATATTTTAGTAGTAAA
656504 ATTAAA-ATTT
1 ATTAAATATTT
656514 ATGATAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (21 bp):
ATTAAATATTTTAGTAGTAAA
Found at i:656741 original size:18 final size:17
Alignment explanation
Indices: 656717--656774 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
656707 TAAATTATAT
656717 TTATATTAAATAAAAAA
1 TTATATTAAATAAAAAA
*
656734 TATATATTAAAGTTAAAAA
1 T-TATATTAAA-TAAAAAA
* *
656753 TTATACTTATATAAACAA
1 TTATA-TTAAATAAAAAA
656771 TTAT
1 TTAT
656775 TTATATTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
17 1 0.03
18 22 0.65
19 11 0.32
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (17 bp):
TTATATTAAATAAAAAA
Found at i:656763 original size:24 final size:21
Alignment explanation
Indices: 656708--656764 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 21
656698 AAAAATTTTT
656708 AAATTATATTTATATTAAATAA
1 AAATTATA-TTATATTAAATAA
656730 AAA--ATA-TATATTAAAGTTAA
1 AAATTATATTATATTAAA--TAA
656750 AAATTATACTTATAT
1 AAATTATA-TTATAT
656765 AAACAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
18 9 0.31
20 9 0.31
22 6 0.21
24 5 0.17
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
AAATTATATTATATTAAATAA
Found at i:658656 original size:34 final size:34
Alignment explanation
Indices: 658604--658750 Score: 177
Period size: 34 Copynumber: 4.3 Consensus size: 34
658594 TTTGGTAAAT
* * *
658604 ACTACCAAATCACCCATTTAATCAACAATGATAA
1 ACTATCAAATCTCTCATTTAATCAACAATGATAA
* * *
658638 ACTATCAAACCTCTCATTTAGTCAACAATGGTAA
1 ACTATCAAATCTCTCATTTAATCAACAATGATAA
* * * *
658672 ACTACCAAATCACTCATTTAATTAACAATAATAA
1 ACTATCAAATCTCTCATTTAATCAACAATGATAA
*
658706 ACTATCAAATCTCTCATTTAATCAATAATGATAA
1 ACTATCAAATCTCTCATTTAATCAACAATGATAA
* *
658740 ACCACCAAATC
1 ACTATCAAATC
658751 AATGACAAAT
Statistics
Matches: 93, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 93 1.00
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.28
Consensus pattern (34 bp):
ACTATCAAATCTCTCATTTAATCAACAATGATAA
Found at i:658676 original size:68 final size:68
Alignment explanation
Indices: 658604--658751 Score: 224
Period size: 68 Copynumber: 2.2 Consensus size: 68
658594 TTTGGTAAAT
* * *
658604 ACTACCAAATCACCCATTTAATCAACAATGATAAACTATCAAACCTCTCATTTAGTCAACAATGG
1 ACTACCAAATCACCCATTTAATCAACAATAATAAACTATCAAACCTCTCATTTAATCAACAATGA
658669 TAA
66 TAA
* * * *
658672 ACTACCAAATCACTCATTTAATTAACAATAATAAACTATCAAATCTCTCATTTAATCAATAATGA
1 ACTACCAAATCACCCATTTAATCAACAATAATAAACTATCAAACCTCTCATTTAATCAACAATGA
658737 TAA
66 TAA
*
658740 ACCACCAAATCA
1 ACTACCAAATCA
658752 ATGACAAATT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 72 1.00
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.28
Consensus pattern (68 bp):
ACTACCAAATCACCCATTTAATCAACAATAATAAACTATCAAACCTCTCATTTAATCAACAATGA
TAA
Found at i:659315 original size:15 final size:16
Alignment explanation
Indices: 659289--659318 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
659279 TATTTAATGA
659289 TAAAATTAAAATGAAT
1 TAAAATTAAAATGAAT
659305 TAAAA-TAAAATGAA
1 TAAAATTAAAATGAA
659319 CAAATTCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (16 bp):
TAAAATTAAAATGAAT
Found at i:664095 original size:4 final size:4
Alignment explanation
Indices: 663848--664086 Score: 287
Period size: 4 Copynumber: 60.8 Consensus size: 4
663838 ATGTGTGTAT
* *
663848 ATAC ATAC ATAC TTATAT ATAC TTATAT ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC --ATAC ATAC --ATAC ATAC ATAC ATAC ATAC ATAC
*
663896 ATAC ACAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
663942 ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC --AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
663986 ACAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAT ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
664032 ATAC ATAT ACAT ATAT ATAT ATAC ATAC ATAC ATAC ATAT ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
664080 ATAC ATA
1 ATAC ATA
664087 TATATATATG
Statistics
Matches: 208, Mismatches: 15, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
2 8 0.04
4 194 0.93
6 6 0.03
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.28
Consensus pattern (4 bp):
ATAC
Found at i:666710 original size:20 final size:20
Alignment explanation
Indices: 666684--666733 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
666674 TTCAATTCGA
666684 TTTTATTTAAAACAG--TAT
1 TTTTATTTAAAACAGTATAT
*
666702 TTTTATATTAAAATAGTATAT
1 TTTTAT-TTAAAACAGTATAT
666723 TTTTATTTAAA
1 TTTTATTTAAA
666734 TTTAATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 6 0.21
19 8 0.29
20 5 0.18
21 9 0.32
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
TTTTATTTAAAACAGTATAT
Found at i:666714 original size:19 final size:20
Alignment explanation
Indices: 666683--666729 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
666673 ATTCAATTCG
666683 ATTTTAT-TTAAAACAGTAT
1 ATTTTATATTAAAACAGTAT
*
666702 -TTTTATATTAAAATAGTAT
1 ATTTTATATTAAAACAGTAT
666721 ATTTT-TATT
1 ATTTTATATT
666730 TAAATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 6 0.24
19 15 0.60
20 4 0.16
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (20 bp):
ATTTTATATTAAAACAGTAT
Found at i:666971 original size:18 final size:19
Alignment explanation
Indices: 666937--666985 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
666927 AAGATTTGAT
*
666937 ATAT-ATATATATATATATAT
1 ATATGATATA-AT-TATATAA
666957 ATATGA-ATAATTATATAA
1 ATATGATATAATTATATAA
666975 ATATGATATAA
1 ATATGATATAA
666986 AAAATTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 12 0.46
19 6 0.23
20 7 0.27
21 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
ATATGATATAATTATATAA
Found at i:666973 original size:2 final size:2
Alignment explanation
Indices: 666935--666960 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
666925 TAAAGATTTG
666935 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
666961 GAATAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:667012 original size:29 final size:28
Alignment explanation
Indices: 666973--667028 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
666963 ATAATTATAT
666973 AAATATGATATA-AAAAATTATTAAAATA
1 AAATATGATATATAAAAA-TATTAAAATA
667001 AAATATGAATATATAAAAATATTAAAAT
1 AAATATG-ATATATAAAAATATTAAAAT
667029 TTATATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 7 0.27
29 14 0.54
30 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (28 bp):
AAATATGATATATAAAAATATTAAAATA
Found at i:667019 original size:16 final size:16
Alignment explanation
Indices: 666947--667022 Score: 54
Period size: 16 Copynumber: 4.9 Consensus size: 16
666937 ATATATATAT
* *
666947 ATATATATATATATGA
1 ATATATAAAAATATGA
*
666963 ATAATTATATAAATATG-
1 AT-A-TATAAAAATATGA
*
666980 ATATA-AAAAATTATTA
1 ATATATAAAAA-TATGA
666996 A-A-AT-AAAATATGA
1 ATATATAAAAATATGA
667009 ATATATAAAAATAT
1 ATATATAAAAATAT
667023 TAAAATTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 16
0.71 0.06 0.24
Matches are distributed among these distances:
13 5 0.10
14 10 0.21
15 8 0.17
16 11 0.23
17 3 0.06
18 11 0.23
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (16 bp):
ATATATAAAAATATGA
Found at i:667027 original size:40 final size:42
Alignment explanation
Indices: 666968--667069 Score: 102
Period size: 40 Copynumber: 2.5 Consensus size: 42
666958 TATGAATAAT
*
666968 TATATAAATATGATATAAAAAATTAT-TAAAATAAAATATGAA
