Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 108 of 161
Found at i:34388309 original size:16 final size:16
Alignment explanation
Indices: 34388288--34388319 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34388278 TGATTGAAAG
*
34388288 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
34388304 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
34388320 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:34390086 original size:11 final size:12
Alignment explanation
Indices: 34390061--34390093 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
34390051 AAATTTATGC
34390061 AAAAAGAAGCAAT
1 AAAAAGAA-CAAT
34390074 -AAAAGAACAAT
1 AAAAAGAACAAT
34390085 AAAAAGAAC
1 AAAAAGAAC
34390094 GCACACAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.73, C:0.09, G:0.12, T:0.06
Consensus pattern (12 bp):
AAAAAGAACAAT
Found at i:34391534 original size:68 final size:68
Alignment explanation
Indices: 34391454--34391589 Score: 227
Period size: 68 Copynumber: 2.0 Consensus size: 68
34391444 ACCAAGAGAC
* *
34391454 ATAGGATAAAATCCTAAATGTTTAATAGGCTTATTGTCTTTATATGTTTTGAATATTCCATTTTA
1 ATAGGATAAAATCCTAAATGTTTAATAGGCTTATTGTCTCTATATGTTCTGAATATTCCATTTTA
34391519 ACT
66 ACT
** *
34391522 ATAGGATAAAATCCTAAATGTTTCTTGGGCTTATTGTCTCTATATGTTCTGAATATTCCATTTTA
1 ATAGGATAAAATCCTAAATGTTTAATAGGCTTATTGTCTCTATATGTTCTGAATATTCCATTTTA
34391587 ACT
66 ACT
34391590 TTATCTTCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (68 bp):
ATAGGATAAAATCCTAAATGTTTAATAGGCTTATTGTCTCTATATGTTCTGAATATTCCATTTTA
ACT
Found at i:34409251 original size:42 final size:42
Alignment explanation
Indices: 34409165--34409264 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
34409155 TGTGGATTCT
* *
34409165 CCACAGCTCGTGTGAGCAGCACCGTATAGTTTACATTTCGAC
1 CCACAACTCGTGTGAGCAGCACCGTATAGTTTACATTTCAAC
* * *
34409207 CCATAACTCGTGTGAGCAGCATCGTGTAGTTTACA-TTCTAAC
1 CCACAACTCGTGTGAGCAGCACCGTATAGTTTACATTTC-AAC
*
34409249 CCACAACTCATGTGAG
1 CCACAACTCGTGTGAG
34409265 TAGGCCCATT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 3 0.06
42 47 0.94
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (42 bp):
CCACAACTCGTGTGAGCAGCACCGTATAGTTTACATTTCAAC
Found at i:34411557 original size:18 final size:18
Alignment explanation
Indices: 34411534--34411577 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
34411524 TAAGCACTTA
*
34411534 AATTTGG-CTTCAATGTTT
1 AATTTGGACTTAAAT-TTT
34411552 AATTTGGTACTTAAATTTT
1 AATTTGG-ACTTAAATTTT
34411571 AATTTGG
1 AATTTGG
34411578 TCCCAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 7 0.30
19 10 0.43
20 6 0.26
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.50
Consensus pattern (18 bp):
AATTTGGACTTAAATTTT
Found at i:34412580 original size:3 final size:3
Alignment explanation
Indices: 34412572--34412624 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
34412562 CACTCTTGCC
* * *
34412572 TCT TCT TCT TCT TCT TCT AT-A TCT TCT TCT TGT TCT TCA TCT TCT
1 TCT TCT TCT TCT TCT TCT -TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
34412617 TGT TCT TC
1 TCT TCT TC
34412625 CTCCCCCTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 1 0.03
3 38 0.95
4 1 0.03
ACGTcount: A:0.06, C:0.28, G:0.04, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:34413123 original size:84 final size:86
Alignment explanation
Indices: 34412971--34413140 Score: 211
Period size: 84 Copynumber: 2.0 Consensus size: 86
34412961 AAACCTTATT
* * * * * *
34412971 TGCTTCTGTTTTTACCGTCTTAGAATAATTTTTTTTGGTCCGCCAAAATAAGACCTGTCCATTGA
1 TGCTTCTGTTTTTACCGTCTGAGAATAATTTTGTTTGATCCGCCAAAATAAAACCTGTACATTAA
34413036 TGTTATAGAACTAAG-TCAAA
66 TGTTATAGAACTAAGCTCAAA
* * * *
34413056 TGCTTTTG-TTTTACTGTCTGAGAATAATTTTGTTTGATCCGCTC-AAGTAAAACCTTTACATTA
1 TGCTTCTGTTTTTACCGTCTGAGAATAATTTTGTTTGATCCGC-CAAAATAAAACCTGTACATTA
*
34413119 ATGTTTTAGAACTAAGCTCAAA
65 ATGTTATAGAACTAAGCTCAAA
34413141 CACTTGGAGA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
84 59 0.82
85 13 0.18
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (86 bp):
