Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 206 of 216
Found at i:63874293 original size:32 final size:33
Alignment explanation
Indices: 63874243--63874308 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
63874233 TTAAGGATCC
* * * *
63874243 AAAATTTTTTTACTAACTTTTATGGGACCTAAA
1 AAAATTTTTCTACCAACTTTTAAGGAACCTAAA
63874276 AAAATTTTTCT-CCAACTTTTAAGGAACCTAAA
1 AAAATTTTTCTACCAACTTTTAAGGAACCTAAA
63874308 A
1 A
63874309 CCCCATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 19 0.66
33 10 0.34
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (33 bp):
AAAATTTTTCTACCAACTTTTAAGGAACCTAAA
Found at i:63875207 original size:22 final size:22
Alignment explanation
Indices: 63875180--63875240 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
63875170 CAACTAAATT
63875180 ATTTCTCTCAATTTCTCTCT-A
1 ATTTCTCTCAATTTCTCTCTCA
* *
63875201 ATATTCTCTTAAATTC-CTCTCA
1 AT-TTCTCTCAATTTCTCTCTCA
63875223 ATTTCCTCTCAAATTTCT
1 ATTT-CTCTC-AATTTCT
63875241 ATTTAAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
21 8 0.26
22 18 0.58
23 5 0.16
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTCTCTCAATTTCTCTCTCA
Found at i:63875228 original size:11 final size:10
Alignment explanation
Indices: 63875180--63875240 Score: 59
Period size: 10 Copynumber: 5.6 Consensus size: 10
63875170 CAACTAAATT
63875180 ATTTCTCTCA
1 ATTTCTCTCA
63875190 ATTTCTCTCTA
1 ATTTCTCTC-A
*
63875201 ATATTCTCTTAA
1 AT-TTCTC-TCA
*
63875213 ATTCCTCTCA
1 ATTTCTCTCA
63875223 ATTTCCTCTCAA
1 ATTT-CTCTC-A
63875235 ATTTCT
1 ATTTCT
63875241 ATTTAAAAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
10 14 0.33
11 14 0.33
12 13 0.31
13 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (10 bp):
ATTTCTCTCA
Found at i:63882430 original size:24 final size:24
Alignment explanation
Indices: 63882403--63882449 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
63882393 TTCATGTGAA
*
63882403 AGTAGACTCATTCAGCTT-TAATTT
1 AGTA-ACTCACTCAGCTTCTAATTT
*
63882427 AGTATCTCACTCAGCTTCTAATT
1 AGTAACTCACTCAGCTTCTAATT
63882450 CAATTTCCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (24 bp):
AGTAACTCACTCAGCTTCTAATTT
Found at i:63883239 original size:46 final size:46
Alignment explanation
Indices: 63883172--63883402 Score: 363
Period size: 46 Copynumber: 5.0 Consensus size: 46
63883162 ACATTGCTAT
*
63883172 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* *
63883218 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAG
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* * *
63883264 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTTAT
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* * *
63883310 AACTCAGTCTGGTTTTCTTCACTGAAATACCATACCTACTTTTCAG
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* *
63883356 AACTCAGTATGGTTTTCTTTACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
63883402 A
1 A
63883403 CTTTGTCATG
Statistics
Matches: 169, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 169 1.00
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
Found at i:63883329 original size:92 final size:92
Alignment explanation
Indices: 63883172--63883402 Score: 408
Period size: 92 Copynumber: 2.5 Consensus size: 92
63883162 ACATTGCTAT
* *
63883172 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
63883237 CACTGAAATACCATACCTACTTTTCAG
66 CACTGAAATACCATACCTACTTTTCAG
* * *
63883264 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTTATAACTCAGTCTGGTTTTCTT
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
63883329 CACTGAAATACCATACCTACTTTTCAG
66 CACTGAAATACCATACCTACTTTTCAG
*
63883356 AACTCAGTATGGTTTTCTTTACCGAAACACCATACCTACTTTTCACA
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCACA
63883403 CTTTGTCATG
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 131 1.00
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.36
Consensus pattern (92 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
CACTGAAATACCATACCTACTTTTCAG
Found at i:63885253 original size:18 final size:18
Alignment explanation
Indices: 63885199--63885259 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
63885189 TGCCAGGTGC
*
63885199 GTATCCTAGTCCTTTTAT
1 GTATCCTAGCCCTTTTAT
*
63885217 GTATCCTAGCCTTTTTAT
1 GTATCCTAGCCCTTTTAT
* *
63885235 GTATCCTAACCCTTATAT
1 GTATCCTAGCCCTTTTAT
*
63885253 GTTTCCT
1 GTATCCT
63885260 TTTTCTAGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.18, C:0.25, G:0.10, T:0.48
Consensus pattern (18 bp):
GTATCCTAGCCCTTTTAT
Found at i:63886536 original size:9 final size:9
Alignment explanation
Indices: 63886522--63886553 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
63886512 TTTTGGTTAA
63886522 GAATTAACC
1 GAATTAACC
63886531 GAATTAACC
1 GAATTAACC
*
63886540 GAATTACCC
1 GAATTAACC
63886549 GAATT
1 GAATT
63886554 GAATCACTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (9 bp):
GAATTAACC
Found at i:63892637 original size:21 final size:21
Alignment explanation
Indices: 63892596--63892638 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
63892586 AATAAAGTAG
*
63892596 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
63892617 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
63892638 A
1 A
63892639 AATTCATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:63892937 original size:16 final size:16
Alignment explanation
Indices: 63892916--63892946 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63892906 TTGATTTGTT
*
63892916 ATTACGCCTCTATTCC
1 ATTACGACTCTATTCC
63892932 ATTACGACTCTATTC
1 ATTACGACTCTATTC
63892947 TAATACAGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGACTCTATTCC
Found at i:63895589 original size:30 final size:30
Alignment explanation
Indices: 63895550--63895618 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
63895540 TTATAAAAAT
* * *
63895550 TTTCAATTTAGTTACCAATATTTTAGATCA
1 TTTCTATTTAGTCACCAACATTTTAGATCA
** **
63895580 TTTCTATTTAGTCACTTACATTTTAGATTG
1 TTTCTATTTAGTCACCAACATTTTAGATCA
63895610 TTTCTATTT
1 TTTCTATTT
63895619 TGGTCACATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.13, G:0.07, T:0.54
Consensus pattern (30 bp):
TTTCTATTTAGTCACCAACATTTTAGATCA
Found at i:63900966 original size:30 final size:30
Alignment explanation
Indices: 63900923--63901028 Score: 185
Period size: 30 Copynumber: 3.5 Consensus size: 30
63900913 GACCTGTTGG
* * *
63900923 ATGCTGGGGTTTGAACCGTAAGCCTAATGA
1 ATGCTGAGATTTGAACTGTAAGCCTAATGA
63900953 ATGCTGAGATTTGAACTGTAAGCCTAATGA
1 ATGCTGAGATTTGAACTGTAAGCCTAATGA
63900983 ATGCTGAGATTTGAACTGTAAGCCTAATGA
1 ATGCTGAGATTTGAACTGTAAGCCTAATGA
63901013 ATGCTGAGATTTGAAC
1 ATGCTGAGATTTGAAC
63901029 ATCTTAACAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 73 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (30 bp):
ATGCTGAGATTTGAACTGTAAGCCTAATGA
Found at i:63906380 original size:6 final size:6
Alignment explanation
Indices: 63906369--63906417 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
63906359 TTTTCTTGGT
* *
63906369 TAGGAA TGGGAA TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA TTGGAA
1 TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA
63906417 T
1 T
63906418 CCCATTGCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (6 bp):
TAGGAA
Found at i:63907132 original size:15 final size:15
Alignment explanation
Indices: 63907112--63907142 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
63907102 AAAATGATCT
63907112 CTTAAAGGATCCTTG
1 CTTAAAGGATCCTTG
63907127 CTTAAAGGATCCTTG
1 CTTAAAGGATCCTTG
63907142 C
1 C
63907143 CTGGGTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (15 bp):
CTTAAAGGATCCTTG
Found at i:63919086 original size:31 final size:29
Alignment explanation
Indices: 63919046--63919161 Score: 96
Period size: 31 Copynumber: 3.9 Consensus size: 29
63919036 CAACTTTAAA
63919046 AAAAATGTCAAGTCTAGGTACCAAATTAGG
1 AAAAATGTCAAGT-TAGGTACCAAATTAGG
*
63919076 AAAAAGTGTCAAGTTTGAGTACCAAATT-GG
1 AAAAA-TGTCAAGTTAG-GTACCAAATTAGG
* *
63919106 ACCAAAA---AAAGTTTAGGTATCAAATTAGG
1 A--AAAATGTCAAG-TTAGGTACCAAATTAGG
*
63919135 AAAAATTGTCAAGTTCAGATACCAAAT
1 AAAAA-TGTCAAGTT-AGGTACCAAAT
63919162 ATTATATTAA
Statistics
Matches: 68, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
27 4 0.06
28 12 0.18
29 6 0.09
30 12 0.18
31 30 0.44
32 4 0.06
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (29 bp):
AAAAATGTCAAGTTAGGTACCAAATTAGG
Found at i:63919301 original size:16 final size:17
Alignment explanation
Indices: 63919270--63919306 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
63919260 TTATTGAGAT
63919270 ATTATAAAATAATAAAA
1 ATTATAAAATAATAAAA
63919287 ATTATAAAA-AATAAAA
1 ATTATAAAATAATAAAA
63919303 ATTA
1 ATTA
63919307 CTTTTGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
ATTATAAAATAATAAAA
Found at i:63931143 original size:30 final size:30
Alignment explanation
Indices: 63931107--63931164 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
63931097 AAAAATAAAA
*
63931107 TATAGAAAAATATTAAAATTTATGAAAACG
1 TATAGAAAAATATTAAAATTTATAAAAACG
* *
63931137 TATAGAAAAATTTTAAATTTTATAAAAA
1 TATAGAAAAATATTAAAATTTATAAAAA
63931165 TATAAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (30 bp):
TATAGAAAAATATTAAAATTTATAAAAACG
Found at i:63938591 original size:23 final size:23
Alignment explanation
Indices: 63938565--63938608 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