1 TATATAAAAATGATAT-AAAAATTATATAAAATAAAATATGAA
* * * *
667010 TATATAAAAAT-AT-TAAAATTTATATAATATAAATTATTAA
1 TATATAAAAATGATATAAAAATTATATAAAATAAAATATGAA
* *
667050 TATATTAAAATTTATATAAA
1 TATA-TAAAAATGATATAAA
667070 TATAAAATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
39 8 0.16
40 18 0.36
41 8 0.16
42 12 0.24
43 4 0.08
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (42 bp):
TATATAAAAATGATATAAAAATTATATAAAATAAAATATGAA
Found at i:667057 original size:32 final size:33
Alignment explanation
Indices: 667001--667080 Score: 108
Period size: 32 Copynumber: 2.4 Consensus size: 33
666991 TATTAAAATA
* * *
667001 AAATATGAATATATAAAAATATTAAAATTTATAT
1 AAATAT-AAAATATTAATATATTAAAATTTATAT
*
667035 -AATATAAATTATTAATATATTAAAATTTATAT
1 AAATATAAAATATTAATATATTAAAATTTATAT
667067 AAATATAAAATATT
1 AAATATAAAATATT
667081 TTAAATATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
32 23 0.57
33 17 0.43
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (33 bp):
AAATATAAAATATTAATATATTAAAATTTATAT
Found at i:667064 original size:18 final size:17
Alignment explanation
Indices: 667018--667090 Score: 54
Period size: 16 Copynumber: 4.5 Consensus size: 17
667008 AATATATAAA
667018 AATAT-TAAAATTTA-T
1 AATATATAAAATTTATT
667033 -ATA-ATATAAA-TTATT
1 AATATATA-AAATTTATT
667048 AATATATTAAAATTTATAT
1 AATATA-TAAAATTTAT-T
667067 AA-ATATAAAATATT-TT
1 AATATATAAAAT-TTATT
667083 AA-ATATAA
1 AATATATAA
667091 TTAACAAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 17
0.74 0.00 0.26
Matches are distributed among these distances:
14 8 0.16
15 4 0.08
16 12 0.24
17 11 0.22
18 11 0.22
19 3 0.06
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATATAAAATTTATT
Found at i:667071 original size:20 final size:19
Alignment explanation
Indices: 667019--667077 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 19
667009 ATATATAAAA
667019 ATATTAAAATTTATAT-A-
1 ATATTAAAATTTATATAAT
667036 ATA-T-AAA-TTAT-TAAT
1 ATATTAAAATTTATATAAT
667051 ATATTAAAATTTATATAA-
1 ATATTAAAATTTATATAAT
667069 ATA-TAAAAT
1 ATATTAAAAT
667078 ATTTTAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 1 0.03
14 5 0.14
15 6 0.17
16 2 0.06
17 12 0.33
18 7 0.19
19 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATTAAAATTTATATAAT
Found at i:669394 original size:42 final size:42
Alignment explanation
Indices: 669314--669404 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 42
669304 ATAATTAGTT
* * * *
669314 ATTTTATTTTTAATTAAATTAAATTAATTTAAAGATAAATAA
1 ATTTTATCTGTAATCAAATTAAATTAATTTAAAAATAAATAA
*
669356 ATTTTATCTGTAATCAAATTAAATTAA-TTAATAAATAAATGA
1 ATTTTATCTGTAATCAAATTAAATTAATTTAA-AAATAAATAA
*
669398 GTTTTAT
1 ATTTTAT
669405 ATTAAATTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 4 0.10
42 38 0.90
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.46
Consensus pattern (42 bp):
ATTTTATCTGTAATCAAATTAAATTAATTTAAAAATAAATAA
Found at i:673333 original size:27 final size:27
Alignment explanation
Indices: 673259--673333 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
673249 CAAAAGTCAC
* *
673259 CCTTTGTGTTTGTCAAAAATGGTGGTT
1 CCTTTGTGTTTGTAAAAAATTGTGGTT
* *
673286 ACTTTGTATTTGTAAAAAATTGTGGTT
1 CCTTTGTGTTTGTAAAAAATTGTGGTT
* *
673313 CCTTTTTGTTTATAAAAAATT
1 CCTTTGTGTTTGTAAAAAATT
673334 ATGACTTGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (27 bp):
CCTTTGTGTTTGTAAAAAATTGTGGTT
Found at i:675830 original size:21 final size:22
Alignment explanation
Indices: 675801--675846 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
675791 TGTTCAGACA
** *
675801 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
675823 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
675844 AGT
1 AGT
675847 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:677755 original size:27 final size:28
Alignment explanation
Indices: 677724--677797 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 28
677714 CAAAAGTCAC
*
677724 CTTTTGTGTTTGTAAAAAATGGTAGTTA
1 CTTTTGTGTTTGTAAAAAATGATAGTTA
* * *
677752 -TTTTGTATTTGTCAAAAATGATGGTTA
1 CTTTTGTGTTTGTAAAAAATGATAGTTA
677779 CTTTT-TGTTTGTAAAAAAT
1 CTTTTGTGTTTGTAAAAAAT
677798 TGTGACTTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
27 35 0.90
28 4 0.10
ACGTcount: A:0.30, C:0.04, G:0.18, T:0.49
Consensus pattern (28 bp):
CTTTTGTGTTTGTAAAAAATGATAGTTA
Found at i:678763 original size:2 final size:2
Alignment explanation
Indices: 678756--678792 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
678746 TTTTCCTCTT
678756 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
678793 TGTTTTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:678876 original size:28 final size:27
Alignment explanation
Indices: 678823--678887 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
678813 TTTAGGATTT
678823 ATATTTTTTTCAATAAGAGGAAAGAAA
1 ATATTTTTTTCAATAAGAGGAAAGAAA
* * *
678850 GTATTTTTTCTCAATTTAGA-GAGAGAAA
1 ATATTTTTT-TCAA-TAAGAGGAAAGAAA
*
678878 AAATTTTTTT
1 ATATTTTTTT
678888 TTTATAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
27 9 0.29
28 18 0.58
29 4 0.13
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (27 bp):
ATATTTTTTTCAATAAGAGGAAAGAAA
Found at i:679091 original size:17 final size:19
Alignment explanation
Indices: 679051--679088 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
679041 ATTATTTAAC
679051 ATAATTAATTTATTTAGTTTT
1 ATAATTAATTTATTTA--TTT
679072 ATAATTAATTT-TTTATT
1 ATAATTAATTTATTTATT
679089 ATATTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.12
20 4 0.24
21 11 0.65
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
ATAATTAATTTATTTATTT
Found at i:680492 original size:2 final size:2
Alignment explanation
Indices: 680487--680541 Score: 74
Period size: 2 Copynumber: 27.5 Consensus size: 2
680477 TGTTATTTTC
* * *
680487 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AA AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
680529 AT AT AA AT AT AT A
1 AT AT AT AT AT AT A
680542 CACTTTAATA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:681161 original size:2 final size:2
Alignment explanation
Indices: 681154--681185 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
681144 CAGCAAATGC
681154 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
681186 CATTTTTTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:686313 original size:13 final size:13
Alignment explanation
Indices: 686291--686327 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
686281 TGGCAGAACA
*
686291 AAAAAAAAAAAAG
1 AAAAAAGAAAAAG
686304 -AAAAAGAAAAAG
1 AAAAAAGAAAAAG
686316 AAAAAAGAAAAA
1 AAAAAAGAAAAA
686328 AAGCCTCTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:686319 original size:19 final size:19
Alignment explanation
Indices: 686291--686327 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
686281 TGGCAGAACA
686291 AAAAAAAAAAAAGAAAAAG
1 AAAAAAAAAAAAGAAAAAG
*
686310 AAAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAGAAAAA
686328 AAGCCTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAAAGAAAAAG
Found at i:688055 original size:13 final size:13
Alignment explanation
Indices: 688037--688062 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
688027 TTTGTTGAAA
688037 ATTTTTTATTAAT
1 ATTTTTTATTAAT
688050 ATTTTTTATTAAT
1 ATTTTTTATTAAT
688063 TATAACATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTTTATTAAT
Found at i:689022 original size:11 final size:11
Alignment explanation
Indices: 688992--689051 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
688982 AACTTGGTAA
*
688992 TATTATTTTTT
1 TATTATATTTT
* *
689003 TAATGTATTTT
1 TATTATATTTT
*
689014 TATTATATTTA
1 TATTATATTTT
*
689025 TATTATTTTTT
1 TATTATATTTT
*
689036 ATATTATATTTA
1 -TATTATATTTT
689048 TATT
1 TATT
689052 TAAAGTATTA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
11 29 0.76
12 9 0.24
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (11 bp):
TATTATATTTT
Found at i:689048 original size:18 final size:19
Alignment explanation
Indices: 689011--689045 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
689001 TTTAATGTAT
689011 TTTTATTATATTTATATTA
1 TTTTATTATATTTATATTA
689030 TTTT-TTATA-TTATATT
1 TTTTATTATATTTATATT
689046 TATATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTATTATATTTATATTA
Found at i:689075 original size:20 final size:20
Alignment explanation
Indices: 689037--689075 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
689027 TTATTTTTTA
*
689037 TATTATATTTATATTTAAAG
1 TATTATATTTATATATAAAG
*
689057 TATTATATTTTTATATAAA
1 TATTATATTTATATATAAA
689076 TTTTAATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
TATTATATTTATATATAAAG
Found at i:689360 original size:33 final size:32
Alignment explanation
Indices: 689298--689361 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
689288 TATTTATATA
* * *
689298 AATTTTGATATATTAATAATTTGTTTTATGTG
1 AATTTTGACACATTAATAATTTGTGTTATGTG
*
689330 AATTTTGACACATTAATCTATTTGTGTTATGT
1 AATTTTGACACATTAAT-AATTTGTGTTATGT
689362 ATTTTTCATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (32 bp):
AATTTTGACACATTAATAATTTGTGTTATGTG
Found at i:691689 original size:21 final size:18
Alignment explanation
Indices: 691643--691690 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 18
691633 ATTTAAAAAT
*
691643 ATTAAAATATTATTTTTA
1 ATTAAAATATTATTTTAA
691661 ATTAAAAATATATATTATTAAA
1 ATT-AAAATAT-TATT-TT-AA
691683 ATTAAAAT
1 ATTAAAAT
691691 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 7 0.28
20 4 0.16
21 7 0.28
22 4 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTAAAATATTATTTTAA
Found at i:692473 original size:2 final size:2
Alignment explanation
Indices: 692466--692501 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
692456 TTGACATGAC
*
692466 CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
692502 TTTTCTGCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:692506 original size:12 final size:12
Alignment explanation
Indices: 692469--692507 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
692459 ACATGACCTC
*
692469 TCTCTCTCTCTC
1 TCTCTCTCTCTT
692481 TCTCTCTCTCTT
1 TCTCTCTCTCTT
*
692493 TCTCTCTCTTTT
1 TCTCTCTCTCTT
692505 TCT
1 TCT
692508 GCCTCTTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (12 bp):
TCTCTCTCTCTT
Found at i:692605 original size:5 final size:5
Alignment explanation
Indices: 692584--692705 Score: 82
Period size: 5 Copynumber: 25.6 Consensus size: 5
692574 GAAAATATTA
* * * *
692584 TATAT TAGA- TATGT TATAT TAT-T TATAT TCA-AA TATAT TATAT TATAA
1 TATAT TATAT TATAT TATAT TATAT TATAT T-ATAT TATAT TATAT TATAT
*
692632 T-TAT TATAT TATA- TATA- TATAT TA-AA TATAT TATATT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA-T TATAT TATAT
* * *
692679 TTTA- TATCA- TATAT AAAAT TATAT TAT
1 TATAT TAT-AT TATAT TATAT TATAT TAT
692706 TACAAGTCTA
Statistics
Matches: 91, Mismatches: 16, Indels: 20
0.72 0.13 0.16
Matches are distributed among these distances:
4 24 0.26
5 61 0.67
6 6 0.07
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (5 bp):
TATAT
Found at i:692619 original size:24 final size:24
Alignment explanation
Indices: 692579--692668 Score: 88
Period size: 21 Copynumber: 4.0 Consensus size: 24
692569 TAAATGAAAA
* *
692579 TATTATATATTAGATATGTTATAT
1 TATTATATATTAAATATATTATAT
692603 TATT-TATATTCAAATATA-T-TA-
1 TATTATATATT-AAATATATTATAT
*
692624 TATTATA-ATT-ATTATATTATA-
1 TATTATATATTAAATATATTATAT
692645 TA-TATATATTAAATATATTATAT
1 TATTATATATTAAATATATTATAT
692668 T
1 T
692669 TATATTATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
19 5 0.09
20 5 0.09
21 14 0.25
22 14 0.25
23 8 0.15
24 9 0.16
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (24 bp):
TATTATATATTAAATATATTATAT
Found at i:692626 original size:38 final size:41
Alignment explanation
Indices: 692576--692705 Score: 114
Period size: 38 Copynumber: 3.3 Consensus size: 41
692566 TATTAAATGA
*
692576 AAATAT-TATATATTAG-ATATGTTATATTAT-T-TATAT-TC
1 AAATATAT-TATATTAGAAT-TATTATATTATATATATATATC
* *
692614 AAATATATTATATTATAATTATTATATTATATATATATATT
1 AAATATATTATATTAGAATTATTATATTATATATATATATC
* * *
692655 AAATATATTATATT--TA-TATTATATTTTATATCATATATA
1 AAATATATTATATTAGAATTATTATATTATATAT-ATATATC
692694 AAATTATATTAT
1 AAA-TATATTAT
692706 TACAAGTCTA
Statistics
Matches: 79, Mismatches: 6, Indels: 12
0.81 0.06 0.12
Matches are distributed among these distances:
38 37 0.47
39 14 0.18
40 13 0.16
41 15 0.19
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (41 bp):
AAATATATTATATTAGAATTATTATATTATATATATATATC
Found at i:692648 original size:2 final size:2
Alignment explanation
Indices: 692616--692693 Score: 50
Period size: 2 Copynumber: 43.5 Consensus size: 2
692606 TTATATTCAA
692616 AT AT AT -T AT AT -T AT A- AT -T AT -T AT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
692652 AT -T AA AT AT AT -T AT AT TT AT AT -T AT AT -T TT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
692691 AT A
1 AT A
692694 AAATTATATT
Statistics
Matches: 60, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
1 10 0.17
2 48 0.80
3 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:692650 original size:11 final size:11
Alignment explanation
Indices: 692616--692693 Score: 67
Period size: 11 Copynumber: 7.3 Consensus size: 11
692606 TTATATTCAA
692616 ATATATTATAT
1 ATATATTATAT
692627 -TATAATTAT-T
1 ATAT-ATTATAT
692637 ATAT-TATATAT
1 ATATAT-TATAT
692648 ATATATTA-A-
1 ATATATTATAT
692657 ATATATTATAT
1 ATATATTATAT
*
692668 TTATATTATATT
1 ATATATTATA-T
* *
692680 TTATATCATAT
1 ATATATTATAT
692691 ATA
1 ATA
692694 AAATTATATT
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
9 9 0.16
10 9 0.16
11 27 0.48
12 11 0.20
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (11 bp):
ATATATTATAT
Found at i:693706 original size:20 final size:21
Alignment explanation
Indices: 693667--693709 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
693657 AAAAATTGAA
693667 TATATATAATATATAAATTTT
1 TATATATAATATATAAATTTT
**
693688 TATATA-AATATATTTATTTT
1 TATATATAATATATAAATTTT
693708 TA
1 TA
693710 AAATTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TATATATAATATATAAATTTT
Found at i:695206 original size:32 final size:31
Alignment explanation
Indices: 695165--695225 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 31
695155 CACTATAAAT
695165 ATTTTAGTTTCAA-TGCTTTTAGGGAATTCAA
1 ATTTTAGTTT-AAGTGCTTTTAGGGAATTCAA
695196 ATTTTCAGTTTAAGTTGCTTTTAGGGAATT
1 ATTTT-AGTTTAAG-TGCTTTTAGGGAATT
695226 TTTTATCCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 7 0.26
32 5 0.19
33 15 0.56
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.48
Consensus pattern (31 bp):
ATTTTAGTTTAAGTGCTTTTAGGGAATTCAA
Found at i:696076 original size:2 final size:2