TGCTTCTGTTTTTACCGTCTGAGAATAATTTTGTTTGATCCGCCAAAATAAAACCTGTACATTAA
TGTTATAGAACTAAGCTCAAA
Found at i:34415497 original size:19 final size:19
Alignment explanation
Indices: 34415473--34415530 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
34415463 GACAGTATAG
34415473 AAAAAATTGAAATGGAGAT
1 AAAAAATTGAAATGGAGAT
*
34415492 AAAAAATT-AAATTCGGA-AGG
1 AAAAAATTGAAA-T-GGAGA-T
*
34415512 AAAAAATTGAAACGGAGAT
1 AAAAAATTGAAATGGAGAT
34415531 GAACAAATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
18 3 0.10
19 13 0.42
20 12 0.39
21 3 0.10
ACGTcount: A:0.57, C:0.03, G:0.21, T:0.19
Consensus pattern (19 bp):
AAAAAATTGAAATGGAGAT
Found at i:34415538 original size:20 final size:20
Alignment explanation
Indices: 34415472--34415538 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
34415462 TGACAGTATA
*
34415472 GAAAAAATTGAAATGGAGAT
1 GAAAAAATTGAAACGGAGAT
*
34415492 -AAAAAATT-AAATTCGGA-AG
1 GAAAAAATTGAAA--CGGAGAT
34415511 GAAAAAATTGAAACGGAGAT
1 GAAAAAATTGAAACGGAGAT
*
34415531 GAACAAAT
1 GAAAAAAT
34415539 GGTGTAGGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
18 3 0.08
19 13 0.34
20 19 0.50
21 3 0.08
ACGTcount: A:0.57, C:0.04, G:0.21, T:0.18
Consensus pattern (20 bp):
GAAAAAATTGAAACGGAGAT
Found at i:34421057 original size:7 final size:7
Alignment explanation
Indices: 34421047--34421083 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
34421037 AGGATTGAGG
34421047 ATTGAAA
1 ATTGAAA
34421054 ATTGAAA
1 ATTGAAA
34421061 ATTGAAA
1 ATTGAAA
* *
34421068 ATTTAAG
1 ATTGAAA
34421075 ATTGAAA
1 ATTGAAA
34421082 AT
1 AT
34421084 ATAGGATGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.32
Consensus pattern (7 bp):
ATTGAAA
Found at i:34421057 original size:14 final size:14
Alignment explanation
Indices: 34421040--34421083 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
34421030 ATAATTGAGG
*
34421040 ATTGAGGATTGAAA
1 ATTGAAGATTGAAA
*
34421054 ATTGAAAATTGAAA
1 ATTGAAGATTGAAA
*
34421068 ATTTAAGATTGAAA
1 ATTGAAGATTGAAA
34421082 AT
1 AT
34421084 ATAGGATGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (14 bp):
ATTGAAGATTGAAA
Found at i:34421922 original size:5 final size:5
Alignment explanation
Indices: 34421867--34421892 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
34421857 CAAAACTATC
34421867 TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA T
34421893 TACAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:34440805 original size:18 final size:17
Alignment explanation
Indices: 34440777--34440811 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34440767 ATTATTAAGA
*
34440777 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34440794 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34440812 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34440925 original size:18 final size:17
Alignment explanation
Indices: 34440897--34440931 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34440887 ATTATTAAGA
*
34440897 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34440914 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34440932 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34440957 original size:120 final size:120
Alignment explanation
Indices: 34440744--34441068 Score: 623
Period size: 120 Copynumber: 2.7 Consensus size: 120
34440734 NNNNNNNNNN
*
34440744 AGTAAATTAATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATA
1 AGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATA
*
34440809 TATTTAATAATAATTATGTTACTTTATATTTTACAGTATCATATATTATGATTTC
66 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTC
34440864 AGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATA
1 AGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATA
34440929 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTC
66 TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTC
*
34440984 AGTAAATTAATATAAGAATGTTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATA
1 AGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATA
34441049 TATTTAATAATAATTATGTT
66 TATTTAATAATAATTATGTT