63938555 TAAATTGGAT
63938565 TTGGTCTTTCACTTTTATTTTGA
1 TTGGTCTTTCACTTTTATTTTGA
*
63938588 TTGGTCTTTGACTTTTATTTT
1 TTGGTCTTTCACTTTTATTTT
63938609 AAACGACTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.11, G:0.14, T:0.64
Consensus pattern (23 bp):
TTGGTCTTTCACTTTTATTTTGA
Found at i:63944521 original size:9 final size:9
Alignment explanation
Indices: 63944507--63944583 Score: 55
Period size: 9 Copynumber: 7.8 Consensus size: 9
63944497 CCATTTATTG
63944507 ATTTTTAAT
1 ATTTTTAAT
63944516 ATTTTTAAT
1 ATTTTTAAT
*
63944525 AATATTTGAAT
1 -AT-TTTTAAT
63944536 ATTTTTATAATT
1 A-TTTT-TAA-T
* *
63944548 GTCTTTTAAC
1 AT-TTTTAAT
63944558 ATTTTTATAT
1 ATTTTTA-AT
63944568 ATTTTTAAT
1 ATTTTTAAT
*
63944577 AATTTTA
1 ATTTTTA
63944584 TTTTTAAAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
9 22 0.41
10 15 0.28
11 13 0.24
12 4 0.07
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:63950433 original size:42 final size:42
Alignment explanation
Indices: 63950167--63950440 Score: 379
Period size: 42 Copynumber: 6.5 Consensus size: 42
63950157 GAACAGAAGT
*
63950167 ATCCTAATTGA-GTAGGGATTAAATGAAAAAGTAAAAACATAA
1 ATCCTAATTGAGGT-GGGATTAAATGAAAAACTAAAAACATAA
* * *
63950209 ATCTTAATTGATGTAGGATTAAATGAAAAACTAAAAACATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAACATAA
* ** *
63950251 ATCCTATTTGACCTGAGATTAAATGAAAAACTAAAAACATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAACATAA
* * *
63950293 ATCCTAATTGACGTGAGATTAAATGAAAAACTAGAAACATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAACATAA
* * *
63950335 ATCCTAATTGAGGTAGGATTAAATGAAAAATTAAAAAGATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAACATAA
* *
63950377 ATCCTAATTGAGGTGGGATTAAATGAAAAACTACAAAGATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAACATAA
*
63950419 ATCCTAATTGAGGTGGGTTTAA
1 ATCCTAATTGAGGTGGGATTAA
63950441 TTGTGGGGCT
Statistics
Matches: 209, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
42 207 0.99
43 2 0.01
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.26
Consensus pattern (42 bp):
ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAACATAA
Found at i:63953982 original size:21 final size:21
Alignment explanation
Indices: 63953958--63953998 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
63953948 GTTGCTACCT
*
63953958 TTTCCACCACTTCCGCCACCG
1 TTTCCACCACTTCCACCACCG
*
63953979 TTTCCACCCCTTCCACCACC
1 TTTCCACCACTTCCACCACC
63953999 ATCTCTGCTT
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:0.15, C:0.56, G:0.05, T:0.24
Consensus pattern (21 bp):
TTTCCACCACTTCCACCACCG
Found at i:63956552 original size:29 final size:31
Alignment explanation
Indices: 63956483--63956589 Score: 98
Period size: 29 Copynumber: 3.5 Consensus size: 31
63956473 CAAAAAAAAA
63956483 TTTACCAACTTTTAAGGGCCTCAAAATTTTT
1 TTTACCAACTTTTAAGGGCCTCAAAATTTTT
* * *
63956514 TTT--TAGCTTTTAAGGG-TTC-AAATTTTT
1 TTTACCAACTTTTAAGGGCCTCAAAATTTTT
* *
63956541 TTTACCAACTTTTAAGGGGCCTAAAAGAATTTT
1 TTTACCAACTTTTAA-GGGCCTCAAA-ATTTTT
* *
63956574 TCT-CCAATTTTTAAGG
1 TTTACCAACTTTTAAGG
63956590 AATCTAAAAC
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
27 11 0.18
28 2 0.03
29 19 0.32
30 3 0.05
31 6 0.10
32 12 0.20
33 7 0.12
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (31 bp):
TTTACCAACTTTTAAGGGCCTCAAAATTTTT
Found at i:63957231 original size:24 final size:25
Alignment explanation
Indices: 63957190--63957237 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
63957180 TATATTAATT
63957190 TTTTTTAGTTTAAAT-AAAATATTA
1 TTTTTTAGTTTAAATAAAAATATTA
* * *
63957214 TTTTTTATTTTTATTAAAAATATT
1 TTTTTTAGTTTAAATAAAAATATT
63957238 CAAATATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTTTTAGTTTAAATAAAAATATTA
Found at i:63957458 original size:11 final size:10
Alignment explanation
Indices: 63957442--63957504 Score: 53
Period size: 11 Copynumber: 6.4 Consensus size: 10
63957432 GTATCAATCG
63957442 GAAAAGAGAAA
1 GAAAAGAG-AA
63957453 GAAAAGAG-A
1 GAAAAGAGAA
*
63957462 GAAAGGAGAA
1 GAAAAGAGAA
*
63957472 GAAGAGAAGAA
1 GAAAAG-AGAA
63957483 GAAGAAGA-AA
1 GAA-AAGAGAA
63957493 G-AAAGA-AA
1 GAAAAGAGAA
63957501 GAAA
1 GAAA
63957505 GGTATTGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
8 7 0.16
9 11 0.25
10 8 0.18
11 16 0.36
12 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:63957478 original size:17 final size:17
Alignment explanation
Indices: 63957451--63957503 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
63957441 GGAAAAGAGA
63957451 AAGAA-AAGAGAGAAAG
1 AAGAAGAAGAGAGAAAG
*
63957467 GAGAAGAAGAGA-AGAAG
1 AAGAAGAAGAGAGA-AAG
*
63957484 AAGAAGAAAGAAAGAAAG
1 AAGAAG-AAGAGAGAAAG
63957502 AA
1 AA
63957504 AGGTATTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 5 0.17
17 14 0.47
18 10 0.33
19 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAGAGAAAG
Found at i:63957498 original size:14 final size:12
Alignment explanation
Indices: 63957442--63957505 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 12
63957432 GTATCAATCG
63957442 GAAAAG-AGAAA
1 GAAAAGAAGAAA
63957453 GAAAAGAGAGAAA
1 GAAAAGA-AGAAA
*
63957466 GGAGAAGAAGAGAA
1 -GAAAAGAAGA-AA
63957480 GAAGAAGAAGAAA
1 GAA-AAGAAGAAA
63957493 G-AAAGAAAGAAA
1 GAAAAG-AAGAAA
63957505 G
1 G
63957506 GTATTGTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
11 9 0.20
12 8 0.18
13 13 0.29
14 15 0.33
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
GAAAAGAAGAAA
Found at i:63958409 original size:56 final size:57
Alignment explanation
Indices: 63958321--63958441 Score: 199
Period size: 56 Copynumber: 2.1 Consensus size: 57
63958311 AAATAGTATG
* *
63958321 TTTTTTGTAGTCGCGCCTATCTGACAGACGCGAATCAATTTTTTATATTAAAAAATA
1 TTTTTTGTAATCGCACCTATCTGACAGACGCGAATCAATTTTTTATATTAAAAAATA
* *
63958378 TTTTTT-TAATCGCACCTATTTGACAGGCGCGAATCAATTTTTTATATTAAAAAATA
1 TTTTTTGTAATCGCACCTATCTGACAGACGCGAATCAATTTTTTATATTAAAAAATA
63958434 TTTTTTGT
1 TTTTTTGT
63958442 TTAAATAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
56 52 0.88
57 7 0.12
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (57 bp):
TTTTTTGTAATCGCACCTATCTGACAGACGCGAATCAATTTTTTATATTAAAAAATA
Found at i:63958716 original size:16 final size:16
Alignment explanation
Indices: 63958695--63958731 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
63958685 TTAACTCATT
*
63958695 TAATTTTTATATAATG
1 TAATTTTTATATAATA
63958711 TAATTTTTATATAATA
1 TAATTTTTATATAATA
63958727 TAATT
1 TAATT
63958732 GTATTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TAATTTTTATATAATA
Found at i:63961181 original size:10 final size:10
Alignment explanation
Indices: 63961163--63961198 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
63961153 TTCTTCGTGT
63961163 TTTTATTTTG
1 TTTTATTTTG
*
63961173 TTTTGTTTTG
1 TTTTATTTTG
*
63961183 TTTTATTTTA
1 TTTTATTTTG
63961193 TTTTAT
1 TTTTAT
63961199 ATATATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.81
Consensus pattern (10 bp):
TTTTATTTTG
Found at i:63962068 original size:16 final size:16
Alignment explanation
Indices: 63962047--63962092 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
63962037 GGTTCGGCCC
*
63962047 AAAGAAGAAGAAGAAG
1 AAAGAAGAAGAAAAAG
63962063 AAAGAAGAAGAAAAAG
1 AAAGAAGAAGAAAAAG
*
63962079 AAAAAAGAA-AAAAA
1 AAAGAAGAAGAAAAA
63962093 AATCACAGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
15 5 0.18
16 23 0.82
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAGAAGAAGAAAAAG
Found at i:63962927 original size:20 final size:21
Alignment explanation
Indices: 63962894--63962934 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
63962884 TGTTTCGAAA
*
63962894 TTTTCTTGTCTTCAAAATTTT
1 TTTTCATGTCTTCAAAATTTT
63962915 TTTTCATGT-TTCAAAATTTT
1 TTTTCATGTCTTCAAAATTTT
63962935 CGCATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.61
Consensus pattern (21 bp):
TTTTCATGTCTTCAAAATTTT
Found at i:63962970 original size:34 final size:34
Alignment explanation
Indices: 63962923--63963034 Score: 111
Period size: 35 Copynumber: 3.2 Consensus size: 34
63962913 TTTTTTCATG
63962923 TTTCAAAATTTTC-GCATTTAAAAAATCTTCGTGT
1 TTTCAAAA-TTTCGGCATTTAAAAAATCTTCGTGT
** * *
63962957 TTTCAAAAGTTTCGGTGTTTCAAAAAT-TTCCGCGT
1 TTTCAAAA-TTTCGGCATTTAAAAAATCTT-CGTGT
* * *
63962992 TTCCAAAATTCCGGTGATTTAAAAAATCTTCGTGT
1 TTTCAAAATTTCGG-CATTTAAAAAATCTTCGTGT
63963027 TTTCAAAA
1 TTTCAAAA
63963035 ATTCCAGTGT
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
34 19 0.31
35 41 0.66
36 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.40
Consensus pattern (34 bp):
TTTCAAAATTTCGGCATTTAAAAAATCTTCGTGT
Found at i:63962974 original size:18 final size:18
Alignment explanation
Indices: 63962943--63963068 Score: 86
Period size: 17 Copynumber: 7.3 Consensus size: 18
63962933 TTCGCATTTA
63962943 AAAAATCTTC-GTGTTTTC
1 AAAAAT-TTCGGTGTTTTC
*
63962961 AAAAGTTTCGGTG-TTTC
1 AAAAATTTCGGTGTTTTC
* *
63962978 AAAAATTTCCGCG-TTTC
1 AAAAATTTCGGTGTTTTC
* * * *
63962995 CAAAATTCCGGTGATTTA
1 AAAAATTTCGGTGTTTTC
63963013 AAAAATCTTC-GTGTTTTC
1 AAAAAT-TTCGGTGTTTTC
* *
63963031 AAAAATTCCAGTG-TTTC
1 AAAAATTTCGGTGTTTTC
* *
63963048 -AAATTTTC-ATGTTTTC
1 AAAAATTTCGGTGTTTTC
63963064 AAAAA
1 AAAAA
63963069 AAAAAATTCT
Statistics
Matches: 84, Mismatches: 18, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
15 2 0.02
16 10 0.12