Alignment explanation
Indices: 696069--696105 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
696059 CTAGTAACAA
696069 AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
696106 GACGCTTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:696092 original size:19 final size:19
Alignment explanation
Indices: 696068--696105 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
696058 ACTAGTAACA
696068 AATATATATATATATATAT
1 AATATATATATATATATAT
696087 AATATATATATATATATAT
1 AATATATATATATATATAT
696106 GACGCTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATATATATATATATATAT
Found at i:696093 original size:17 final size:17
Alignment explanation
Indices: 696071--696104 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
696061 AGTAACAAAT
696071 ATATATATATATATATA
1 ATATATATATATATATA
696088 ATATATATATATATATA
1 ATATATATATATATATA
696105 TGACGCTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATATATATATATA
Found at i:696239 original size:2 final size:2
Alignment explanation
Indices: 696232--696275 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
696222 TAGTCAATTT
*
696232 TA TA TA TA -A TC T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
696272 TA TA
1 TA TA
696276 AGTCAAAGCT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:697373 original size:15 final size:17
Alignment explanation
Indices: 697353--697392 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
697343 TATCGATGTC
*
697353 TAAAATTTATT-TTAT-
1 TAAAATTTATTCTAATA
697368 TAAAATTTATTCTAATA
1 TAAAATTTATTCTAATA
697385 TAAAATTT
1 TAAAATTT
697393 TGGCCAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.50
16 3 0.14
17 8 0.36
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAAATTTATTCTAATA
Found at i:697505 original size:14 final size:16
Alignment explanation
Indices: 697475--697506 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
697465 TTACACAAAC
697475 TTAAAATTAATCATTT
1 TTAAAATTAATCATTT
697491 TTAAAA-TAA-CATTT
1 TTAAAATTAATCATTT
697505 TT
1 TT
697507 CGAATCTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 3 0.19
16 6 0.38
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAAATTAATCATTT
Found at i:704626 original size:10 final size:11
Alignment explanation
Indices: 704596--704633 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
704586 ATTTCTTAAA
704596 TAATTTTTTTC
1 TAATTTTTTTC
704607 TAATTTTTTT-
1 TAATTTTTTTC
*
704617 TCATTTTTTTC
1 TAATTTTTTTC
704628 -AATTTT
1 TAATTTT
704634 CATTTTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (11 bp):
TAATTTTTTTC
Found at i:708852 original size:52 final size:51
Alignment explanation
Indices: 708786--708906 Score: 145
Period size: 52 Copynumber: 2.4 Consensus size: 51
708776 GAGATAACAA
* * * *
708786 CGGGGCTAGAGTATCCCCGATTGTGGAAAAAT-AGTGTTCTAAAAAATAAAAT
1 CGGGGTTAGAGTATCCCCGATTATGAAAAAATGA-TGTT-TAAAAAATAAAAC
* * *
708838 CGGGGTTAGTGTATCCCCGATTATGAAAAAATGATGTTTTAGAAATAAAAC
1 CGGGGTTAGAGTATCCCCGATTATGAAAAAATGATGTTTAAAAAATAAAAC
*
708889 CGGGGTTGGAGTATCCCC
1 CGGGGTTAGAGTATCCCC
708907 TCGGAAATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
51 26 0.44
52 32 0.54
53 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (51 bp):
CGGGGTTAGAGTATCCCCGATTATGAAAAAATGATGTTTAAAAAATAAAAC
Found at i:708969 original size:79 final size:79
Alignment explanation
Indices: 708838--709540 Score: 1120
Period size: 79 Copynumber: 8.9 Consensus size: 79
708828 AAAATAAAAT
* * *
708838 CGGGGTTAGTGTATCCCCGATTATGAAAAAATGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
708903 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* *
708917 CGGGGTTGGAGTATCCCCGATTATGAAAATTTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
708982 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * * *
708996 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
709061 CCCCTCGAAAATAA
66 CCCCTCGGAAATAA
*
709075 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTTGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
709140 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * * *
709154 CGGGGTTGGAGTATCTCCGATTACGAAAAATGGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
709219 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * * *
709233 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
709298 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * * * *
709312 TGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
709377 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* * * * *
709391 TGGGGTTAGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
709456 CCCC-CGAAAATAA
66 CCCCTCGGAAATAA
*
709469 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
709534 CCCCTCG
66 CCCCTCG
709541 ATTAAAGGAA
Statistics
Matches: 585, Mismatches: 38, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
78 71 0.12
79 514 0.88
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGGAAATAA
Found at i:709561 original size:53 final size:51
Alignment explanation
Indices: 709469--709595 Score: 163
Period size: 53 Copynumber: 2.5 Consensus size: 51
709459 CCGAAAATAA
*
709469 CGGGGTTGGAGTAT-CCCCGATTATGAAAAATTGATGTTTT-AGAGATAAAAC
1 CGGGGTTGGAGTATCCCCCGATTA-GAAAAATTGATGTTTTGA-AAATAAAAC
*
709520 CGGGGTTGGAGTATCCCCTCGATTA-AAGGAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCC-CGATTAGAA--AAATTGATGTTTTGAAAATAAAAC
709573 CGGGGTTGGAGTAT-CCCCGATTA
1 CGGGGTTGGAGTATCCCCCGATTA
709596 CGAGCAATTG
Statistics
Matches: 69, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
51 22 0.32
52 6 0.09
53 40 0.58
54 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCCGATTAGAAAAATTGATGTTTTGAAAATAAAAC
Found at i:710875 original size:62 final size:62
Alignment explanation
Indices: 710824--710950 Score: 186
Period size: 62 Copynumber: 2.1 Consensus size: 62
710814 ATCCATCATT
* *
710824 CCATGCCTTCAATTTT-TATTCCATGCCCATCATAT-TATGCCTTCATTTTTTTATTCCATGC
1 CCATGCCTTCAATTTTATATTCCATACCCATCAT-TCCATGCCTTCATTTTTTTATTCCATGC
* * *
710885 CCATGCCTTTATTTTTATATTCCATACCCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATGCCTTCAATTTTATATTCCATACCCATCATTCCATGCCTTCATTTTTTTATTCCATGC
710947 CCAT
1 CCAT
710951 CATATTATGC
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
61 15 0.25
62 44 0.75
ACGTcount: A:0.20, C:0.29, G:0.06, T:0.45
Consensus pattern (62 bp):
CCATGCCTTCAATTTTATATTCCATACCCATCATTCCATGCCTTCATTTTTTTATTCCATGC
Found at i:710882 original size:35 final size:34
Alignment explanation
Indices: 710816--711016 Score: 189
Period size: 35 Copynumber: 6.2 Consensus size: 34
710806 TCCTTTTTAT
* *
710816 CCATCATTCCATGCCTTCA-ATTTTTATTCCATGC
1 CCATCATT-TATGCCTTCATTTTTTTATTCCATGC
710850 CCATCATATTATGCCTTCATTTTTTTATTCCATG-
1 CCATCAT-TTATGCCTTCATTTTTTTATTCCATGC
* * *
710884 CC--C----ATGCCTTTATTTTTATATTCCATAC
1 CCATCATTTATGCCTTCATTTTTTTATTCCATGC
* *
710912 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATT-TATGCCTTCATTTTTTTATTCCATGC
710947 CCATCATATTATGCCTTCATTTTTTTATTCCATG-
1 CCATCAT-TTATGCCTTCATTTTTTTATTCCATGC
*
710981 CC--C----ATGCCTTCATTTTTATATTCCATGC
1 CCATCATTTATGCCTTCATTTTTTTATTCCATGC
711009 CCATCATT
1 CCATCATT
711017 CCGTGTTTTT
Statistics
Matches: 140, Mismatches: 10, Indels: 35
0.76 0.05 0.19
Matches are distributed among these distances:
27 44 0.31
28 4 0.03
30 2 0.01
32 2 0.01
34 20 0.14
35 67 0.48
36 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.05, T:0.45