34441069 TAAATATGAT
Statistics
Matches: 202, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 202 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
AGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATA
TATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTC
Found at i:34441045 original size:18 final size:17
Alignment explanation
Indices: 34441017--34441051 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34441007 ATTATTAAGA
*
34441017 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34441034 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34441052 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34441266 original size:44 final size:45
Alignment explanation
Indices: 34441216--34441306 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
34441206 ACCTCTATTC
* * *
34441216 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
34441260 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
34441305 CA
1 CA
34441307 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:34441321 original size:17 final size:16
Alignment explanation
Indices: 34441287--34441339 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
34441277 GATTAGCTAT
34441287 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
34441303 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
34441320 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
34441336 TACA
1 TACA
34441340 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:34442642 original size:19 final size:19
Alignment explanation
Indices: 34442618--34442660 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
34442608 ATATTTTTCC
34442618 ATAAAAATGATTAAATATT
1 ATAAAAATGATTAAATATT
*
34442637 ATAAAAATTATTAAATATT
1 ATAAAAATGATTAAATATT
34442656 A-AAAA
1 ATAAAA
34442661 TACTTTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
ATAAAAATGATTAAATATT
Found at i:34442807 original size:10 final size:9
Alignment explanation
Indices: 34442779--34442805 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
34442769 ATCGAAATTC
34442779 TATAAAAAA
1 TATAAAAAA
34442788 TATAAAAAA
1 TATAAAAAA
34442797 TATAAAAAA
1 TATAAAAAA
34442806 ATTATTAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
TATAAAAAA
Found at i:34443329 original size:9 final size:9
Alignment explanation
Indices: 34443278--34443398 Score: 50
Period size: 9 Copynumber: 13.2 Consensus size: 9
34443268 CAGTTCAAGT
*
34443278 TTTTTAAAA
1 TTTTTATAA
*
34443287 TTGTTTTTAA
1 TT-TTTATAA
*
34443297 TTTTAAATAA
1 TTTT-TATAA
* *
34443307 GTTTTATTA
1 TTTTTATAA
*
34443316 GTTTTATAA
1 TTTTTATAA
34443325 TTTTTTAATAA
1 -TTTTT-ATAA
*
34443336 GTTTATATAA
1 -TTTTTATAA
* *
34443346 TTTTAATCA
1 TTTTTATAA
*
34443355 TTTTAATAA
1 TTTTTATAA
*
34443364 --TTTCTAA
1 TTTTTATAA
* *
34443371 TATTTA-AT
1 TTTTTATAA
34443379 TTTTTATAA
1 TTTTTATAA
*
34443388 TTTTTAAAA
1 TTTTTATAA
34443397 TT
1 TT
34443399 ATTTTAAAAT
Statistics
Matches: 83, Mismatches: 22, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
7 5 0.06
8 6 0.07
9 43 0.52
10 21 0.25
11 8 0.10
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:34443349 original size:19 final size:18
Alignment explanation
Indices: 34443327--34443372 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
34443317 TTTTATAATT
34443327 TTTTAATAAGTTTATATAA
1 TTTTAATAAGTTTA-ATAA
* *
34443346 TTTTAATCATTTTAATAA
1 TTTTAATAAGTTTAATAA
34443364 TTTCTAATA
1 TTT-TAATA
34443373 TTTAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (18 bp):
TTTTAATAAGTTTAATAA
Found at i:34443349 original size:29 final size:28
Alignment explanation
Indices: 34443290--34443360 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
34443280 TTTAAAATTG
*
34443290 TTTT-TAATTTTAAATAAGTTTTATTAG
1 TTTTATAATTTTAAATAAGTTTTATTAA
*
34443317 TTTTATAATTTTTTAATAAG-TTTATATAA
1 TTTTATAA-TTTTAAATAAGTTTTAT-TAA
*
34443346 TTTTAATCATTTTAA
1 TTTT-ATAATTTTAA
34443361 TAATTTCTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 4 0.11
28 8 0.22
29 21 0.58
30 3 0.08
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (28 bp):