17 39 0.46
18 31 0.37
19 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.40
Consensus pattern (18 bp):
AAAAATTTCGGTGTTTTC
Found at i:63962999 original size:35 final size:34
Alignment explanation
Indices: 63962943--63963050 Score: 119
Period size: 35 Copynumber: 3.1 Consensus size: 34
63962933 TTCGCATTTA
* *
63962943 AAAAATCTTCGTGTTTTCAAAAGTTTCGGTGTTTC
1 AAAAATCTTCGCGTTTTCAAAA-TTCCGGTGTTTC
* *
63962978 AAAAAT-TTCCGCGTTTCCAAAATTCCGGTGATTTA
1 AAAAATCTT-CGCGTTTTCAAAATTCCGGTG-TTTC
* *
63963013 AAAAATCTTCGTGTTTTCAAAAATTCCAGTGTTTC
1 AAAAATCTTCGCGTTTTC-AAAATTCCGGTGTTTC
63963048 AAA
1 AAA
63963051 TTTTCATGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
34 9 0.15
35 39 0.64
36 13 0.21
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (34 bp):
AAAAATCTTCGCGTTTTCAAAATTCCGGTGTTTC
Found at i:63963000 original size:52 final size:50
Alignment explanation
Indices: 63962921--63963068 Score: 122
Period size: 52 Copynumber: 2.9 Consensus size: 50
63962911 TTTTTTTTCA
* * * *
63962921 TGTTTC-AAAATTTTCGCATTTAAAAAATCTTCGTGTTTTCAAAAGT-TTCGG
1 TGTTTCAAAAATTTCCGCGTTT-CAAAAT-TTCGTGTTTTCAAAAATCTTC-G
* * *
63962972 TGTTTCAAAAATTTCCGCGTTTCCAAAATTCCGGTGATTTAAAAAATCTTCG
1 TGTTTCAAAAATTTCCGCGTTT-CAAAATTTC-GTGTTTTCAAAAATCTTCG
* * *
63963024 TGTTTTCAAAAA-TTCCAGTGTTTCAAATTTTCATGTTTTCAAAAA
1 TG-TTTCAAAAATTTCC-GCGTTTCAAAATTTCGTGTTTTCAAAAA
63963069 AAAAAATTCT
Statistics
Matches: 78, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
51 18 0.23
52 43 0.55
53 17 0.22
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (50 bp):
TGTTTCAAAAATTTCCGCGTTTCAAAATTTCGTGTTTTCAAAAATCTTCG
Found at i:63963084 original size:39 final size:41
Alignment explanation
Indices: 63963031--63963109 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
63963021 TCGTGTTTTC
* *
63963031 AAAAATTCCAGTG-TTT-CAAATTTTCATGTTTTCAAAAAA
1 AAAAATTCCAGTGTTTTAAAAACTTTCATGTTTTCAAAAAA
*
63963070 AAAAATTCTC-GTGTTTTAAAAACTTTCGTGTTTTCAAAAA
1 AAAAATTC-CAGTGTTTTAAAAACTTTCATGTTTTCAAAAA
63963110 TTTTTGTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 11 0.32
40 4 0.12
41 19 0.56
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (41 bp):
AAAAATTCCAGTGTTTTAAAAACTTTCATGTTTTCAAAAAA
Found at i:63963108 original size:18 final size:17
Alignment explanation
Indices: 63962943--63963234 Score: 109
Period size: 18 Copynumber: 16.3 Consensus size: 17
63962933 TTCGCATTTA
63962943 AAAAATCTTCGTGTTTTC
1 AAAAAT-TTCGTGTTTTC
*
63962961 AAAAGTTTCG-GTGTTTC
1 AAAAATTTCGTGT-TTTC
*
63962978 AAAAATTTCCGCG-TTTC
1 AAAAATTT-CGTGTTTTC
* * * *
63962995 CAAAATTCCGGTGATTTA
1 AAAAATTTC-GTGTTTTC
63963013 AAAAATCTTCGTGTTTTC
1 AAAAAT-TTCGTGTTTTC
*
63963031 AAAAATTCCAGTG-TTTC
1 AAAAATTTC-GTGTTTTC
* *
63963048 -AAATTTTCATGTTTTC
1 AAAAATTTCGTGTTTTC
63963064 AAAAAAAAAAATTCTCGTGTTTT-
1 ------AAAAATT-TCGTGTTTTC
63963087 AAAAACTTTCGTGTTTTC
1 AAAAA-TTTCGTGTTTTC
* *
63963105 AAAAATTTTTGTCTTTTC
1 AAAAA-TTTCGTGTTTTC
*
63963123 AACAATTCTCGTGTTTT-
1 AAAAATT-TCGTGTTTTC
* * *
63963140 ATAAATTT-TTGCATTTC
1 AAAAATTTCGTG-TTTTC
** *
63963157 AAAAAAAATCGCGTTTTC
1 -AAAAATTTCGTGTTTTC
*
63963175 AAAAAAAATTCTCGTG-TGTC
1 ---AAAAATT-TCGTGTTTTC
63963195 -AAAATTCTCGTGTTTT-
1 AAAAATT-TCGTGTTTTC
*
63963211 AAAAATTTTTCGTGTTTTT
1 AAAAA--TTTCGTGTTTTC
63963230 AAAAA
1 AAAAA
63963235 AAATATTTGT
Statistics
Matches: 206, Mismatches: 37, Indels: 61
0.68 0.12 0.20
Matches are distributed among these distances:
15 4 0.02
16 29 0.14
17 60 0.29
18 76 0.37
19 11 0.05
20 9 0.04
21 4 0.02
23 5 0.02
24 8 0.04
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (17 bp):
AAAAATTTCGTGTTTTC
Found at i:63963135 original size:36 final size:34
Alignment explanation
Indices: 63963095--63963220 Score: 92
Period size: 35 Copynumber: 3.6 Consensus size: 34
63963085 TTAAAAACTT
63963095 TCGTGTTTTCAAAAATTTTTGTCTTTTCAACAATTC
1 TCGTGTTTT-AAAAATTTTTGTCTTTTCAA-AATTC
* * ***
63963131 TCGTGTTTTATAAATTTTTG-CATTTCAAAAAAAA
1 TCGTGTTTTAAAAATTTTTGTCTTTTC-AAAATTC
* *** * *
63963165 TCGCGTTTTCAAAAAAAATTCTCGTGTGTCAAAATTC
1 TCGTGTTTT-AAAAATTTTTGTC-T-TTTCAAAATTC
63963202 TCGTGTTTTAAAAATTTTT
1 TCGTGTTTTAAAAATTTTT
63963221 CGTGTTTTTA
Statistics
Matches: 65, Mismatches: 20, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
34 15 0.23
35 18 0.28
36 17 0.26
37 12 0.18
38 3 0.05
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.45
Consensus pattern (34 bp):
TCGTGTTTTAAAAATTTTTGTCTTTTCAAAATTC
Found at i:63963214 original size:16 final size:16
Alignment explanation
Indices: 63963179--63963233 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
63963169 GTTTTCAAAA
* *
63963179 AAAATTCTCGTGTGTC
1 AAAATTCTCGTGTTTT
63963195 AAAATTCTCGTGTTTT
1 AAAATTCTCGTGTTTT
*
63963211 AAAAATTTTTCGTGTTTTT
1 -AAAA-TTCTCGTG-TTTT
63963230 AAAA
1 AAAA
63963234 AAAATATTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 14 0.42
17 4 0.12
18 11 0.33
19 4 0.12
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (16 bp):
AAAATTCTCGTGTTTT
Found at i:63963895 original size:20 final size:20
Alignment explanation
Indices: 63963870--63963907 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
63963860 ACTAGATCTG
*
63963870 TTAAAAAATTTTCAAAATTC
1 TTAAAAAAGTTTCAAAATTC
*
63963890 TTAAAACAGTTTCAAAAT
1 TTAAAAAAGTTTCAAAAT
63963908 GCAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.37
Consensus pattern (20 bp):
TTAAAAAAGTTTCAAAATTC
Found at i:63964312 original size:16 final size:16
Alignment explanation
Indices: 63964293--63964323 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63964283 AATAATATTT
63964293 TATTAAAATAAAAAAA
1 TATTAAAATAAAAAAA
*
63964309 TATTAATATAAAAAA
1 TATTAAAATAAAAAA
63964324 TTCATTGACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TATTAAAATAAAAAAA
Found at i:63969611 original size:26 final size:26
Alignment explanation
Indices: 63969575--63969624 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
63969565 TATTATTTTT
*
63969575 TATATAAAATA-AATTTAAAAATATAG
1 TATATAAAATACAA-TAAAAAATATAG
*
63969601 TATATCAAATACAATAAAAAATAT
1 TATATAAAATACAATAAAAAATAT
63969625 TAAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (26 bp):
TATATAAAATACAATAAAAAATATAG
Found at i:63972912 original size:15 final size:16
Alignment explanation
Indices: 63972877--63972915 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
63972867 TTATTTACTA
63972877 TTAATAATTAATAAATGT
1 TTAAT-ATTAATAAA-GT
63972895 TTAATATTAATAAA-T
1 TTAATATTAATAAAGT
63972910 TTAATA
1 TTAATA
63972916 ATTCTCAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.33
17 9 0.43
18 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
TTAATATTAATAAAGT
Found at i:63974041 original size:32 final size:32
Alignment explanation
Indices: 63974000--63974065 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
63973990 ATTATAATCC
63974000 AATTAAGATAGGTGAAATGATAGTAAAATAGT
1 AATTAAGATAGGTGAAATGATAGTAAAATAGT
*
63974032 AATTAAGATAGGTGAAATTATAGTAAAATAGT
1 AATTAAGATAGGTGAAATGATAGTAAAATAGT
63974064 AA
1 AA
63974066 ATAAAAATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.29
Consensus pattern (32 bp):
AATTAAGATAGGTGAAATGATAGTAAAATAGT
Found at i:63974080 original size:21 final size:20
Alignment explanation
Indices: 63974051--63974091 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
63974041 AGGTGAAATT
* *
63974051 ATAGTAAAATAGTAAATAAAA
1 ATAGAAAAAAAGTAAA-AAAA
63974072 ATAGAAAAAAAGTAAAAAAA
1 ATAGAAAAAAAGTAAAAAAA
63974092 TGCAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (20 bp):
ATAGAAAAAAAGTAAAAAAA
Found at i:63975576 original size:17 final size:16
Alignment explanation
Indices: 63975551--63975595 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
63975541 TAAAATTAAG
63975551 AAAATAAAAAATAATA
1 AAAATAAAAAATAATA
* *
63975567 AAACATAAAAGATTATA
1 AAA-ATAAAAAATAATA
63975584 AAAACTAAAAAA
1 AAAA-TAAAAAA
63975596 ATTATAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAATAAAAAATAATA
Found at i:63986678 original size:30 final size:30
Alignment explanation
Indices: 63986644--63986711 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
63986634 AATTTAATTG
* **
63986644 TTAACTTCTTTAAAAGATT-GGTGATCAAAT
1 TTAACTTCTTTAAAAAATTAAATG-TCAAAT
*
63986674 TTAACTCTTTTTAAAAAATTAAATGTCAAAT
1 TTAACT-TCTTTAAAAAATTAAATGTCAAAT
63986705 TTAACTT
1 TTAACTT
63986712 TAAAAAAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 7 0.22
31 23 0.72
32 2 0.06
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (30 bp):
TTAACTTCTTTAAAAAATTAAATGTCAAAT
Found at i:63992077 original size:30 final size:30
Alignment explanation
Indices: 63992018--63992077 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
63992008 TGTATTTTGA
* * *
63992018 CTTTCAAAAATAATAAATTTTTAATTTAAT
1 CTTTCAAAAATAATAAATATATAAATTAAT
* *
63992048 CTTTTAAAAATTATAAATATATAAATTAAT
1 CTTTCAAAAATAATAAATATATAAATTAAT
63992078 AAAATAATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (30 bp):
CTTTCAAAAATAATAAATATATAAATTAAT
Found at i:63993293 original size:11 final size:11
Alignment explanation
Indices: 63993277--63993327 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
63993267 TTTTCTCATT
*
63993277 TTTTGTTACTG
1 TTTTGTTACTA
63993288 TTTTGTTACTA
1 TTTTGTTACTA
** *
63993299 TTTTACTATTA
1 TTTTGTTACTA
*
63993310 TGTTGTTACTA
1 TTTTGTTACTA
63993321 -TTTGTTA
1 TTTTGTTA
63993328 TTAGTGTTTA