Consensus pattern (34 bp):
CCATCATTTATGCCTTCATTTTTTTATTCCATGC
Found at i:710944 original size:97 final size:96
Alignment explanation
Indices: 710816--711018 Score: 370
Period size: 97 Copynumber: 2.1 Consensus size: 96
710806 TCCTTTTTAT
710816 CCATCATTCCATGCCTTCAATTTTTATTCCATGCCCATCATATTATGCCTTCATTTTTTTATTCC
1 CCATCATTCCATGCCTTCAATTTTTATTCCATGCCCATCATATTATGCCTTCATTTTTTTATTCC
*
710881 ATGCCCATGCCTTTATTTTTATATTCCATAC
66 ATGCCCATGCCTTCATTTTTATATTCCATAC
*
710912 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATATTATGCCTTCATTTTTTTATTC
1 CCATCATTCCATGCCTTCAATTTT-TATTCCATGCCCATCATATTATGCCTTCATTTTTTTATTC
*
710977 CATGCCCATGCCTTCATTTTTATATTCCATGC
65 CATGCCCATGCCTTCATTTTTATATTCCATAC
711009 CCATCATTCC
1 CCATCATTCC
711019 GTGTTTTTTT
Statistics
Matches: 103, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
96 23 0.22
97 80 0.78
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (96 bp):
CCATCATTCCATGCCTTCAATTTTTATTCCATGCCCATCATATTATGCCTTCATTTTTTTATTCC
ATGCCCATGCCTTCATTTTTATATTCCATAC
Found at i:712641 original size:24 final size:24
Alignment explanation
Indices: 712598--712643 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
712588 GCTCAGGTAG
*
712598 AAACCCAAAGATGTTAATGTTTCA
1 AAACCCAAAGATGTGAATGTTTCA
712622 AAACCCAAAGATG-GAGATGTTT
1 AAACCCAAAGATGTGA-ATGTTT
712644 GAATGAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.26
Consensus pattern (24 bp):
AAACCCAAAGATGTGAATGTTTCA
Found at i:713619 original size:81 final size:81
Alignment explanation
Indices: 713520--713765 Score: 483
Period size: 81 Copynumber: 3.0 Consensus size: 81
713510 TTGAAGAAGT
*
713520 AAGTATTAGATCGGTTTGTTAGGTTTATGACTTATACTTATTGAGAACTTTAGTTATAGATATGG
1 AAGTATTAGATCGGTTTGTTGGGTTTATGACTTATACTTATTGAGAACTTTAGTTATAGATATGG
713585 AATCATAGCTCTTATA
66 AATCATAGCTCTTATA
713601 AAGTATTAGATCGGTTTGTTGGGTTTATGACTTATACTTATTGAGAACTTTAGTTATAGATATGG
1 AAGTATTAGATCGGTTTGTTGGGTTTATGACTTATACTTATTGAGAACTTTAGTTATAGATATGG
713666 AATCATAGCTCTTATA
66 AATCATAGCTCTTATA
713682 AAGTATTAGATCGGTTTGTTGGGTTTATGACTTATACTTATTGAGAACTTTAGTTATAGATATGG
1 AAGTATTAGATCGGTTTGTTGGGTTTATGACTTATACTTATTGAGAACTTTAGTTATAGATATGG
713747 AATCATAGCTCTTATA
66 AATCATAGCTCTTATA
713763 AAG
1 AAG
713766 AGTTAAGGTT
Statistics
Matches: 164, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 164 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGTATTAGATCGGTTTGTTGGGTTTATGACTTATACTTATTGAGAACTTTAGTTATAGATATGG
AATCATAGCTCTTATA
Found at i:725680 original size:17 final size:18
Alignment explanation
Indices: 725639--725680 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
725629 AAGGATTATA
725639 TTTAATTAGTTGATGTTT
1 TTTAATTAGTTGATGTTT
* *
725657 TGT-ATTAGTTGGT-TTT
1 TTTAATTAGTTGATGTTT
725673 TTTAATTA
1 TTTAATTA
725681 CTTAAGATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 5 0.25
17 13 0.65
18 2 0.10
ACGTcount: A:0.21, C:0.00, G:0.17, T:0.62
Consensus pattern (18 bp):
TTTAATTAGTTGATGTTT
Found at i:728343 original size:33 final size:33
Alignment explanation
Indices: 728275--728408 Score: 152
Period size: 33 Copynumber: 4.1 Consensus size: 33
728265 TTCATGTTAT
*
728275 TTATTAGATATTATTATTAAAATAATTTTATTATA
1 TTATTA-ATATTATTATT-AAATAATTTTAATATA
*
728310 TTATTAATATAATTATTAAA-ATATTTTAATATA
1 TTATTAATATTATTATTAAATA-ATTTTAATATA
* * *
728343 TTACTAAATATTGTTATTAAAT-ATGTTAATATA
1 TTA-TTAATATTATTATTAAATAATTTTAATATA
728376 TTATTAA-A-TATTATTAAATAATTTT-ATATA
1 TTATTAATATTATTATTAAATAATTTTAATATA
728406 TTA
1 TTA
728409 CTAAATGTTA
Statistics
Matches: 86, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
30 18 0.21
31 5 0.06
32 4 0.05
33 29 0.34
34 24 0.28
35 6 0.07
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (33 bp):
TTATTAATATTATTATTAAATAATTTTAATATA
Found at i:728351 original size:20 final size:21
Alignment explanation
Indices: 728307--728796 Score: 100
Period size: 23 Copynumber: 22.9 Consensus size: 21
728297 TAATTTTATT
728307 ATATTATTAATATAATTATTAAA
1 ATATTATTAATAT-ATTATT-AA
*
728330 ATATT-TTAATATATTACTAA
1 ATATTATTAATATATTATTAA
* * * *
728350 ATATTGTTATTAAATATGTTAA
1 ATATTATTAATATAT-TATTAA
728372 TATATTATTAA-ATATTATTAA
1 -ATATTATTAATATATTATTAA
*
728393 ATAATT-TT-ATATATTACTAA
1 AT-ATTATTAATATATTATTAA
* * *
728413 ATGTTATTAAT-CATTATAAA
1 ATATTATTAATATATTATTAA
* * * * *
728433 ATATAATTATTAAAATAGTCGAA
1 ATATTATTAATATATTA-T-TAA
* * * *
728456 TATATTA-GAAAATTTTACTAAAA
1 -ATATTATTAATATATTA-T-TAA
*
728479 ATATT-TTAAGATATTATTAA
1 ATATTATTAATATATTATTAA
* *
728499 ATATTATTATTGAAATATT-TTAGC
1 ATATTATTA---ATATATTATTA-A
*
728523 ATA-TATTGAA-ATATTAGTAA
1 ATATTATT-AATATATTATTAA
728543 ATTTATTATTAA-ATTATTATTAAA
1 A--TATTATTAATA-TATTATT-AA
* *
728567 ATATT-TTAAGATATTATGATAT
1 ATATTATTAATATATTAT--TAA
* * *
728589 ACATTTTTAAATATTATCATTAA
1 ATATTATT-AATA-TATTATTAA
* * *
728612 A-ATT-TCCAATTTACTATT--
1 ATATTAT-TAATATATTATTAA
* * * *
728630 TTATTATAAAAATGTT-TTAA
1 ATATTATTAATATATTATTAA
* * *
728650 TAAATTATTGA-ATATTACTACA
1 -ATATTATTAATATATTATTA-A
728672 TATATTATTAGATA-ATT-TTCAA
1 -ATATTATTA-ATATATTATT-AA
*
728694 TATTATTTTTAATAATATTATTAA
1 -A-TATTATTAAT-ATATTATTAA
728718 A-A-TATT-ATA-A-TATTAA
1 ATATTATTAATATATTATTAA
*
728734 ATATTATAAATATATATTATTAA
1 ATATTAT-TA-ATATATTATTAA
728757 TATATTATTAA-ATA-T-TTAA
1 -ATATTATTAATATATTATTAA
728776 TATATTATTAATTATATTATT
1 -ATATTATTAA-TATATTATT
728797 TGAATATTTA
Statistics
Matches: 343, Mismatches: 67, Indels: 114
0.65 0.13 0.22
Matches are distributed among these distances:
16 7 0.02
17 2 0.01
18 6 0.02
19 27 0.08
20 65 0.19
21 64 0.19
22 63 0.18
23 68 0.20
24 34 0.10
25 7 0.02
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (21 bp):
ATATTATTAATATATTATTAA
Found at i:728442 original size:63 final size:65
Alignment explanation
Indices: 728306--728446 Score: 164
Period size: 63 Copynumber: 2.2 Consensus size: 65
728296 ATAATTTTAT
* * **
728306 TATATTATTAATATAATTATTAAAATATTTTAATATATTACTAAATATTGTTATTAAATATGTTA
1 TATATTATTAA-ATAATTATTAAAATATTTTAATATATTACTAAATATTATTAATAAATATGAAA
728371 A
65 A
* * *
728372 TATATTATTAAAT-ATTATT-AAATAATTTT-ATATATTACTAAATGTTATTAATCATTAT-AAA
1 TATATTATTAAATAATTATTAAAAT-ATTTTAATATATTACTAAATATTATTAATAAATATGAAA
728433 A
65 A
728434 TATAATTATTAAA
1 TAT-ATTATTAAA
728447 ATAGTCGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
62 5 0.08
63 37 0.56
64 11 0.17
65 2 0.03
66 11 0.17
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (65 bp):
TATATTATTAAATAATTATTAAAATATTTTAATATATTACTAAATATTATTAATAAATATGAAAA
Found at i:728555 original size:12 final size:11
Alignment explanation
Indices: 728534--728575 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
728524 TATATTGAAA
*
728534 TATTAGTAAATT
1 TATTATTAAA-T
728546 TATTATTAAAT
1 TATTATTAAAT
*
728557 TATTATTAAAA
1 TATTATTAAAT
728568 TATT-TTAA
1 TATTATTAA
728576 GATATTATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 4 0.14
11 15 0.54
12 9 0.32
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (11 bp):
TATTATTAAAT
Found at i:728604 original size:54 final size:54
Alignment explanation
Indices: 728482--728605 Score: 121
Period size: 54 Copynumber: 2.2 Consensus size: 54
728472 ACTAAAAATA
* *
728482 TTTTAAGATATTATTAAATATTATTATTGAAATATTTTAGCATATATTGAAATAT
1 TTTTAA-ATATTATTAAATATTATTATTAAAATATTTTAGCATATATTGAAACAT
**
728537 TAGTAAAT-TTATTATTAA-ATTATTATTAAAATATTTTAAG-ATAT-TATGATATACAT