TTTTATAATTTTAAATAAGTTTTATTAA
Found at i:34443403 original size:11 final size:11
Alignment explanation
Indices: 34443389--34443415 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
34443379 TTTTTATAAT
34443389 TTTTAAAATTA
1 TTTTAAAATTA
34443400 TTTTAAAATTA
1 TTTTAAAATTA
34443411 TTTTA
1 TTTTA
34443416 TGATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATTA
Found at i:34444428 original size:19 final size:17
Alignment explanation
Indices: 34444362--34444433 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
34444352 CAAAATCGAT
* *
34444362 TTAA-TTAAATCAATTT
1 TTAACTTAATTCAATTA
34444378 TTAACTTAATTCAATTA
1 TTAACTTAATTCAATTA
* * *
34444395 TT-TCGTAAATCAATTGA
1 TTAACTTAATTCAATT-A
*
34444412 TCTAACTTAATTCAATTT
1 T-TAACTTAATTCAATTA
34444430 TTAA
1 TTAA
34444434 TAAATTATCG
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
16 14 0.33
17 17 0.40
18 2 0.05
19 10 0.23
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (17 bp):
TTAACTTAATTCAATTA
Found at i:34448993 original size:86 final size:86
Alignment explanation
Indices: 34448875--34449106 Score: 274
Period size: 86 Copynumber: 2.7 Consensus size: 86
34448865 GCGCATCTTG
* *
34448875 CACAAACGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTCT-CCCAAAAACGCCACTAAAG-GTC
1 CACAAACGCCGCTAAAGA-CCTTATCTTTAGCGGCGCTT-TGACCAAAAACGCCACTAAAGACT-
*
34448938 AGGGTCTTTAGCGGCGC-TTTCCC
63 AGGATCTTTAGCGGCGCTTTTCCC
* * * * *
34448961 CTCAAACGCCG-TAATAGAGCCTGATCTATAGCGGCTCTTTGACCACAAACGCCACTAAAGACTA
1 CACAAACGCCGCTAA-AGA-CCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACTA
* * **
34449025 TGATCTTTAGTGGCGCTTTTTTC
64 GGATCTTTAGCGGCGCTTTTCCC
34449048 CACAAACGCCGCTAAAGACCATTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAA
1 CACAAACGCCGCTAAAGACC-TTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAA
34449107 TTTGGCAGAT
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
85 4 0.03
86 63 0.52
87 52 0.43
88 3 0.02
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (86 bp):
CACAAACGCCGCTAAAGACCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACTAGG
ATCTTTAGCGGCGCTTTTCCC
Found at i:34449056 original size:44 final size:43
Alignment explanation
Indices: 34448838--34449106 Score: 224
Period size: 43 Copynumber: 6.2 Consensus size: 43
34448828 CTAATGAATG
* * *
34448838 CGCCGCTAAAGACCCTAATCTTTAGCGGCGCATCTTG--CACAAA
1 CGCCACTAAAGACCATGATCTTTAGCGGCGC-T-TTGACCACAAA
* * * * *
34448881 CGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTCT-CCCAAAAA
1 CGCCACTAAAGACCATGATCTTTAGCGGCGCTT-TGACCACAAA
** * * ** *
34448924 CGCCACTAAAGGTCAGGGTCTTTAGCGGCGCTTTCCCCTCAAA
1 CGCCACTAAAGACCATGATCTTTAGCGGCGCTTTGACCACAAA
* * *
34448967 CGCC-GTAATAGAGCC-TGATCTATAGCGGCTCTTTGACCACAAA
1 CGCCACTAA-AGA-CCATGATCTTTAGCGGCGCTTTGACCACAAA
* * **
34449010 CGCCACTAAAGACTATGATCTTTAGTGGCGCTTTTTTCCACAAA
1 CGCCACTAAAGACCATGATCTTTAGCGGCGC-TTTGACCACAAA
* * *
34449054 CGCCGCTAAAGACCATTATCTTTAGCGGCGCTTTGACCAAAAA
1 CGCCACTAAAGACCATGATCTTTAGCGGCGCTTTGACCACAAA
34449097 CGCCACTAAA
1 CGCCACTAAA
34449107 TTTGGCAGAT
Statistics
Matches: 181, Mismatches: 36, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 7 0.04
43 132 0.73
44 41 0.23
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (43 bp):
CGCCACTAAAGACCATGATCTTTAGCGGCGCTTTGACCACAAA
Found at i:34449439 original size:21 final size:21
Alignment explanation
Indices: 34449413--34449525 Score: 118
Period size: 21 Copynumber: 5.4 Consensus size: 21
34449403 TTTGACGCTG
34449413 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
34449434 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
34449455 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * * *
34449476 CTGTACTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
34449497 CTTTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
34449518 ATCTGCTT
1 CTCTGCTT
34449526 TAAGCTGCTG
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.04, C:0.42, G:0.18, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:34449573 original size:66 final size:66