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
10 6 0.19
11 25 0.81
ACGTcount: A:0.18, C:0.08, G:0.12, T:0.63
Consensus pattern (11 bp):
TTTTGTTACTA
Found at i:63995498 original size:16 final size:15
Alignment explanation
Indices: 63995468--63995503 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
63995458 TTATATTGTC
63995468 TATATTTTTTATAGA
1 TATATTTTTTATAGA
*
63995483 TATATTTTTATCTAGA
1 TATATTTTT-TATAGA
63995499 TATAT
1 TATAT
63995504 AAGATCTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (15 bp):
TATATTTTTTATAGA
Found at i:63998868 original size:22 final size:22
Alignment explanation
Indices: 63998843--63998886 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
63998833 AAAAAAAGTT
63998843 TAAAAAACAT-AAAATAAAAAAA
1 TAAAAAAC-TCAAAATAAAAAAA
**
63998865 TAAATTACTCAAAATAAAAAAA
1 TAAAAAACTCAAAATAAAAAAA
63998887 AATATAAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (22 bp):
TAAAAAACTCAAAATAAAAAAA
Found at i:64002497 original size:21 final size:21
Alignment explanation
Indices: 64002473--64002525 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
64002463 CATGGTTGTT
* *
64002473 TCTATTCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAATA
*
64002494 TCTAATCTCACGGCTACAATA
1 TCTAATCTCACCGCTACAATA
*
64002515 ACTAATCTCAC
1 TCTAATCTCAC
64002526 TGCCACCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAATA
Found at i:64004790 original size:22 final size:22
Alignment explanation
Indices: 64004762--64004807 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
64004752 AACCGAATTA
64004762 AACTTAGTCTAATCTTATTGAT
1 AACTTAGTCTAATCTTATTGAT
64004784 AACTTAGTCTAATCTTATTGAT
1 AACTTAGTCTAATCTTATTGAT
64004806 AA
1 AA
64004808 TAAGGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (22 bp):
AACTTAGTCTAATCTTATTGAT
Found at i:64005646 original size:3 final size:3
Alignment explanation
Indices: 64005638--64005688 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
64005628 AGCCCTTTTA
* * *
64005638 TTC TTC TTCC TT- TTC TTT TTC CTC ATC TTC TTC TTC TTC TTC TTC
1 TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
64005683 TTC TTC
1 TTC TTC
64005689 ACTTCATCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:64008820 original size:11 final size:11
Alignment explanation
Indices: 64008804--64008829 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
64008794 GAGATCTGAT
64008804 GAGATGAGTTG
1 GAGATGAGTTG
64008815 GAGATGAGTTG
1 GAGATGAGTTG
64008826 GAGA
1 GAGA
64008830 CGATTTTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.46, T:0.23
Consensus pattern (11 bp):
GAGATGAGTTG
Found at i:64015259 original size:75 final size:74
Alignment explanation
Indices: 64015136--64015279 Score: 243
Period size: 75 Copynumber: 1.9 Consensus size: 74
64015126 TCAAGCTTAG
* * * *
64015136 AAAAGGGATCATGTCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGATATCGTTTAAAAAC
1 AAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTT-AAAAC
64015201 TTGAGGAAGA
65 TTGAGGAAGA
64015211 AAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAACT
1 AAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAACT
64015276 TGAG
66 TGAG
64015280 TTTGAAAAGA
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
74 10 0.15
75 55 0.85
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (74 bp):
AAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAACT
TGAGGAAGA
Found at i:64017474 original size:100 final size:100
Alignment explanation
Indices: 64017330--64017909 Score: 633
Period size: 100 Copynumber: 5.8 Consensus size: 100
64017320 GTAAGATTCA
* * *** * * *
64017330 CTGTTGTAGCTTCAATCTGTTCCACTGCAACGTTAGGGAGGTAAGATTCGCTGTTGTAGCTTCAA
1 CTGTTGTAGCTTCAATCTGTTCCACTACACCACCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAA
64017395 TCTTTTTAACTGCAATG-CTGGGGAAGCAAGATTTG
66 TCTTTTTAACTGCAATGTC-GGGGAAGCAAGATTTG
** *** *
64017430 CTGTTGTAGCTTCAATCTGTTCCACTGTATTTCCAGGAAAGTAAGATCCGCTGTTGTAGTTTCAA
1 CTGTTGTAGCTTCAATCTGTTCCACTACACCACCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAA
*
64017495 TCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCG
66 TCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTG
* * * * * * *
64017530 TTGTTATGGCTTCAATTTGTTCCACTACACCACCAGGAAAGTAATATCCGTTGTTGTAGGTTCAA
1 CTGTTGTAGCTTCAATCTGTTCCACTACACCACCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAA
* * * **
64017595 TCTTTTAAATTGCAATGTCGGGGAAGTAAGATTCA
66 TCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTG
* * * * *
64017630 CCGTTGTTGCTTCAATCTGTTCCACTACACCACTAGGAAAGTAAGATCCACTATTGTAGCTTCAA
1 CTGTTGTAGCTTCAATCTGTTCCACTACACCACCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAA
64017695 TC-TTTTAACTTGCAATGTCGGGGAAGCAAGATTTG
66 TCTTTTTAAC-TGCAATGTCGGGGAAGCAAGATTTG
* ** * * * * * *
64017730 CCGTTACAGCTTCAATCTGTTCCACTACACCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAA
1 CTGTTGTAGCTTCAATCTGTTCCACTACACCACCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAA
* *
64017795 TCTTTTTAATTGCAATGTCGGGGAAGCAAGATTTA
66 TCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTG
* * * * * * * * * *
64017830 CTATTGTAGCTTCAATATATTCTACTGCACTACCAGGAAAGTAAGATTCACCGTTGTGGCTTCAA
1 CTGTTGTAGCTTCAATCTGTTCCACTACACCACCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAA
* *
64017895 TATTTTTAATTGCAA
66 TCTTTTTAACTGCAA
64017910 CATCAGGGGT
Statistics
Matches: 406, Mismatches: 71, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
99 5 0.01
100 394 0.97
101 7 0.02
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (100 bp):
CTGTTGTAGCTTCAATCTGTTCCACTACACCACCAGGAAAGTAAGATCCGCTGTTGTAGCTTCAA
TCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTG
Found at i:64017819 original size:50 final size:50
Alignment explanation
Indices: 64017315--64017909 Score: 324
Period size: 50 Copynumber: 11.9 Consensus size: 50
64017305 AGGTTCGTCA
* * ** * *
64017315 GGGG-AGTAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTGCAACGTT
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTC
* *
64017364 AGGGAGGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATG-C
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTC
* * * ** * *
64017413 TGGGGAAGCAAGATTTGCTGTTGTAGCTTCAATCTGTTCCACTG-TATTTCC
1 -GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGT-C
* * * *
64017464 AGGAAAGTAAGATCCGCTGTTGTAGTTTCAATCTTTTTAACTGCAATGTC
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTC
* * * * ** * ****
64017514 GGGGAAGCAAGATTCGTTGTTATGGCTTCAAT-TTGTTCCACTACACCACC
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTT-TTTAACTGCAATGTC
* * * * * * * *
64017564 AGGAAAGTAATATCCGTTGTTGTAGGTTCAATCTTTTAAATTGCAATGTC
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTC
* * * * ** * *
64017614 GGGGAAGTAAGATTCACCGTTGTTGCTTCAATCTGTTCCACTACACCA-CT-
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCA--ATGTC
* * * * *
64017664 AGGAAAGTAAGATCCACTATTGTAGCTTCAATC-TTTTAACTTGCAATGTC
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAAC-TGCAATGTC
* * * ** * ** * ** *
64017714 GGGGAAGCAAGATTTGCCGTTACAGCTTCAATCTGTTCCACTACACCGCC
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTC
* * * *
64017764 TGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTC
* ** * * * * **
64017814 GGGGAAGCAAGATTTACTATTGTAGCTTCAATATATTCT-ACTGCACTACC
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCT-TTTTAACTGCAATGTC
* * * * * * *
64017864 AGGAAAGTAAGATTCACCGTTGTGGCTTCAATATTTTTAATTGCAA
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAA
64017910 CATCAGGGGT
Statistics
Matches: 392, Mismatches: 139, Indels: 29
0.70 0.25 0.05
Matches are distributed among these distances:
48 1 0.00
49 15 0.04
50 361 0.92
51 14 0.04
52 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (50 bp):
GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTC
Found at i:64018224 original size:24 final size:24
Alignment explanation
Indices: 64018188--64018245 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
64018178 GCTTGCCCCT
* *
64018188 ACTGTAATCTTCAATGTCCGATCC
1 ACTGTAATCTTCAAAGTCCAATCC
* *
64018212 ACTGTAATTTTCAAAGTTCAATCC
1 ACTGTAATCTTCAAAGTCCAATCC
*
64018236 ATTGTAATCT
1 ACTGTAATCT
64018246 CTAGGGATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.38
Consensus pattern (24 bp):
ACTGTAATCTTCAAAGTCCAATCC
Found at i:64026286 original size:30 final size:29
Alignment explanation
Indices: 64026250--64026352 Score: 95
Period size: 30 Copynumber: 3.4 Consensus size: 29
64026240 TGGTACGCTG
64026250 GGAAGTGGTGGAAGAATGGGGGTAGGGTTA
1 GGAAGTGGTGGAAGAATGGGGGTA-GGTTA
* * *
64026280 GGAAGTGGTGG-A-ATTGGTACTGGTA-CTCTA
1 GGAAGTGGTGGAAGAATGG---GGGTAGGT-TA
*
64026310 GGAAGTGGTGGAAGACTGGGGGTAAGGTTA
1 GGAAGTGGTGGAAGAATGGGGGT-AGGTTA
64026340 GGAAGTGGTGGAA
1 GGAAGTGGTGGAA
64026353 TTGGTAATCT
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
28 4 0.07
29 5 0.08
30 40 0.68
31 6 0.10
32 4 0.07
ACGTcount: A:0.26, C:0.04, G:0.48, T:0.22
Consensus pattern (29 bp):
GGAAGTGGTGGAAGAATGGGGGTAGGTTA
Found at i:64026317 original size:60 final size:60
Alignment explanation
Indices: 64026240--64026358 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
64026230 GTGGTGGAAT
* *
64026240 TGGTACGCTGGGAAGTGGTGGAAGAATGGGGGTAGGGTTAGGAAGTGGTGGAATTGGTAC
1 TGGTACGCTAGGAAGTGGTGGAAGAATGGGGGTAAGGTTAGGAAGTGGTGGAATTGGTAC