1 TTTTAAATATTATTA--AATATTATTATTAAAATATTTT-AGCATATAT-TGA-A-ACAT
728593 TTTTAAATATTAT
1 TTTTAAATATTAT
728606 CATTAAAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
53 7 0.12
54 27 0.48
55 9 0.16
56 9 0.16
57 4 0.07
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (54 bp):
TTTTAAATATTATTAAATATTATTATTAAAATATTTTAGCATATATTGAAACAT
Found at i:728616 original size:22 final size:23
Alignment explanation
Indices: 728555--728616 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
728545 TTATTATTAA
*
728555 ATTATTATTAAAATATTTTAAGAT
1 ATTATCATTAAAAT-TTTTAAGAT
* *
728579 ATTATGA-TATACATTTTTAA-AT
1 ATTATCATTA-AAATTTTTAAGAT
728601 ATTATCATTAAAATTT
1 ATTATCATTAAAATTT
728617 CCAATTTACT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
22 13 0.41
23 10 0.31
24 9 0.28
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (23 bp):
ATTATCATTAAAATTTTTAAGAT
Found at i:728723 original size:11 final size:11
Alignment explanation
Indices: 728697--728816 Score: 70
Period size: 11 Copynumber: 10.6 Consensus size: 11
728687 TTTTCAATAT
*
728697 TATTTTTAATAA
1 TATTATTAA-AA
728709 TATTATTAAAA
1 TATTATTAAAA
728720 TATTATAATATTAAA
1 TATTAT--TA--AAA
*
728735 TATTATAAATATA
1 TATTATTAA-A-A
*
728748 TATTATTAATA
1 TATTATTAAAA
728759 TATTATT-AAA
1 TATTATTAAAA
*
728769 TA-T-TTAATA
1 TATTATTAAAA
*
728778 TATTATTAATTA
1 TATTATTAA-AA
**
728790 TATTATTTGAA
1 TATTATTAAAA
728801 TA-T-TTAAAA
1 TATTATTAAAA
728810 TATTATT
1 TATTATT
728817 TTTAATTAAA
Statistics
Matches: 85, Mismatches: 11, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
8 2 0.02
9 11 0.13
10 7 0.08
11 26 0.31
12 18 0.21
13 12 0.14
15 9 0.11
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.53
Consensus pattern (11 bp):
TATTATTAAAA
Found at i:728729 original size:8 final size:8
Alignment explanation
Indices: 728712--728778 Score: 53
Period size: 7 Copynumber: 9.4 Consensus size: 8
728702 TTAATAATAT
*
728712 TATTAAAA
1 TATTATAA
728720 TATTATAA
1 TATTATAA
728728 TATTA-AA
1 TATTATAA
728735 TATTATAA
1 TATTATAA
728743 -A-TAT-A
1 TATTATAA
728748 TATTATTAA
1 TATTA-TAA
728757 TA-TAT--
1 TATTATAA
728762 TATTA-AA
1 TATTATAA
728769 TATT-TAA
1 TATTATAA
728776 TAT
1 TAT
728779 ATTATTAATT
Statistics
Matches: 49, Mismatches: 1, Indels: 19
0.71 0.01 0.28
Matches are distributed among these distances:
5 3 0.06
6 6 0.12
7 20 0.41
8 17 0.35
9 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
TATTATAA
Found at i:728737 original size:41 final size:40
Alignment explanation
Indices: 728683--728814 Score: 108
Period size: 41 Copynumber: 3.2 Consensus size: 40
728673 ATATTATTAG
* *
728683 ATAATTTTCAATATTATTTTTAATAATATTATTAAAATATT
1 ATAATATTAAATATTA-TTTTAATAATATTATTAAAATATT
* *
728724 ATAATATTAAATATTA--TAAATATATATTATTAATATATT
1 ATAATATTAAATATTATTTTAATA-ATATTATTAAAATATT
* * **
728763 ATTAAATATTTAATA-TATTATTAATTATATTATTTGAATATTT
1 A-T-AATATTAAATATTATT-TTAATAATATTATTAAAATA-TT
*
728806 AAAATATTA
1 ATAATATTA
728815 TTTTTAATTA
Statistics
Matches: 72, Mismatches: 12, Indels: 14
0.73 0.12 0.14
Matches are distributed among these distances:
38 5 0.07
39 16 0.22
40 3 0.04
41 30 0.42
42 11 0.15
43 7 0.10
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.52
Consensus pattern (40 bp):
ATAATATTAAATATTATTTTAATAATATTATTAAAATATT
Found at i:728745 original size:16 final size:16
Alignment explanation
Indices: 728712--728782 Score: 58
Period size: 16 Copynumber: 4.3 Consensus size: 16
728702 TTAATAATAT
728712 TATTAAAATATTAT-AA
1 TATT-AAATATTATAAA
728728 TATTAAATATTATAAA
1 TATTAAATATTATAAA
* *
728744 TA-TATATTATTAATATAT
1 TATTA-AATATT-ATA-AA
728762 TATTAAATATT-TAATA
1 TATTAAATATTATAA-A
728778 TATTA
1 TATTA
728783 TTAATTATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
15 12 0.27
16 20 0.44
17 3 0.07
18 8 0.18
19 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTAAATATTATAAA
Found at i:728752 original size:13 final size:13
Alignment explanation
Indices: 728719--728766 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
728709 TATTATTAAA
*
728719 ATATTATAATATTAA
1 ATATTATAA-A-TAT
728734 ATATTATAAATAT
1 ATATTATAAATAT
*
728747 ATATTATTAATAT
1 ATATTATAAATAT
728760 ATTATTA
1 A-TATTA
728767 AATATTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 15 0.50
14 6 0.20
15 9 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATTATAAATAT
Found at i:728771 original size:34 final size:33
Alignment explanation
Indices: 728723--728843 Score: 113
Period size: 34 Copynumber: 3.5 Consensus size: 33
728713 ATTAAAATAT
*
728723 TATAATATTAAATATTATAAATATATATTATTAA
1 TATATTATTAAATATT-TAAATATATATTATTAA
728757 TATATTATTAAATATTT--A-ATATATTATTAA
1 TATATTATTAAATATTTAAATATATATTATTAA
* *
728787 TTATATTATTTGAATATTTAAAATATTATTTTTAATTAAA
1 -TATATTA-TTAAATATTT-AAATA-TA-TATT-ATT-AA
*
728827 TAAATTATTAAATATTT
1 TATATTATTAAATATTT
728844 TTAAAATCAT
Statistics
Matches: 72, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
30 12 0.17
31 8 0.11
32 9 0.12
33 1 0.01
34 15 0.21
35 1 0.01
36 1 0.01
37 2 0.03
38 12 0.17
39 9 0.12
40 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (33 bp):
TATATTATTAAATATTTAAATATATATTATTAA
Found at i:728775 original size:19 final size:19
Alignment explanation
Indices: 728701--728786 Score: 73
Period size: 19 Copynumber: 4.8 Consensus size: 19
728691 CAATATTATT
728701 TTTAATAATATTATTAAA-A
1 TTTAAT-ATATTATTAAATA
728720 TATT-ATA-A-TATTAAATA
1 T-TTAATATATTATTAAATA
*
728737 TTATAA-ATA-TA-T-ATTA
1 TT-TAATATATTATTAAATA
728753 -TTAATATATTATTAAATA
1 TTTAATATATTATTAAATA
728771 TTTAATATATTATTAA
1 TTTAATATATTATTAA
728787 TTATATTATT
Statistics
Matches: 55, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
14 3 0.05
15 4 0.07
16 13 0.24
17 7 0.13
18 8 0.15
19 18 0.33
20 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTAATATATTATTAAATA
Found at i:728803 original size:32 final size:30
Alignment explanation
Indices: 728745--728816 Score: 108
Period size: 32 Copynumber: 2.3 Consensus size: 30
728735 TATTATAAAT
728745 ATATATTATTAATATATTATTAAATATTTA
1 ATATATTATTAATATATTATTAAATATTTA
*
728775 ATATATTATTAATTATATTATTTGAATATTTA
1 ATATATTATTAA-TATATTA-TTAAATATTTA
*
728807 AAATATTATT
1 ATATATTATT
728817 TTTAATTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 12 0.32
31 7 0.18
32 19 0.50
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (30 bp):
ATATATTATTAATATATTATTAAATATTTA
Found at i:732718 original size:6 final size:7
Alignment explanation
Indices: 732700--732726 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
732690 GTAGTTTGGC
732700 ATTTTTT
1 ATTTTTT
732707 ATTTTTT
1 ATTTTTT
732714 ATTTTTT
1 ATTTTTT
732721 ATTTTT
1 ATTTTT
732727 GGAGTTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:733843 original size:23 final size:23
Alignment explanation
Indices: 733816--733859 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
733806 TATAATTATC
733816 TTTAAAAATTAACAT-TAAATAAT
1 TTTAAAAATTAA-ATCTAAATAAT
*
733839 TTTAAAATTTAAATCTAAATA
1 TTTAAAAATTAAATCTAAATA
733860 TATGCCGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
TTTAAAAATTAAATCTAAATAAT
Found at i:734541 original size:23 final size:22
Alignment explanation
Indices: 734514--734564 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
734504 AAAAGACTTG
* *
734514 AAATTATATCTAAATATAATAAA
1 AAATTAAATATAAATAT-ATAAA
*
734537 AAATTAAATATATATATATAAA