Alignment explanation
Indices: 34449501--34449642 Score: 207
Period size: 66 Copynumber: 2.2 Consensus size: 66
34449491 TGCCGCCTTT
*
34449501 GCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACC
1 GCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACC
34449564 TCA
64 TCA
* * * *
34449567 GCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTC
1 GCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
34449632 A
66 A
34449633 GCTTCTCTCG
1 GCTTCTCTCG
34449643 ATGTTGCCTC
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
65 1 0.01
66 64 0.93
67 4 0.06
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.40
Consensus pattern (66 bp):
GCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTC
A
Found at i:34449658 original size:66 final size:66
Alignment explanation
Indices: 34449501--34449665 Score: 199
Period size: 66 Copynumber: 2.5 Consensus size: 66
34449491 TGCCGCCTTT
* * * * *
34449501 GCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATACTTTCGTTGAACCT
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCGTTGAACCT
34449565 CA
65 CA
* * * *
34449567 GCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACCT
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTGAACCT
34449631 CA
65 CA
* *
34449633 GCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
34449666 GTAATTTGCT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 1 0.01
66 82 0.94
67 4 0.05
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.41
Consensus pattern (66 bp):
GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACCTC
A
Found at i:34450705 original size:16 final size:16
Alignment explanation
Indices: 34450684--34450727 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
34450674 ACTAAACTAC
34450684 GTAAGTTATGTATTAT
1 GTAAGTTATGTATTAT
*
34450700 GTAAGTTATTTATTAT
1 GTAAGTTATGTATTAT
* *
34450716 GAAAATTATGTA
1 GTAAGTTATGTA
34450728 AGTTGTGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (16 bp):
GTAAGTTATGTATTAT
Found at i:34450746 original size:25 final size:25
Alignment explanation
Indices: 34450695--34450767 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 25
34450685 TAAGTTATGT
*
34450695 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* *
34450720 ATTATGTAAGTTGTGTATTAGTCAAA
1 ATTATGTAAGTTATGTATTA-TGAAA
34450746 TTATGCTATGTAAGTTATGTAT
1 --AT--TATGTAAGTTATGTAT
34450768 GTCGTATAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
25 18 0.46
26 4 0.10
28 2 0.05
30 15 0.38
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:34450764 original size:9 final size:9
Alignment explanation
Indices: 34450752--34450966 Score: 72
Period size: 9 Copynumber: 25.7 Consensus size: 9
34450742 CAAATTATGC
34450752 TATGTAAGT
1 TATGTAAGT
*
34450761 TATGTATGT
1 TATGTAAGT
** *
34450770 CGTATAAGT
1 TATGTAAGT
34450779 TATGTAAG-
1 TATGTAAGT
34450787 T-TGTAAGT
1 TATGTAAGT
34450795 TATGTAAGT
1 TATGTAAGT
*
34450804 TAT-TTA-T
1 TATGTAAGT
* *
34450811 TATGAAAAT
1 TATGTAAGT
*
34450820 TAAGTAAGT
1 TATGTAAGT
*
34450829 TATGTAATT
1 TATGTAAGT
*
34450838 TACG-AA-T
1 TATGTAAGT
* **
34450845 AAT-TAAAA
1 TATGTAAGT
*
34450853 AATTGTAAGT
1 TA-TGTAAGT
34450863 TATGTAAG-
1 TATGTAAGT
34450871 T-TGTAAGT
1 TATGTAAGT
*
34450879 TATGTATA-A
1 TATGTA-AGT
34450888 TAT-TAA-T
1 TATGTAAGT
**
34450895 TAACTAAGT
1 TATGTAAGT
*
34450904 TATGTAATT
1 TATGTAAGT
34450913 TATG-AA-T
1 TATGTAAGT
* **
34450920 AAT-TAAAAA
1 TATGT-AAGT
*
34450929 AATGTAAGT
1 TATGTAAGT
34450938 TATGTAAG-
1 TATGTAAGT
34450946 T-TGTAAGT
1 TATGTAAGT
34450954 TA--TAAGT
1 TATGTAAGT
34450961 TATGTA
1 TATGTA
34450967 TAATATTAAT
Statistics
Matches: 151, Mismatches: 34, Indels: 42
0.67 0.15 0.19
Matches are distributed among these distances:
7 39 0.26
8 22 0.15
9 84 0.56
10 6 0.04
ACGTcount: A:0.40, C:0.01, G:0.16, T:0.42
Consensus pattern (9 bp):
TATGTAAGT
Found at i:34450795 original size:16 final size:16
Alignment explanation
Indices: 34450754--34450884 Score: 70
Period size: 16 Copynumber: 7.8 Consensus size: 16
34450744 AATTATGCTA
*
34450754 TGTAAGTTATGTATGT