* *
64026300 TGGTACTCTAGGAAGTGGTGGAAGACTGGGGGTAAGGTTAGGAAGTGGTGGAATTGGTA
1 TGGTACGCTAGGAAGTGGTGGAAGAATGGGGGTAAGGTTAGGAAGTGGTGGAATTGGTA
64026359 ATCTGGGAAG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.24, C:0.05, G:0.46, T:0.24
Consensus pattern (60 bp):
TGGTACGCTAGGAAGTGGTGGAAGAATGGGGGTAAGGTTAGGAAGTGGTGGAATTGGTAC
Found at i:64026368 original size:24 final size:24
Alignment explanation
Indices: 64026339--64026400 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
64026329 GGGTAAGGTT
* *
64026339 AGGAAGTGGTGGAATTGGTAATCT
1 AGGAAGTGGTGGAATTGGGAATCC
*
64026363 GGGAAGTGGTGGAATTGGGAATCC
1 AGGAAGTGGTGGAATTGGGAATCC
64026387 AGGAAGTGGTGGAA
1 AGGAAGTGGTGGAA
64026401 GAATGGGGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.29, C:0.05, G:0.44, T:0.23
Consensus pattern (24 bp):
AGGAAGTGGTGGAATTGGGAATCC
Found at i:64026422 original size:18 final size:18
Alignment explanation
Indices: 64026401--64026440 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
64026391 AGTGGTGGAA
64026401 GAATGGGGGGAAGTGGTG
1 GAATGGGGGGAAGTGGTG
* * *
64026419 GAATTGGTGGAATTGGTG
1 GAATGGGGGGAAGTGGTG
64026437 GAAT
1 GAAT
64026441 TGGTGGAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.50, T:0.25
Consensus pattern (18 bp):
GAATGGGGGGAAGTGGTG
Found at i:64026426 original size:9 final size:9
Alignment explanation
Indices: 64026409--64026449 Score: 73
Period size: 9 Copynumber: 4.6 Consensus size: 9
64026399 AAGAATGGGG
*
64026409 GGAAGTGGT
1 GGAATTGGT
64026418 GGAATTGGT
1 GGAATTGGT
64026427 GGAATTGGT
1 GGAATTGGT
64026436 GGAATTGGT
1 GGAATTGGT
64026445 GGAAT
1 GGAAT
64026450 AGTTACTTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.24, C:0.00, G:0.46, T:0.29
Consensus pattern (9 bp):
GGAATTGGT
Found at i:64029715 original size:3 final size:3
Alignment explanation
Indices: 64029707--64029741 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
64029697 AATAAAGGAA
64029707 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
64029742 CATTAAAATA
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:64031605 original size:195 final size:195
Alignment explanation
Indices: 64031273--64031655 Score: 545
Period size: 195 Copynumber: 2.0 Consensus size: 195
64031263 TTCTTTTCAT
* * *
64031273 TGTAACACCCTAAACTCGGTCGAATAGGTTCGACCTAAATTTGGAGAGCTACATTAGCCACCGAA
1 TGTAACACCCCAAACCCGGTCGAATAGGTTCGACCCAAATTTGGAGAGCTACATTAGCCACCGAA
* * * *
64031338 GTGACTTTCCATTAACTCCCAATCTAACCTCTAACACACCACTTACTTGCAACGTATATTATGAT
66 GTGACTCTCCATCAACTCCCAACCTAACCTCCAACACACCACTTACTTGCAACGTATATTATGAT
* ** * * *
64031403 AAGTTATATCATAACAAG-GGTATAATATAATACATATAATGTAAATCATGCAAGCTTAAAACCA
131 AAGTTATAGCATAAC-AGTGAAATAATATAACACATAGAATGTAAATCATGCAACCTTAAAACCA
64031467 A
195 A
* * *
64031468 TGTAACACCCCAAACCCGG-CTGAGTAGGTTCGACCCAAATTTGGCGAGTTACATTAGCCACCGA
1 TGTAACACCCCAAACCCGGTC-GAATAGGTTCGACCCAAATTTGGAGAGCTACATTAGCCACCGA
* * *
64031532 AGTGACTCTCCATCAATTCCCAACCTAACCTCCAACACACCACTTACTTGCAATGTATGTTATGA
65 AGTGACTCTCCATCAACTCCCAACCTAACCTCCAACACACCACTTACTTGCAACGTATATTATGA
* *
64031597 TAAGTTATAGCATAACAGTGAAATAATATCACATATAGAATGTAAATCATGCAACCTTA
130 TAAGTTATAGCATAACAGTGAAATAATATAACACATAGAATGTAAATCATGCAACCTTA
64031656 TCAAACAAAA
Statistics
Matches: 165, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
194 3 0.02
195 162 0.98
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.27
Consensus pattern (195 bp):
TGTAACACCCCAAACCCGGTCGAATAGGTTCGACCCAAATTTGGAGAGCTACATTAGCCACCGAA
GTGACTCTCCATCAACTCCCAACCTAACCTCCAACACACCACTTACTTGCAACGTATATTATGAT
AAGTTATAGCATAACAGTGAAATAATATAACACATAGAATGTAAATCATGCAACCTTAAAACCAA
Found at i:64032893 original size:13 final size:12
Alignment explanation
Indices: 64032853--64032893 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
64032843 CATGCGTAAC
64032853 ACATATCTTTAAA
1 ACATATC-TTAAA
*
64032866 ACATAGCTTAAA
1 ACATATCTTAAA
64032878 ACATATCTTGAAA
1 ACATATCTT-AAA
64032891 ACA
1 ACA
64032894 AATTATCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 13 0.52
13 12 0.48
ACGTcount: A:0.49, C:0.17, G:0.05, T:0.29
Consensus pattern (12 bp):
ACATATCTTAAA
Found at i:64036528 original size:9 final size:9
Alignment explanation
Indices: 64036451--64036568 Score: 60
Period size: 9 Copynumber: 12.4 Consensus size: 9
64036441 TAAAACCATT
*
64036451 AAAACTATA
1 AAAATTATA
*
64036460 GAAAATCATA
1 -AAAATTATA
64036470 AAATATTA-A
1 AAA-ATTATA
*
64036479 AAAATTACA
1 AAAATTATA
*
64036488 AAAGTTATA
1 AAAATTATA
*
64036497 AAATTATATA
1 AAAAT-TATA
*
64036507 AAAATGA-A
1 AAAATTATA
64036515 CAAAATTATA
1 -AAAATTATA
*
64036525 AAAAGTAGTA
1 AAAATTA-TA
* *
64036535 TAAATGATACA
1 AAAAT--TATA
64036546 AAAATTATA
1 AAAATTATA
*
64036555 TAAATTATTA
1 AAAATTA-TA
64036565 AAAA
1 AAAA
64036569 ATTGCAAAAA
Statistics
Matches: 82, Mismatches: 17, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
8 5 0.06
9 41 0.50
10 29 0.35
11 5 0.06
12 2 0.02
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (9 bp):
AAAATTATA
Found at i:64040000 original size:28 final size:27
Alignment explanation
Indices: 64039969--64040053 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 27
64039959 TTATTTTTTA
64039969 TTATAAATTTTATGCTTTTTATAATATT
1 TTATAAATTTTATGCTTTTTA-AATATT
** *
64039997 TTATATGTTTTA-GTATTTTTACAATATT
1 TTATAAATTTTATG-CTTTTTA-AATATT
*
64040025 TTAATAACTTTCTAT-CTTTTTAAATATT
1 TT-ATAAATTT-TATGCTTTTTAAATATT
64040053 T
1 T
64040054 ATTACCATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
27 1 0.02
28 31 0.67
29 12 0.26
30 2 0.04
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (27 bp):
TTATAAATTTTATGCTTTTTAAATATT
Found at i:64040117 original size:10 final size:10
Alignment explanation
Indices: 64040104--64040149 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
64040094 CCAATTTTCT
64040104 ATATTTTATA
1 ATATTTTATA
64040114 ATATTTTTAATA
1 ATA-TTTT-ATA
64040126 ATATTTTAT-
1 ATATTTTATA
64040135 ATA-TTTA-A
1 ATATTTTATA
64040143 ATATTTT
1 ATATTTT
64040150 TTCATAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 7 0.22
9 6 0.19
10 5 0.16
11 8 0.25
12 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATATTTTATA
Found at i:64040121 original size:29 final size:29
Alignment explanation
Indices: 64040088--64040152 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
64040078 AATAATTTAT
64040088 TTTTTTCCAAT-TTTCTATAT-TTTATAATA
1 TTTTTTCCAATATTT-TATATATTTA-AATA
***
64040117 TTTTTAATAATATTTTATATATTTAAATA
1 TTTTTTCCAATATTTTATATATTTAAATA
64040146 TTTTTTC
1 TTTTTTC
64040153 ATAATTTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTTTTCCAATATTTTATATATTTAAATA
Found at i:64040170 original size:29 final size:28
Alignment explanation
Indices: 64040107--64040199 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 28
64040097 ATTTTCTATA
* * *
64040107 TTTTATAATATTTTTAATAATATTTTATAT
1 TTTTA-AATATTTTTCATAAT-TTTAATTT
*
64040137 ATTTAAATATTTTTTCATAATTTTAATTT
1 TTTTAAATA-TTTTTCATAATTTTAATTT
*
64040166 TTTT-AA-ATTTTTCATAATTTATATGTTT
1 TTTTAAATATTTTTCATAATTT-TA-ATTT
64040194 TTTTAA
1 TTTTAA
64040200 TTTTTATTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
26 13 0.25
27 3 0.06
28 9 0.17
29 14 0.26
30 14 0.26
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (28 bp):
TTTTAAATATTTTTCATAATTTTAATTT
Found at i:64040182 original size:26 final size:27
Alignment explanation
Indices: 64040147--64040204 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
64040137 ATTTAAATAT
64040147 TTTTTCATAATTT-TAAT-TTTTTTAAA
1 TTTTTCATAATTTAT-ATGTTTTTTAAA
*
64040173 TTTTTCATAATTTATATGTTTTTTTAA
1 TTTTTCATAATTTATATGTTTTTTAAA
64040200 TTTTT
1 TTTTT
64040205 ATTTTAGTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTTTCATAATTTATATGTTTTTTAAA
Found at i:64040254 original size:19 final size:19
Alignment explanation
Indices: 64040116--64040255 Score: 63
Period size: 19 Copynumber: 7.2 Consensus size: 19
64040106 ATTTTATAAT
64040116 ATTTTTAATAATATTTTAT-
1 ATTTTTAATAAT-TTTTATA
* *
64040135 ATATTTAAATATTTTTTCATA
1 AT-TTTTAATAATTTTT-ATA
*
64040156 A-TTTTAAT-TTTTTTA-A
1 ATTTTTAATAATTTTTATA
* * *
64040172 ATTTTTCATAATTTATATGT
1 ATTTTTAATAATTTTTAT-A
* **
64040192 TTTTTTAATTTTTATTTTAGTA
1 ATTTTTAA-TAAT-TTTTA-TA
* ** * *
64040214 CTTTTTAATGCTTTTCACA
1 ATTTTTAATAATTTTTATA
64040233 ATTTTTAATAATTTTTATA
1 ATTTTTAATAATTTTTATA
64040252 ATTT
1 ATTT
64040256 ATATTTTTTT
Statistics
Matches: 88, Mismatches: 23, Indels: 20
0.67 0.18 0.15
Matches are distributed among these distances:
16 2 0.02
17 7 0.08
18 11 0.12
19 31 0.35
20 20 0.23
21 5 0.06
22 11 0.12
23 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTTTTAATAATTTTTATA
Found at i:64040264 original size:17 final size:18
Alignment explanation
Indices: 64040243--64040295 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
64040233 ATTTTTAATA
64040243 ATTTTTATAATTTATAT-
1 ATTTTTATAATTTATATC
* * **
64040260 TTTTTTTTCGTTTATAATC
1 ATTTTTATAATTTAT-ATC
64040279 ATTTTTATAATTTATAT
1 ATTTTTATAATTTATAT
64040296 ATATATCTGC
Statistics
Matches: 26, Mismatches: 8, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
17 11 0.42
18 4 0.15
19 11 0.42
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTTTTATAATTTATATC
Found at i:64040292 original size:19 final size:18
Alignment explanation
Indices: 64040232--64040299 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