1 AAATTAAATATAAATATATAAA
734559 ATAATT
1 A-AATT
734565 TTAAATAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATTAAATATAAATATATAAA
Found at i:736070 original size:19 final size:18
Alignment explanation
Indices: 736019--736071 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
736009 CATTAGAATA
*
736019 ATATTTTTATAATTATATT
1 ATATTTTTA-AATTAGATT
*
736038 ATATATTATAAAATTAAGATT
1 ATAT-TT-TTAAATT-AGATT
736059 ATATTTTTAAATT
1 ATATTTTTAAATT
736072 TTATCCAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 10 0.36
20 8 0.29
21 10 0.36
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
ATATTTTTAAATTAGATT
Found at i:736142 original size:2 final size:2
Alignment explanation
Indices: 736135--736174 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
736125 TTATTAGTCA
736135 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
736175 CTTAGGTTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:736231 original size:10 final size:10
Alignment explanation
Indices: 736216--736257 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
736206 TCATTTAATG
*
736216 TAGTTAGATA
1 TAGTTAAATA
736226 TAGTTAAATA
1 TAGTTAAATA
*
736236 TCAATTAAATA
1 T-AGTTAAATA
736247 TAGTTAAATA
1 TAGTTAAATA
736257 T
1 T
736258 CAATTTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 19 0.68
11 9 0.32
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (10 bp):
TAGTTAAATA
Found at i:736245 original size:11 final size:11
Alignment explanation
Indices: 736229--736262 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
736219 TTAGATATAG
736229 TTAAATATCAA
1 TTAAATATCAA
*
736240 TTAAATAT-AG
1 TTAAATATCAA
736250 TTAAATATCAA
1 TTAAATATCAA
736261 TT
1 TT
736263 TATTAGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (11 bp):
TTAAATATCAA
Found at i:736247 original size:21 final size:21
Alignment explanation
Indices: 736223--736262 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
736213 ATGTAGTTAG
736223 ATATAGTTAAATATCAATTAA
1 ATATAGTTAAATATCAATTAA
736244 ATATAGTTAAATATCAATT
1 ATATAGTTAAATATCAATT
736263 TATTAGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (21 bp):
ATATAGTTAAATATCAATTAA
Found at i:737338 original size:16 final size:17
Alignment explanation
Indices: 737297--737338 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
737287 AAAGTTCAAG
737297 AATAATC-TAAAAGTAA
1 AATAATCATAAAAGTAA
*
737313 AATAA-AATAAAA-TAA
1 AATAATCATAAAAGTAA
737328 AATAATCATAA
1 AATAATCATAA
737339 CTAAAGACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (17 bp):
AATAATCATAAAAGTAA
Found at i:737884 original size:2 final size:2
Alignment explanation
Indices: 737877--737920 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
737867 CAGGAAAGGG
737877 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
737919 AT
1 AT
737921 CATTCATTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:738800 original size:27 final size:26
Alignment explanation
Indices: 738754--738805 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
738744 TAAATATTTG
*
738754 ATTAAAATCTAAAAAATATACAATAT
1 ATTAAAATCTAAAAAATATAAAATAT
* *
738780 ATTAAAATCCTAACATATATAAAATA
1 ATTAAAAT-CTAAAAAATATAAAATA
738806 ATATCACTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (26 bp):
ATTAAAATCTAAAAAATATAAAATAT
Found at i:741694 original size:18 final size:18
Alignment explanation
Indices: 741668--741706 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
741658 ATAAATCATT
*
741668 AAATAAATTTAATAAAATA
1 AAATAAATTTAA-AAAACA
741687 AAAT-AATTTAAAAAACA
1 AAATAAATTTAAAAAACA
741704 AAA
1 AAA
741707 AGAGAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 7 0.37
19 4 0.21
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAAATTTAAAAAACA
Found at i:741827 original size:169 final size:169
Alignment explanation
Indices: 741624--741947 Score: 585
Period size: 169 Copynumber: 1.9 Consensus size: 169
741614 TTTTTCAATA
* * *
741624 TTCATGCACTAAAATTTTTTACATAATATATAATATAAATCATTAAATAAATTTAATAAAATAAA
1 TTCATACACTAAAACTTTTTACATAATATATAATATAAATCATTAAATAAAATTAATAAAATAAA
* *
741689 ATAATTTAAAAAACAAAAAGAGAAAAATGAAAGTTTCATCAGGTAAAGCTCTATTGAGCCTCATT
66 ATAATTTAAAAAACAAAAAGAGAAAAATAAAAGTTTCATCACGTAAAGCTCTATTGAGCCTCATT
741754 AAATCCTTTGTCCCTCCGGTGCCCCTCTTTTTTTTTATG
131 AAATCCTTTGTCCCTCCGGTGCCCCTCTTTTTTTTTATG
741793 TTCATACACTAAAACTTTTTACATAATATATAATATAAATCATTAAATAAAATTAATAAAATAAA
1 TTCATACACTAAAACTTTTTACATAATATATAATATAAATCATTAAATAAAATTAATAAAATAAA
* *
741858 ATAATTTGAAAAACAAAAAGAGAGAAATAAAAGTTTCATCACGTAAAGCTCTATTGAGCCTCATT
66 ATAATTTAAAAAACAAAAAGAGAAAAATAAAAGTTTCATCACGTAAAGCTCTATTGAGCCTCATT
741923 AAATCCTTTGTCCCTCCGGTGCCCC
131 AAATCCTTTGTCCCTCCGGTGCCCC
741948 CATTGATGGG
Statistics
Matches: 148, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
169 148 1.00
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.33
Consensus pattern (169 bp):
TTCATACACTAAAACTTTTTACATAATATATAATATAAATCATTAAATAAAATTAATAAAATAAA
ATAATTTAAAAAACAAAAAGAGAAAAATAAAAGTTTCATCACGTAAAGCTCTATTGAGCCTCATT
AAATCCTTTGTCCCTCCGGTGCCCCTCTTTTTTTTTATG
Found at i:750997 original size:13 final size:12
Alignment explanation
Indices: 750978--751017 Score: 62
Period size: 13 Copynumber: 3.2 Consensus size: 12
750968 AAAATATGAA
750978 AAAAAAAAAAAG
1 AAAAAAAAAAAG
750990 AAAGAAAAAAAAG
1 AAA-AAAAAAAAG
751003 AAAAAAAAAAGAG
1 AAAAAAAAAA-AG
751016 AA
1 AA
751018 GAAGAAGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:755166 original size:5 final size:6
Alignment explanation
Indices: 755151--755180 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
755141 GTTTTTCAGT
755151 TTTTTA TTTTTA TTTTTA TTTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA -TTTTTA TTTTT
755181 CCTGAAAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTA
Found at i:755173 original size:13 final size:12
Alignment explanation
Indices: 755151--755180 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
755141 GTTTTTCAGT
755151 TTTTTATTTTTA
1 TTTTTATTTTTA
755163 TTTTTATTTTTTA
1 TTTTTA-TTTTTA
755176 TTTTT
1 TTTTT
755181 CCTGAAAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:758232 original size:145 final size:145
Alignment explanation
Indices: 758037--758317 Score: 553
Period size: 145 Copynumber: 1.9 Consensus size: 145
758027 TTTGCAGGGG
758037 AAAAAAAAAAAAAAACATAACTAGAGAGGCAGCAGATATTATTACAATTTCAGAAGGTTATGATA
1 AAAAAAAAAAAAAAACATAACTAGAGAGGCAGCAGATATTATTACAATTTCAGAAGGTTATGATA
758102 ACTGACTAAAAGTATTGCCATGAAGTTAACTTGTAATTCAAGTCACTGTCTAGAATAATTTTTCC
66 ACTGACTAAAAGTATTGCCATGAAGTTAACTTGTAATTCAAGTCACTGTCTAGAATAATTTTTCC
758167 AAATTCGGGAAAAAA
131 AAATTCGGGAAAAAA
758182 AAAAAAAAAAAAAAACATAACTAGAGAGGCAGCAGATATTATTACAATTTCAGAAGGTTATGATA
1 AAAAAAAAAAAAAAACATAACTAGAGAGGCAGCAGATATTATTACAATTTCAGAAGGTTATGATA
*
758247 ACTGACTAAAAGTATTGTCATGAAGTTAACTTGTAATTCAAGTCACTGTCTAGAATAATTTTTCC
66 ACTGACTAAAAGTATTGCCATGAAGTTAACTTGTAATTCAAGTCACTGTCTAGAATAATTTTTCC
758312 AAATTC
131 AAATTC
758318 CGTATTATGT
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 135 1.00
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (145 bp):
AAAAAAAAAAAAAAACATAACTAGAGAGGCAGCAGATATTATTACAATTTCAGAAGGTTATGATA
ACTGACTAAAAGTATTGCCATGAAGTTAACTTGTAATTCAAGTCACTGTCTAGAATAATTTTTCC
AAATTCGGGAAAAAA
Found at i:764887 original size:46 final size:46
Alignment explanation
Indices: 764821--764913 Score: 118