1 TGTAAGTTATGTAAGT
*
34450770 CGTATAAGTTATGTAAGT
1 --TGTAAGTTATGTAAGT
34450788 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
* * * *
34450804 TATTTA-TTATGAAAAT
1 T-GTAAGTTATGTAAGT
*
34450820 TAAGTAAGTTATGTAATT
1 T--GTAAGTTATGTAAGT
** *
34450838 TACGAATAA-TTA-AAAAAT
1 T--G--TAAGTTATGTAAGT
34450856 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
34450872 TGTAAGTTATGTA
1 TGTAAGTTATGTA
34450885 TAATATTAAT
Statistics
Matches: 88, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
14 3 0.03
15 3 0.03
16 42 0.48
17 5 0.06
18 29 0.33
19 3 0.03
20 3 0.03
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:34450861 original size:34 final size:33
Alignment explanation
Indices: 34450823--34450944 Score: 102
Period size: 34 Copynumber: 3.4 Consensus size: 33
34450813 TGAAAATTAA
34450823 GTAAGTTATGTAATTTACGAATAATTAAAAAATT
1 GTAAGTTATGTAATTTA-GAATAATTAAAAAATT
* *
34450857 GTAAGTTATGTAAGTTGTA-AGTTATGTATAATATTAATT
1 GTAAGTTATGTAA-TT-TAGAATAAT-TA-AA-A--AATT
* *
34450896 AACTAAGTTATGTAATTTATGAATAATTAAAAAAAT
1 --GTAAGTTATGTAATTTA-GAATAATTAAAAAATT
34450932 GTAAGTTATGTAA
1 GTAAGTTATGTAA
34450945 GTTGTAAGTT
Statistics
Matches: 70, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
34 29 0.41
35 4 0.06
36 7 0.10
37 1 0.01
38 1 0.01
39 8 0.11
40 4 0.06
41 16 0.23
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (33 bp):
GTAAGTTATGTAATTTAGAATAATTAAAAAATT
Found at i:34450878 original size:75 final size:75
Alignment explanation
Indices: 34450780--34450994 Score: 256
Period size: 75 Copynumber: 2.8 Consensus size: 75
34450770 CGTATAAGTT
* * *
34450780 ATGTAAG-T-TGTAAGTTATGTAAGTTATTTATTATGA-AAATTAAGTAAGTTATGTAATTTACG
1 ATGTAAGTTATGTAAG-T-TGTAAGTTATGTATAAT-ATAAATTAACTAAGTTATGTAATTTACG
34450842 AATAATTAAAAAA
63 AATAATTAAAAAA
* * *
34450855 TTGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGAAT
1 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATAAATTAACTAAGTTATGTAATTTACGAAT
34450920 AATTAAAAAA
66 AATTAAAAAA
*
34450930 ATGTAAGTTATGTAAGTTGTAAGTTATAAGTTATGTATAATATTAATTAACTAAGTTATGTAATT
1 ATGTAAGTTATGTAAG-T-T--G---TAAGTTATGTATAATATAAATTAACTAAGTTATGTAATT
34450995 AGAGATGGGT
Statistics
Matches: 123, Mismatches: 7, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
74 1 0.01
75 72 0.59
76 3 0.02
77 7 0.06
79 1 0.01
82 39 0.32
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.42
Consensus pattern (75 bp):
ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATAAATTAACTAAGTTATGTAATTTACGAAT
AATTAAAAAA
Found at i:34453891 original size:9 final size:8
Alignment explanation
Indices: 34453841--34453939 Score: 52
Period size: 7 Copynumber: 13.0 Consensus size: 8
34453831 ACCGTTGAAA
34453841 CCCTAAAC
1 CCCTAAAC
*
34453849 CCC-AAAT
1 CCCTAAAC
* *
34453856 CCATAACC
1 CCCTAAAC
34453864 CCCT-AAC
1 CCCTAAAC
*
34453871 CCCT-TAC
1 CCCTAAAC
34453878 CCCTAAATC
1 CCCTAAA-C
34453887 CCCT-AAC
1 CCCTAAAC
34453894 CCCTAAA-
1 CCCTAAAC
* *
34453901 GCAT-AAC
1 CCCTAAAC
*
34453908 CCTTAAA-
1 CCCTAAAC
34453915 CCCTAAATCC
1 CCCTAAA--C
34453925 CCCT-AAC
1 CCCTAAAC
34453932 CCCTAAAC
1 CCCTAAAC
34453940 ATCAAATTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
6 2 0.03
7 37 0.54
8 18 0.26
9 7 0.10
10 4 0.06
ACGTcount: A:0.34, C:0.47, G:0.01, T:0.17
Consensus pattern (8 bp):
CCCTAAAC
Found at i:34455262 original size:15 final size:15
Alignment explanation
Indices: 34455242--34455279 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
34455232 TTGAAATTAA
34455242 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
34455257 CCCTAAACCTCTAAC
1 CCCTAAATCTCAAAC
34455272 CCCTAAAT
1 CCCTAAAT
34455280 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:34455819 original size:41 final size:40
Alignment explanation
Indices: 34455751--34456070 Score: 338
Period size: 41 Copynumber: 7.8 Consensus size: 40
34455741 TTTTGTTACT
* * * * *
34455751 ATTAGCGGCGCTTCGGCAAAAACGCCGCTAAAGGTCAATAC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCGA-GC
* * * * *
34455792 ATTAGCGGCGCTTAGATACAAATGCCGCTGAAGA-CAAGAGA