64040222 TGCTTTTCAC
*
64040232 AATTTTTAATAATTTTTAT
1 AATTTATAAT-ATTTTTAT
* *
64040251 AATTTAT-ATTTTTTTTT
1 AATTTATAATATTTTTAT
**
64040268 CGTTTATAATCATTTTTAT
1 AATTTATAAT-ATTTTTAT
64040287 AATTTATATATAT
1 AATTTATA-ATAT
64040300 ATCTGCAATT
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
17 11 0.30
18 4 0.11
19 20 0.54
20 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (18 bp):
AATTTATAATATTTTTAT
Found at i:64040313 original size:27 final size:27
Alignment explanation
Indices: 64040279--64040353 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
64040269 GTTTATAATC
64040279 ATTTTTATAATTTATATATATATCTGCA
1 ATTTTTATAATTTATATA-ATATCTGCA
* *
64040307 A-TTTTATATATTT-TATAATTTTTGCA
1 ATTTTTATA-ATTTATATAATATCTGCA
* *
64040333 ATTTTTATATTTTATAAAATA
1 ATTTTTATAATTTATATAATA
64040354 ATTTTGTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 11 0.28
27 23 0.59
28 5 0.13
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (27 bp):
ATTTTTATAATTTATATAATATCTGCA
Found at i:64040323 original size:25 final size:24
Alignment explanation
Indices: 64040295--64040348 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
64040285 ATAATTTATA
64040295 TATATATCTGCAATTTTATATATTT
1 TATATATCTGCAATTTT-TATATTT
* *
64040320 TATAATTTTTGCAATTTTTATATTT
1 TAT-ATATCTGCAATTTTTATATTT
64040345 TATA
1 TATA
64040349 AAATAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 1 0.04
25 13 0.50
26 12 0.46
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (24 bp):
TATATATCTGCAATTTTTATATTT
Found at i:64042178 original size:27 final size:27
Alignment explanation
Indices: 64042087--64042206 Score: 127
Period size: 27 Copynumber: 4.4 Consensus size: 27
64042077 TTAAAGGAAG
64042087 TGGTGAC-ATCGGAGGTGGCAATGGTAC
1 TGGTGACAAT-GGAGGTGGCAATGGTAC
* * * *
64042114 CGGT-AAATATGCAGATGGCAATGGTAC
1 TGGTGACA-ATGGAGGTGGCAATGGTAC
* * *
64042141 TGGTAAAAATGGAGGTGGCAATGGTAT
1 TGGTGACAATGGAGGTGGCAATGGTAC
* *
64042168 TGGCGACAATGGAGGTAGCAATGGTAC
1 TGGTGACAATGGAGGTGGCAATGGTAC
64042195 TGGTGACAATGG
1 TGGTGACAATGG
64042207 TATTGGCGAC
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.01
27 70 0.92
28 5 0.07
ACGTcount: A:0.29, C:0.12, G:0.37, T:0.23
Consensus pattern (27 bp):
TGGTGACAATGGAGGTGGCAATGGTAC
Found at i:64042179 original size:42 final size:41
Alignment explanation
Indices: 64042142--64042225 Score: 118
Period size: 42 Copynumber: 2.1 Consensus size: 41
64042132 CAATGGTACT
*
64042142 GGTAAAAATGG-A-GGTGGCAATGGTATTGGCGACAATGGA
1 GGTAAAAATGGTACGGTGACAATGGTATTGGCGACAATGGA
**
64042181 GGTAGCAATGGTACTGGTGACAATGGTATTGGCGACAATGGA
1 GGTAAAAATGGTAC-GGTGACAATGGTATTGGCGACAATGGA
64042223 GGT
1 GGT
64042226 GGCAATGGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
39 9 0.23
40 1 0.03
42 29 0.74
ACGTcount: A:0.30, C:0.10, G:0.38, T:0.23
Consensus pattern (41 bp):
GGTAAAAATGGTACGGTGACAATGGTATTGGCGACAATGGA
Found at i:64042231 original size:42 final size:42
Alignment explanation
Indices: 64042154--64042241 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
64042144 TAAAAATGGA
*
64042154 GGTGGCAATGGTATTGGCGACAATGGAGGTAGCAATGGTACT
1 GGTGACAATGGTATTGGCGACAATGGAGGTAGCAATGGTACT
* *
64042196 GGTGACAATGGTATTGGCGACAATGGAGGTGGCAATGGTATT
1 GGTGACAATGGTATTGGCGACAATGGAGGTAGCAATGGTACT
64042238 GGTG
1 GGTG
64042242 GAAATGGAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.25, C:0.10, G:0.40, T:0.25
Consensus pattern (42 bp):
GGTGACAATGGTATTGGCGACAATGGAGGTAGCAATGGTACT
Found at i:64042241 original size:15 final size:15
Alignment explanation
Indices: 64042154--64042248 Score: 76
Period size: 15 Copynumber: 6.7 Consensus size: 15
64042144 TAAAAATGGA
64042154 GGTGGCAATGGTATT
1 GGTGGCAATGGTATT
* *
64042169 GGCGACAATGG-A--
1 GGTGGCAATGGTATT
* *
64042181 GGTAGCAATGGTACT
1 GGTGGCAATGGTATT
*
64042196 GGTGACAATGGTATT
1 GGTGGCAATGGTATT
* *
64042211 GGCGACAATGG-A--
1 GGTGGCAATGGTATT
64042223 GGTGGCAATGGTATT
1 GGTGGCAATGGTATT
*
64042238 GGTGGAAATGG
1 GGTGGCAATGG
64042249 AGGTGGCACT
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
12 17 0.27
13 2 0.03
14 2 0.03
15 41 0.66
ACGTcount: A:0.26, C:0.09, G:0.40, T:0.24
Consensus pattern (15 bp):
GGTGGCAATGGTATT
Found at i:64042254 original size:27 final size:27
Alignment explanation
Indices: 64042196--64042256 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
64042186 CAATGGTACT
*
64042196 GGTGACAATGGTATTGGCGACAATGGA
1 GGTGGCAATGGTATTGGCGACAATGGA
*
64042223 GGTGGCAATGGTATTGGTGGA-AATGGA
1 GGTGGCAATGGTATTGG-CGACAATGGA
64042250 GGTGGCA
1 GGTGGCA
64042257 CTTGCTGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 29 0.94
28 2 0.06
ACGTcount: A:0.26, C:0.08, G:0.43, T:0.23
Consensus pattern (27 bp):
GGTGGCAATGGTATTGGCGACAATGGA
Found at i:64045296 original size:15 final size:16
Alignment explanation
Indices: 64045273--64045321 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
64045263 TTTGATACTT
*
64045273 ATATCTTTGACTTTCC
1 ATATATTTGACTTTCC
**
64045289 AT-TATTTGA-TAACC
1 ATATATTTGACTTTCC
64045303 ATATATTTGACTTTCC
1 ATATATTTGACTTTCC
64045319 ATA
1 ATA
64045322 AATACGGATG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
14 5 0.19
15 13 0.50
16 8 0.31
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (16 bp):
ATATATTTGACTTTCC
Found at i:64045320 original size:30 final size:30
Alignment explanation
Indices: 64045236--64045320 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 30
64045226 TCAATATCTC
* * *
64045236 GATACCCATATCTTTGATTTTCCAATATTT
1 GATAACCATATCTTTGACTTTCCATTATTT
*
64045266 GAT-ACTTATATCTTTGACTTTCCATTATTT
1 GATAAC-CATATCTTTGACTTTCCATTATTT
*
64045296 GATAACCATATATTTGACTTTCCAT
1 GATAACCATATCTTTGACTTTCCAT
64045321 AAATACGGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.02
30 44 0.94
31 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.07, T:0.47
Consensus pattern (30 bp):
GATAACCATATCTTTGACTTTCCATTATTT
Found at i:64049938 original size:29 final size:30
Alignment explanation
Indices: 64049895--64049986 Score: 123
Period size: 30 Copynumber: 3.1 Consensus size: 30
64049885 TTTCTTATGC
*
64049895 CAATATCTCGATACCCATATATTTGA-TTTT
1 CAATAT-TTGATACCCATATATTTGACTTTT
* *
64049925 CAATATTTGATACCCATATCTTTGACTTTC
1 CAATATTTGATACCCATATATTTGACTTTT
* *
64049955 CATTATTTGATAACCATATATTTGACTTTT
1 CAATATTTGATACCCATATATTTGACTTTT
64049985 CA
1 CA
64049987 TAAATACGGA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 17 0.31
30 37 0.69
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.45
Consensus pattern (30 bp):
CAATATTTGATACCCATATATTTGACTTTT
Found at i:64049963 original size:15 final size:16
Alignment explanation
Indices: 64049909--64049988 Score: 62
Period size: 15 Copynumber: 5.3 Consensus size: 16
64049899 ATCTCGATAC
64049909 CCATATATTTGA-TTT
1 CCATATATTTGACTTT
* **
64049924 TCA-ATATTTGA-TAC
1 CCATATATTTGACTTT
*
64049938 CCATATCTTTGACTTT
1 CCATATATTTGACTTT
**
64049954 CCAT-TATTTGA-TAA
1 CCATATATTTGACTTT
64049968 CCATATATTTGACTTT
1 CCATATATTTGACTTT
*
64049984 TCATA
1 CCATA
64049989 AATACGGATG
Statistics
Matches: 48, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
14 16 0.33
15 22 0.46
16 10 0.21
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.47
Consensus pattern (16 bp):
CCATATATTTGACTTT
Found at i:64050450 original size:30 final size:31
Alignment explanation
Indices: 64050415--64050472 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
64050405 TATTAAACTA
*
64050415 TATAAAAG-TGCACAAAATTATA-AAATTTAG
1 TATAAAAGATACA-AAAATTATATAAATTTAG
*
64050445 TATAAATGATACAAAAATTATATAAATT
1 TATAAAAGATACAAAAATTATATAAATT
64050473 ATTAAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 16 0.67
31 8 0.33
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (31 bp):
TATAAAAGATACAAAAATTATATAAATTTAG
Found at i:64052262 original size:26 final size:28
Alignment explanation
Indices: 64052194--64052274 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 28
64052184 AGGAGGTTAC
64052194 AAATTAAGATAATTA-AGAATTTAAATT
1 AAATTAAGATAATTAGAGAATTTAAATT
* *
64052221 AAATTAGGATAATTAGAG-TTTTAAATT
1 AAATTAAGATAATTAGAGAATTTAAATT
*
64052248 AGA-TAAGATAATTAG-GAATTT-AATT
1 AAATTAAGATAATTAGAGAATTTAAATT
64052273 AA
1 AA
64052275 TAGGTTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
25 6 0.13
26 14 0.30
27 24 0.52
28 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (28 bp):
AAATTAAGATAATTAGAGAATTTAAATT
Found at i:64052307 original size:52 final size:53
Alignment explanation
Indices: 64052198--64052349 Score: 168
Period size: 52 Copynumber: 2.9 Consensus size: 53
64052188 GGTTACAAAT
* * *
64052198 TAAGATAATTAAGAATTTAAATTAAATTAGGATAATTAGAGTTTTAAATTAGA
1 TAAGATAATTAAGAATTTAAATTAAATTAGGATAAATAAAATTTTAAATTAGA
* * *
64052251 TAAGATAATTAGGAATTT-AATT-AA-TAGGTTAAATAAAATTTTAGATTTTAGA
1 TAAGATAATTAAGAATTTAAATTAAATTAGGATAAATAAAATTTTA-A-ATTAGA
* * *
64052303 TAAGATAATTAATAGTTTAAATTAAATT-GGTATAATTAAAATTTTAA
1 TAAGATAATTAAGAATTTAAATTAAATTAGG-ATAAATAAAATTTTAA
64052350 TATATTTAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
50 15 0.18
51 3 0.04
52 24 0.29
53 21 0.26
54 5 0.06
55 14 0.17
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (53 bp):
TAAGATAATTAAGAATTTAAATTAAATTAGGATAAATAAAATTTTAAATTAGA
Found at i:64052348 original size:27 final size:26
Alignment explanation
Indices: 64052201--64052349 Score: 99