Period size: 45 Copynumber: 2.0 Consensus size: 46
764811 GGTTAAGAGT
* * *
764821 AATAGAGCATTTTGGTCAAAAAAATGAAAA-TAAAATTTCTAATTTTA
1 AATAGAGCATTTTGG--ACAAAAATGAAAACAAAAATTTCCAATTTTA
*
764868 AATAG-GCATTTTTGACAAAAATGAAAACAAAAATTTCCAATTTTA
1 AATAGAGCATTTTGGACAAAAATGAAAACAAAAATTTCCAATTTTA
764913 A
1 A
764914 TCAATCATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
44 12 0.29
45 16 0.39
46 8 0.20
47 5 0.12
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.32
Consensus pattern (46 bp):
AATAGAGCATTTTGGACAAAAATGAAAACAAAAATTTCCAATTTTA
Found at i:766105 original size:29 final size:30
Alignment explanation
Indices: 766052--766119 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
766042 ATTAAATATC
* * *
766052 AAATTTTATCATTTTATTTTTA-TTTAATT
1 AAATTTTATCATTTAACTTTGATTTTAATT
766081 AAATTTTATCATTTAACTTTGATTTTTAATT
1 AAATTTTATCATTTAACTTTGA-TTTTAATT
*
766112 GAATTTTA
1 AAATTTTA
766120 CTACTTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.58
31 14 0.42
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.60
Consensus pattern (30 bp):
AAATTTTATCATTTAACTTTGATTTTAATT
Found at i:767885 original size:31 final size:31
Alignment explanation
Indices: 767844--767903 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
767834 CACTTAATTC
*
767844 ATTGTCGTGTTATAACATATTTAATTTTATA
1 ATTGTCGTGTTATAAAATATTTAATTTTATA
*
767875 ATTGTGGTGTTATAAAATATTTAATTTTA
1 ATTGTCGTGTTATAAAATATTTAATTTTA
767904 CACAAGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (31 bp):
ATTGTCGTGTTATAAAATATTTAATTTTATA
Found at i:769003 original size:74 final size:74
Alignment explanation
Indices: 768896--769060 Score: 199
Period size: 74 Copynumber: 2.2 Consensus size: 74
768886 GATACTATTT
* * * * * *
768896 ATTT-TTTTTTTTTGTAGAAGTTTAAATTTATTTTTTAATTTGATTTTACAAGTTTAAA-TTTTT
1 ATTTATTTTTATTTGTAAAAATTTAAATTTATTTTTTAAGTTGATTATACAAG-CTAAATTTTTT
*
768959 TTATAGTATA
65 TTAAAGTATA
** *
768969 ATTTATTTTTATTTGTAAAAATTTAAATTTATTTTTTGGGTTGATTATAGAAGCTAAATTTTTTT
1 ATTTATTTTTATTTGTAAAAATTTAAATTTATTTTTTAAGTTGATTATACAAGCTAAATTTTTTT
*
769034 TAAAGTATG
66 TAAAGTATA
*
769043 GTTTATTTTTATTTGTAA
1 ATTTATTTTTATTTGTAA
769061 GATTAGTTTG
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
73 8 0.10
74 70 0.90
ACGTcount: A:0.30, C:0.01, G:0.10, T:0.59
Consensus pattern (74 bp):
ATTTATTTTTATTTGTAAAAATTTAAATTTATTTTTTAAGTTGATTATACAAGCTAAATTTTTTT
TAAAGTATA
Found at i:769351 original size:69 final size:70
Alignment explanation
Indices: 769197--769478 Score: 253
Period size: 73 Copynumber: 3.9 Consensus size: 70
769187 TTTGGATATT
* * *
769197 ATTATACAAGTTTAAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAATTTTGTTTT
1 ATTATACAAGTTT-AAATTTTTAAAGTATAATTTA-TTTT-TTTGTAGAAGTTTAAATTTATTTT
* *
769262 TTAGCTTA
63 TGAGCATA
* * *
769270 ATTATACGAGTTTAAATTTTAAAAGTATTATTTA-TTTTTTGTAGAAGTTTAAATTTATTTTTGA
1 ATTATACAAGTTTAAATTTTTAAAGTATAATTTATTTTTTTGTAGAAGTTTAAATTTATTTTTGA
*
769334 GCATG
66 GCATA
* * * *
769339 ATTACACAAGTTTAAATTTTTTAAAGTATGATTTATTTTTATTTTCAGAAGTTTAAATTTGCTTT
1 ATTATACAAGTTTAAA-TTTTTAAAGTATAATTTATTTTT-TTGT-AGAAGTTTAAATTT-ATTT
* ** *
769404 CTG-GTTTG
62 TTGAGCATA
** * * *
769412 ATTATATGAGTTTAAAATTTTTTAAGGTATAATTTATTTTTATTTGTAAAAATTTAAATTTATTT
1 ATTATACAAGTTT-AAA-TTTTTAAAGTATAATTTA-TTTT-TTTGTAGAAGTTTAAATTTATTT
769477 TT
62 TT
769479 TGGGTTAATT
Statistics
Matches: 173, Mismatches: 28, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
69 41 0.24
70 19 0.11
71 4 0.02
72 21 0.12
73 43 0.25
74 37 0.21
75 7 0.04
76 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (70 bp):
ATTATACAAGTTTAAATTTTTAAAGTATAATTTATTTTTTTGTAGAAGTTTAAATTTATTTTTGA
GCATA
Found at i:769352 original size:142 final size:146
Alignment explanation
Indices: 769197--769478 Score: 367
Period size: 142 Copynumber: 2.0 Consensus size: 146
769187 TTTGGATATT
* * * *
769197 ATTATACAAGTTTAAAATTTTTAAGGTATAATTTATTTTTATTTGT-AGAAGTTTAATTTTGTTT
1 ATTACACAAGTTTAAAATTTTTAAAGTATAATTTATTTTTATTT-TCAGAAGTTTAAATTTGCTT
* * * *
769261 TTTAGCTTAATTATACGAGTTT-AAA-TTTTAAAAGTATTATTTA-TTT-TTTGTAGAAGTTTAA
65 TCTAGCTTAATTATACGAGTTTAAAATTTTTAAAAGTATAATTTATTTTATTTGTAAAAATTTAA
769322 ATTTATTTTTGAGCATG
130 ATTTATTTTTGAGCATG
* *
769339 ATTACACAAGTTTAAATTTTTTAAAGTATGATTTATTTTTATTTTCAGAAGTTTAAATTTGCTTT
1 ATTACACAAGTTTAAAATTTTTAAAGTATAATTTATTTTTATTTTCAGAAGTTTAAATTTGCTTT
* * * * * *
769404 CTGGTTTGATTATATGAGTTTAAAATTTTTTAAGGTATAATTTATTTTTATTTGTAAAAATTTAA
66 CTAGCTTAATTATACGAGTTTAAAATTTTTAAAAGTATAATTTA-TTTTATTTGTAAAAATTTAA
769469 ATTTATTTTT
130 ATTTATTTTT
769479 TGGGTTAATT
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
141 1 0.01
142 73 0.62
143 3 0.03
144 15 0.13
146 3 0.03
147 23 0.19
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (146 bp):
ATTACACAAGTTTAAAATTTTTAAAGTATAATTTATTTTTATTTTCAGAAGTTTAAATTTGCTTT
CTAGCTTAATTATACGAGTTTAAAATTTTTAAAAGTATAATTTATTTTATTTGTAAAAATTTAAA
TTTATTTTTGAGCATG
Found at i:769471 original size:74 final size:74
Alignment explanation
Indices: 769197--769530 Score: 335
Period size: 74 Copynumber: 4.6 Consensus size: 74
769187 TTTGGATATT
* *
769197 ATTATACAAGTTTAAAA-TTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAATTTTGTTT
1 ATTATACGAGTTTAAAATTTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTGTTT
*
769261 TTTAGCTTA
66 TTTGGCTTA
* * * *
769270 ATTATACGAGTTT-AAA-TTTTAAAAGTATTATTTA--TTT-TTTGTAGAAGTTTAAATTT-ATT
1 ATTATACGAGTTTAAAATTTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTGTTT
* *
769329 TTTGAGCATG
66 TTTG-GCTTA
* * * * *
769339 ATTACACAAGTTT-AAATTTTTTAAAGTATGATTTATTTTTATTT-TCAGAAGTTTAAATTTGCT
1 ATTATACGAGTTTAAAATTTTTTAAGGTATAATTTATTTTTATTTGT-AGAAGTTTAAATTTGTT
* * *
769402 TTCTGGTTTG
65 TTTTGGCTTA
* * * *
769412 ATTATATGAGTTTAAAATTTTTTAAGGTATAATTTATTTTTATTTGTAAAAATTTAAATTTATTT
1 ATTATACGAGTTTAAAATTTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTGTTT
*
769477 TTTGGGTTA
66 TTTGGCTTA
* * * *
769486 ATTATAAGAGTTAAAAAATTTTTTAAGGTATGATTTTTTATTTAT
1 ATTATACGAGTT-TAAAATTTTTTAAGGTATAATTTATT-TTTAT
769531 AAGATTAGTT
Statistics
Matches: 217, Mismatches: 33, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
68 5 0.02
69 35 0.16
70 19 0.09
72 22 0.10
73 42 0.19
74 65 0.30
75 24 0.11
76 5 0.02
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.53
Consensus pattern (74 bp):
ATTATACGAGTTTAAAATTTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTGTTT
TTTGGCTTA
Found at i:771004 original size:80 final size:81
Alignment explanation
Indices: 770868--771065 Score: 217
Period size: 80 Copynumber: 2.5 Consensus size: 81
770858 TCTTCTTTTT
* * ** * *
770868 TTAGAAATTTTGAAAA--AAAAAGGGGGTTTGAGTATCACTTCGATAATAATGGGGTTGGAGTAT
1 TTAGATATTTTTAAAAGTAAAAAGGGGGTTCAAGTATCACTTCGATAATAATGAGGTTGAAGTAT
*
770931 CCT-GAAGATAAAAAA
66 CCTCGAAAATAAAAAA
* *
770946 TTAGATATTTTTAAAAGTAAAAATGGGGTTCAAGTATCTCTTCGATAATAATGAGGTTGAAGTAT
1 TTAGATATTTTTAAAAGTAAAAAGGGGGTTCAAGTATCACTTCGATAATAATGAGGTTGAAGTAT
* *
771011 CTTCGAAAATAGAAAA
66 CCTCGAAAATAAAAAA
* * * *
771027 TTGGATATTTTTAGAGGT-AAAACGGGGTT-AGAGTATCAC
1 TTAGATATTTTTAAAAGTAAAAAGGGGGTTCA-AGTATCAC
771066 CTCAGAAATT
Statistics
Matches: 100, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
78 14 0.14
79 1 0.01
80 60 0.60
81 25 0.25
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (81 bp):
TTAGATATTTTTAAAAGTAAAAAGGGGGTTCAAGTATCACTTCGATAATAATGAGGTTGAAGTAT
CCTCGAAAATAAAAAA
Done.