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATC--GAGC
* * ** *
34455833 ATTAGTGGCGCTCAGTTAAAAACGCCGCTAAAGATCCGAGT
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAT-CGAGC
*
34455874 ATTAGCGGCGCTT-GTATAAAAACGCCGCTAAAGATCCGAGC
1 ATTAGCGGCGCTTAG-ACAAAAACGCCGCTAAAGAT-CGAGC
*
34455915 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGATCCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGAT-CGAGC
* * *
34455956 ATTAGCGGCGCCTACACGAAAACGCCGCTAAAGACTCGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGA-TCGAGC
* *
34455997 ATTAGCGGCGCCTAGACAAAAATGCCGCTAAAGATCGGAGC
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATC-GAGC
*
34456038 ATTAGCGGCGCTTACACAAAAACGCCGCTAAAG
1 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
34456071 GTTTAAAAAA
Statistics
Matches: 239, Mismatches: 32, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
40 4 0.02
41 231 0.97
42 3 0.01
43 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.25, T:0.16
Consensus pattern (40 bp):
ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGATCGAGC
Found at i:34456240 original size:40 final size:40
Alignment explanation
Indices: 34456128--34456243 Score: 121
Period size: 40 Copynumber: 2.9 Consensus size: 40
34456118 GCGCTTTATG
* * *
34456128 TAAAACGCCACTAATTC-CTATTTTTAGCGGCGCTTCTGGA
1 TAAATCGCCGCTAATGCTCTATTTTTAGCGGCGCTT-TGGA
**
34456168 T-AATCGCCGCTGAA-GCTCTACCTTTAGCGGCGCTTTGGA
1 TAAATCGCCGCT-AATGCTCTATTTTTAGCGGCGCTTTGGA
* * *
34456207 TAAATCGCCGCTAATGCTCGATTTTTTGTGGCGCTTT
1 TAAATCGCCGCTAATGCTCTATTTTTAGCGGCGCTTT
34456244 TGTTCCAAAC
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
39 16 0.26
40 46 0.74
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.34
Consensus pattern (40 bp):
TAAATCGCCGCTAATGCTCTATTTTTAGCGGCGCTTTGGA
Found at i:34471633 original size:23 final size:24
Alignment explanation
Indices: 34471594--34471639 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
34471584 AATATAATAA
34471594 TTGACCCAGTAATCGTTATTCTAT
1 TTGACCCAGTAATCGTTATTCTAT
34471618 TTGACCCA-TAATCGTTATTCTA
1 TTGACCCAGTAATCGTTATTCTA
34471640 CACGTTTACC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (24 bp):
TTGACCCAGTAATCGTTATTCTAT
Found at i:34475116 original size:16 final size:16
Alignment explanation
Indices: 34475095--34475125 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
34475085 TGCTTTTGAC
34475095 CAAGAATAAAAGGAAG
1 CAAGAATAAAAGGAAG
34475111 CAAGAATAAAAGGAA
1 CAAGAATAAAAGGAA
34475126 AAAATTGACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.23, T:0.06
Consensus pattern (16 bp):
CAAGAATAAAAGGAAG
Found at i:34477220 original size:14 final size:14
Alignment explanation
Indices: 34477201--34477240 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
34477191 TTGATTGCCA
34477201 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
34477215 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
34477229 GGAAAATGTTTT
1 GTAAAATGTTTT
34477241 ACTTTTTTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:34477375 original size:252 final size:252
Alignment explanation
Indices: 34476924--34477434 Score: 941
Period size: 252 Copynumber: 2.0 Consensus size: 252
34476914 AGTGAGAAAC
*
34476924 TAATTCAGGGTCTGTTTGATTGCCAGTAAAATATTTTCCGTAAAATGATTTCTGGAAAATGTTTT
1 TAATTAAGGGTCTGTTTGATTGCCAGTAAAATATTTTCCGTAAAATGATTTCTGGAAAATGTTTT
34476989 ACTTTTTTGTAAAATGATTTACTTGTAAATATTATCTGGTGTTTGATTAAATCTATGTAAAATAT
66 ACTTTTTTGTAAAATGATTTACTTGTAAATATTATCTGGTGTTTGATTAAATCTATGTAAAATAT
*
34477054 TTTCTACTGTTTGGCAGATTTTCGGAAAATATTTTCCGGAAAATTTGTTTTTACATATATTAATA
131 TTTCTACTGTTTGGCAGATTTTCGGAAAATATTTTCCGGAAAAGTTGTTTTTACATATATTAATA
34477119 TATTAATAAATTTTTATATTTTAAATTGTTTTTACATATATTGCAATGATTTATTTA
196 TATTAATAAATTTTTATATTTTAAATTGTTTTTACATATATTGCAATGATTTATTTA
*
34477176 TAATTAAGGGTCTGTTTGATTGCCAGTAAAATGTTTTCCGTAAAATGATTTCTGGAAAATGTTTT
1 TAATTAAGGGTCTGTTTGATTGCCAGTAAAATATTTTCCGTAAAATGATTTCTGGAAAATGTTTT
* * *
34477241 ACTTTTTTGTAAAATGATTTACTTGTAAATATTTTCTGGTGTTTGATTGAATCTGTGTAAAATAT
66 ACTTTTTTGTAAAATGATTTACTTGTAAATATTATCTGGTGTTTGATTAAATCTATGTAAAATAT