Period size: 27 Copynumber: 5.7 Consensus size: 26
64052191 TACAAATTAA
64052201 GATAATTAAGAA-TTTAAATTAAATTAG
1 GATAATTAA-AATTTTAAATTAAA-TAG
* * * *
64052228 GATAATTAGAGTTTTAAATTAGATAA
1 GATAATTAAAATTTTAAATTAAATAG
*
64052254 GATAATTAGGAA-TTT-AATT-AATAG
1 GATAATTA-AAATTTTAAATTAAATAG
* * * * *
64052278 GTTAAATAAAATTTTAGATTTTAGATAA
1 GATAATTAAAATTTTA-A-ATTAAATAG
* * *
64052306 GATAATTAATAGTTTAAATTAAATTG
1 GATAATTAAAATTTTAAATTAAATAG
64052332 GTATAATTAAAATTTTAA
1 G-ATAATTAAAATTTTAA
64052350 TATATTTAAA
Statistics
Matches: 91, Mismatches: 23, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
23 2 0.02
24 12 0.13
25 4 0.04
26 21 0.23
27 37 0.41
28 15 0.16
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (26 bp):
GATAATTAAAATTTTAAATTAAATAG
Found at i:64057135 original size:6 final size:6
Alignment explanation
Indices: 64057124--64057151 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
64057114 TTTCAAATGC
64057124 AGATAT AGATAT AGATAT AGATAT AGAT
1 AGATAT AGATAT AGATAT AGATAT AGAT
64057152 CCTACCCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (6 bp):
AGATAT
Found at i:64058745 original size:15 final size:15
Alignment explanation
Indices: 64058725--64058753 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
64058715 ACTCTTGGTT
64058725 TACTAACCCAATTTA
1 TACTAACCCAATTTA
64058740 TACTAACCCAATTT
1 TACTAACCCAATTT
64058754 TGAGATGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (15 bp):
TACTAACCCAATTTA
Found at i:64061743 original size:46 final size:46
Alignment explanation
Indices: 64061679--64061947 Score: 358
Period size: 46 Copynumber: 5.6 Consensus size: 46
64061669 TTTGAGTACT
* *
64061679 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
64061725 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
64061771 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
64061823 TCTGATCAAGTGATAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTG---A---CAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
64061875 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
64061921 TCTGATCAAGTGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
64061948 GCTACACTTA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
49 1 0.01
52 85 0.43
55 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:64061804 original size:52 final size:51
Alignment explanation
Indices: 64061739--64061947 Score: 293
Period size: 52 Copynumber: 4.1 Consensus size: 51
64061729 ATCAAGTGAC
64061739 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* *
64061791 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
64061842 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
64061889 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGTG
64061941 ATAAGTG
1 A-AAGTG
64061948 GCTACACTTA
Statistics
Matches: 140, Mismatches: 9, Indels: 15
0.85 0.05 0.09
Matches are distributed among these distances:
46 42 0.30
51 1 0.01
52 92 0.66
53 5 0.04
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:64061842 original size:7 final size:7
Alignment explanation
Indices: 64061825--64061858 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
64061815 TACACTTATC
64061825 TGATCAAG
1 TGAT-AAG
64061833 TGATAAG
1 TGATAAG
*
64061840 TGAAAAG
1 TGATAAG
64061847 TGATAAG
1 TGATAAG
64061854 TGATA
1 TGATA
64061859 GCTTCGGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.44, C:0.03, G:0.26, T:0.26
Consensus pattern (7 bp):
TGATAAG
Found at i:64061955 original size:37 final size:37
Alignment explanation
Indices: 64061911--64062056 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
64061901 GATAGCTTTA
**
64061911 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
64061948 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
64061985 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
64062022 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
64062057 ATCATACGTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 88 0.85
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:64064635 original size:22 final size:21
Alignment explanation
Indices: 64064610--64064652 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
64064600 CGTTCTTCTG
* *
64064610 AAAATAGACTAAATTTTTTAAA
1 AAAATA-AATAAATGTTTTAAA
64064632 AAAATAAATAAATGTTTTAAA
1 AAAATAAATAAATGTTTTAAA
64064653 TTCGACTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAATAAATAAATGTTTTAAA
Found at i:64064809 original size:26 final size:26
Alignment explanation
Indices: 64064734--64064812 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 26
64064724 AGGAGGTTAC
*
64064734 AAATTAAGATAATTAAGAATTTAAATT
1 AAATTAAGATAATT-AGAATTTAATTT
* * *
64064761 AAATTAGGATATTTAGATTTTTAATTT
1 AAATTAAGATAATTAGA-ATTTAATTT
*
64064788 AGA-TAAGATAATTAGGAATTTAATT
1 AAATTAAGATAATTA-GAATTTAATT
64064813 AATAGGTTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
26 19 0.45
27 23 0.55
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (26 bp):
AAATTAAGATAATTAGAATTTAATTT
Found at i:64065928 original size:168 final size:168
Alignment explanation
Indices: 64065650--64066328 Score: 1124
Period size: 168 Copynumber: 4.0 Consensus size: 168
64065640 CTTTTGGAAC
64065650 TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
1 TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
** *
64065715 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCCTTTGGGGAAATTGGGTTTTTCTTTCTCGTACT
66 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
* *
64065780 CTTCGTGCTCCTTCAATTCGTGTGACTCGTGGCACTCA
131 CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCT
*
64065818 TCATGTTTATGTTCCTTGCCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
1 TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
* * ** *
64065883 TTCATGTTTCTCGTGCTCTTTGGGCTTTTCCCCTTTGGGGAAATTGGGTTTTTCTTTCTCGTACT
66 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
* *
64065948 CTTCGTGCTCCTTCGATTCGTGTGACTTGTGGCACTCC
131 CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCT
* *
64065986 TCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTCCGGATATTCGAC
1 TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
*
64066051 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAACTCGGGTTTTTCTTTCTCGTACT
66 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
** * *
64066116 CTTCGTGCTCCTTCGATTCACGTGATTCGTGGTACTCT
131 CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCT
* *
64066154 TCATGTTTATGTTCCTTACCCTCATCTTGGTTTTCCTTGTACTCGAGTATTTTCGGATATTCGAC
1 TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
* *
64066219 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAACTCGGGTTTTTCTTTCTGGTACT
66 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
* *
64066284 CTTCGTGCTCCTTCGATTTGTGTGACTCGTGGTACTCT
131 CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCT
64066322 TCATGTT
1 TCATGTT
64066329 GCTTGCACGG
Statistics
Matches: 482, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
168 482 1.00
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.46
Consensus pattern (168 bp):
TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCT
Found at i:64073788 original size:6 final size:6
Alignment explanation
Indices: 64073777--64073804 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
64073767 TTTCAAATGC
64073777 AGATAT AGATAT AGATAT AGATAT AGAT
1 AGATAT AGATAT AGATAT AGATAT AGAT
64073805 CCTACCCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (6 bp):
AGATAT
Found at i:64075397 original size:15 final size:15
Alignment explanation
Indices: 64075377--64075405 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
64075367 ACTCTTGGTT
64075377 TACTAACCCAATTTA
1 TACTAACCCAATTTA
64075392 TACTAACCCAATTT
1 TACTAACCCAATTT
64075406 TTGAGATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (15 bp):
TACTAACCCAATTTA
Found at i:64078296 original size:22 final size:21
Alignment explanation
Indices: 64078271--64078313 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
64078261 CGTTCTTCTG
* *
64078271 AAAATAGACTAAATTTTTTAAA
1 AAAATA-AATAAATGTTTTAAA
64078293 AAAATAAATAAATGTTTTAAA
1 AAAATAAATAAATGTTTTAAA
64078314 TTCGACTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAATAAATAAATGTTTTAAA
Found at i:64078470 original size:26 final size:26
Alignment explanation
Indices: 64078395--64078473 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 26
64078385 AGGAGGTTAC
*
64078395 AAATTAAGATAATTAAGAATTTAAATT
1 AAATTAAGATAATT-AGAATTTAATTT
* * *
64078422 AAATTAGGATATTTAGATTTTTAATTT
1 AAATTAAGATAATTAGA-ATTTAATTT
*
64078449 AGA-TAAGATAATTAGGAATTTAATT
1 AAATTAAGATAATTA-GAATTTAATT
64078474 AATAGGTTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
26 19 0.45
27 23 0.55
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (26 bp):
AAATTAAGATAATTAGAATTTAATTT
Found at i:64079589 original size:168 final size:168
Alignment explanation
Indices: 64079311--64079989 Score: 1133
Period size: 168 Copynumber: 4.0 Consensus size: 168
64079301 CTTTTGGAAC
64079311 TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
1 TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
** *
64079376 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCCTTTGGGGAAATTGGGTTTTTCTTTCTCGTACT
66 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
*
64079441 CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCA
131 CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCT
*
64079479 TCATGTTTATGTTCCTTGCCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
1 TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
* * ** *
64079544 TTCATGTTTCTCGTGCTCTTTGGGCTTTTCCCCTTTGGGGAAATTGGGTTTTTCTTTCTCGTACT
66 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
* *
64079609 CTTCGTGCTCCTTCGATTCGTGTGACTTGTGGCACTCC
131 CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCT
* *
64079647 TCATGTTTATGTTCCTTACCCTCATCTTGCTTTTCCTTGTACTCGGGTATTTCCGGATATTCGAC
1 TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
*
64079712 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAACTCGGGTTTTTCTTTCTCGTACT
66 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
** * *
64079777 CTTCGTGCTCCTTCGATTCACGTGATTCGTGGTACTCT
131 CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCT
* *
64079815 TCATGTTTATGTTCCTTACCCTCATCTTGGTTTTCCTTGTACTCGAGTATTTTCGGATATTCGAC
1 TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
* *
64079880 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAACTCGGGTTTTTCTTTCTGGTACT
66 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
* *
64079945 CTTCGTGCTCCTTCGATTTGTGTGACTCGTGGTACTCT
131 CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCT
64079983 TCATGTT
1 TCATGTT
64079990 GCTTGCACGG
Statistics
Matches: 483, Mismatches: 28, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
168 483 1.00
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.46
Consensus pattern (168 bp):
TCATGTTTATGTTCCTTACCCTCATCTTGTTTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCAATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
CTTCGTGCTCCTTCGATTCGTGTGACTCGTGGCACTCT
Found at i:64083197 original size:27 final size:27
Alignment explanation
Indices: 64083162--64083220 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
64083152 GGGCCAAAAG
*
64083162 TGTGAATTTAGAGATAAAATGGGCCAA
1 TGTGCATTTAGAGATAAAATGGGCCAA
64083189 TGTGCATTTAGAGATAAAATGGGCCAA
1 TGTGCATTTAGAGATAAAATGGGCCAA
64083216 TGTGC
1 TGTGC
64083221 GACACAGGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (27 bp):
TGTGCATTTAGAGATAAAATGGGCCAA
Found at i:64083340 original size:15 final size:15
Alignment explanation
Indices: 64083315--64083349 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
64083305 AACTCTATTT
*
64083315 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
64083329 TAATTAATATTAAGA
1 TAATTAATATTAAGA
64083344 TAATTA
1 TAATTA
64083350 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:64083392 original size:10 final size:10
Alignment explanation
Indices: 64083374--64083421 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
64083364 ATTTTAGTAT
64083374 TTTAT-TTTA
1 TTTATCTTTA
64083383 TTTATCTTTA
1 TTTATCTTTA
64083393 TTTATCTTTA
1 TTTATCTTTA
* ** *
64083403 ATTAAATGTA
1 TTTATCTTTA
64083413 TTTATCTTT
1 TTTATCTTT
64083422 TGGGAGTTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:64085660 original size:24 final size:24
Alignment explanation
Indices: 64085628--64085677 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
64085618 AATAAGATTG
*
64085628 AACTTTCACCTTGGGGTCAAAGGC
1 AACTTTCACCTCGGGGTCAAAGGC
64085652 AACTTTCACCTCGGGGTCAAAGGC
1 AACTTTCACCTCGGGGTCAAAGGC
64085676 AA
1 AA
64085678 TTGCTATGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (24 bp):
AACTTTCACCTCGGGGTCAAAGGC
Found at i:64092575 original size:5 final size:5
Alignment explanation
Indices: 64092565--64092589 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
64092555 TTGTATTTTT
64092565 AAAGA AAAGA AAAGA AAAGA AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAAGA
64092590 TGTGGGAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:64093606 original size:24 final size:23
Alignment explanation
Indices: 64093552--64093606 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
64093542 ATAAATTATT
*
64093552 TATAAAGTTTAATTTATATATAA
1 TATAAAATTTAATTTATATATAA
64093575 -ATAAAAATTGTAATTTATGA-ATAA
1 TAT-AAAATT-TAATTTAT-ATATAA
64093599 TATAAAAT
1 TATAAAAT
64093607 AATTTAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
22 2 0.07
23 5 0.19
24 17 0.63
25 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (23 bp):
TATAAAATTTAATTTATATATAA
Found at i:64095314 original size:25 final size:25
Alignment explanation
Indices: 64095276--64095387 Score: 93
Period size: 25 Copynumber: 4.5 Consensus size: 25
64095266 GACTCACCAC
**
64095276 AGCTCGTATCAGCTTACCGATTTAT
1 AGCTCGTAGGAGCTTACCGATTTAT
* **
64095301 AGCTCGTAGGAGCTTACTGATTTGC
1 AGCTCGTAGGAGCTTACCGATTTAT
* *
64095326 AGCTCATAGGAACTTACCGATATT-T
1 AGCTCGTAGGAGCTTACCGAT-TTAT
* * *
64095351 AGCTCGGAAGAGCTTACTG-TTTAT
1 AGCTCGTAGGAGCTTACCGATTTAT
* *
64095375 CGCTCGTATGAGC
1 AGCTCGTAGGAGC
64095388 CTACATGTAC
Statistics
Matches: 68, Mismatches: 17, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
23 2 0.03
24 12 0.18
25 52 0.76
26 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.32
Consensus pattern (25 bp):
AGCTCGTAGGAGCTTACCGATTTAT
Found at i:64103794 original size:14 final size:14
Alignment explanation
Indices: 64103775--64103801 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
64103765 TAATTTGGCC
64103775 AATGTTGGCTTATT
1 AATGTTGGCTTATT
64103789 AATGTTGGCTTAT
1 AATGTTGGCTTAT
64103802 AGGTATGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.48
Consensus pattern (14 bp):
AATGTTGGCTTATT
Found at i:64107341 original size:46 final size:46
Alignment explanation
Indices: 64107262--64107418 Score: 163
Period size: 46 Copynumber: 3.4 Consensus size: 46
64107252 TAATAGTGCA
* * * ** *
64107262 TGGTCACCCGTTAGGGTTGAACCTACCCAAATCGAATAATAATGTT
1 TGGTCACCCATTAAGGTTGGACCTATACAAATCGAATAATAATGTC
* * ** *
64107308 TGGTCACCCATTAGGGTTGGACTTATATGAATCGAACAATAATGTC
1 TGGTCACCCATTAAGGTTGGACCTATACAAATCGAATAATAATGTC
* * * *
64107354 CGGTCA-CCAGTTAAGGTTGGACCTATACAAATTGGATAATAGTGTC
1 TGGTCACCCA-TTAAGGTTGGACCTATACAAATCGAATAATAATGTC
64107400 TGGTCACCCATTAAGGTTG
1 TGGTCACCCATTAAGGTTG
64107419 AAATAACATA
Statistics
Matches: 90, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
45 3 0.03
46 84 0.93
47 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (46 bp):
TGGTCACCCATTAAGGTTGGACCTATACAAATCGAATAATAATGTC
Found at i:64110573 original size:25 final size:24
Alignment explanation
Indices: 64110506--64110592 Score: 75
Period size: 25 Copynumber: 3.5 Consensus size: 24
64110496 CAGCTCGAAA
* * * *
64110506 GAGCGTCCCATTATTAGCTCTCAT
1 GAGCTTCCCATTATTGGTTCTCAC
* *
64110530 GAGCATCCCAATACTTGGTTCTCAC
1 GAGCTTCCCATTA-TTGGTTCTCAC
***
64110555 GAGCTTCCCATTATATGGTTCTTGG
1 GAGCTTCCCATTAT-TGGTTCTCAC
64110580 GAGCTTCCCATTA
1 GAGCTTCCCATTA
64110593 ATAGCTCTTC
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
24 12 0.24
25 39 0.76
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (24 bp):
GAGCTTCCCATTATTGGTTCTCAC
Found at i:64110612 original size:25 final size:25
Alignment explanation
Indices: 64110555--64110612 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
64110545 TGGTTCTCAC
* * *
64110555 GAGCTTCCCATTATATGGTTCTTGG
1 GAGCTTCCCATTATATAGCTCTTCG
64110580 GAGCTTCCCATTA-ATAGCTCTTCG
1 GAGCTTCCCATTATATAGCTCTTCG
64110604 GAGCATTCC
1 GAGC-TTCC
64110613 GATTGGTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCATTATATAGCTCTTCG
Found at i:64110692 original size:24 final size:27
Alignment explanation
Indices: 64110676--64110725 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
64110666 CCCGATATAT
64110676 GCTC-TTCA-GAGCTTCCCGATTAAAA
1 GCTCTTTCATGAGCTTCCCGATTAAAA
*
64110701 GCTCTTTCATGAGCTTCCTGATTAA
1 GCTCTTTCATGAGCTTCCCGATTAA
64110726 TGGCTCGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 4 0.18
27 14 0.64
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (27 bp):
GCTCTTTCATGAGCTTCCCGATTAAAA
Found at i:64112369 original size:43 final size:43
Alignment explanation
Indices: 64112273--64112384 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 43
64112263 GCACATAAGT
* * * * * * *
64112273 GCTAAACGGAAACCGATAAGGATT-GAACAGAAGCTCATAGGA
1 GCTAAACGGAAACCCAAAAGGGTTAAAACTGAAGCTCAAAAGA
64112315 GCTAAACGGAAACCCAAAAGGGTTAAAACTGAAGCTCAAAAGA
1 GCTAAACGGAAACCCAAAAGGGTTAAAACTGAAGCTCAAAAGA
* * **
64112358 GCTGAATGGAAACCCATTAGGGTTAAA
1 GCTAAACGGAAACCCAAAAGGGTTAAA
64112385 CTAAAACTCA
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 21 0.36
43 37 0.64
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (43 bp):
GCTAAACGGAAACCCAAAAGGGTTAAAACTGAAGCTCAAAAGA
Found at i:64113404 original size:6 final size:6
Alignment explanation
Indices: 64113380--64113417 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
64113370 CAAGTACCTA
*
64113380 AACAGT AATCAGT AACAGT AGCAGT AACAGT AACAGT A
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT A
64113418 TTCAACACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:64113410 original size:18 final size:19
Alignment explanation
Indices: 64113382--64113417 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
64113372 AGTACCTAAA
64113382 CAGTAATCAGTAACAGTAG
1 CAGTAATCAGTAACAGTAG
64113401 CAGTAA-CAGTAACAGTA
1 CAGTAATCAGTAACAGTA
64113418 TTCAACACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.19
Consensus pattern (19 bp):
CAGTAATCAGTAACAGTAG
Done.