* * *
34477306 TTTCTGCTGTTTGGCAGATTTTCTGAAAATATTTTTCGGAAAAGTTGTTTTTACATATATTAATA
131 TTTCTACTGTTTGGCAGATTTTCGGAAAATATTTTCCGGAAAAGTTGTTTTTACATATATTAATA
34477371 TATTAATAAATTTTTATATTTTAAATTGTTTTTACATATATTGCAATGATTTATTTA
196 TATTAATAAATTTTTATATTTTAAATTGTTTTTACATATATTGCAATGATTTATTTA
34477428 TAATTAA
1 TAATTAA
34477435 ATAAATCAAA
Statistics
Matches: 250, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
252 250 1.00
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (252 bp):
TAATTAAGGGTCTGTTTGATTGCCAGTAAAATATTTTCCGTAAAATGATTTCTGGAAAATGTTTT
ACTTTTTTGTAAAATGATTTACTTGTAAATATTATCTGGTGTTTGATTAAATCTATGTAAAATAT
TTTCTACTGTTTGGCAGATTTTCGGAAAATATTTTCCGGAAAAGTTGTTTTTACATATATTAATA
TATTAATAAATTTTTATATTTTAAATTGTTTTTACATATATTGCAATGATTTATTTA
Found at i:34484710 original size:18 final size:17
Alignment explanation
Indices: 34484682--34484716 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34484672 ATTATTAAGA
*
34484682 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34484699 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34484717 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34484923 original size:44 final size:45
Alignment explanation
Indices: 34484874--34484965 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 45
34484864 TTACACCTCT
* *
34484874 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
34484918 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
34484963 ATT
1 ATT
34484966 TTGCATGTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.43
45 24 0.57
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:34485436 original size:98 final size:98
Alignment explanation
Indices: 34485328--34485522 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
34485318 TTAAAAATCA
* * *
34485328 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACATATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
*
34485393 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAT
66 TTAAATCTTAGATAAGTGGATGTTCTTTTAAAT
*
34485426 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
34485491 TTAAATCTTAGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTAGATAAGTGGATGTTCTTTTAAA
34485523 GTTTTATTGC
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACATATTGGGTGTGATTTC
TTAAATCTTAGATAAGTGGATGTTCTTTTAAAT
Found at i:34487229 original size:24 final size:24
Alignment explanation
Indices: 34487202--34487248 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
34487192 CAATATAATG
34487202 TGATTCATTAATAAGATCATTTTA
1 TGATTCATTAATAAGATCATTTTA
*
34487226 TGATTCATTAATAATATCATTTT
1 TGATTCATTAATAAGATCATTTT
34487249 GCTACAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (24 bp):
TGATTCATTAATAAGATCATTTTA
Found at i:34488230 original size:18 final size:18
Alignment explanation
Indices: 34488207--34488250 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
34488197 CTTCGAAACA
* **
34488207 GGAAAGGGAAGGGGTTGG
1 GGAAAGGGAAGGAGAAGG
34488225 GGAAAGGGAAGGAGAAGG
1 GGAAAGGGAAGGAGAAGG
34488243 GGAAAGGG
1 GGAAAGGG
34488251 GAGAAGAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.59, T:0.05
Consensus pattern (18 bp):
GGAAAGGGAAGGAGAAGG
Found at i:34488258 original size:18 final size:18
Alignment explanation
Indices: 34488223--34488258 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
34488213 GGAAGGGGTT
*
34488223 GGGGAAAGGGAAGGAGAA
1 GGGGAAAGGGAAGAAGAA
*
34488241 GGGGAAAGGGGAGAAGAA
1 GGGGAAAGGGAAGAAGAA
34488259 TGGGTCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (18 bp):
GGGGAAAGGGAAGAAGAA
Found at i:34493561 original size:30 final size:30
Alignment explanation
Indices: 34493525--34493584 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
34493515 AAATTAAAGT
*
34493525 TTAGATGATCGTGACTTGACATTTATGATA
1 TTAGATGATCGTGACTTGAAATTTATGATA
**
34493555 TTAGATGATTTTGACTTGAAATTTATGATA
1 TTAGATGATCGTGACTTGAAATTTATGATA
34493585 AAACGATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (30 bp):
TTAGATGATCGTGACTTGAAATTTATGATA
Found at i:34500345 original size:13 final size:13
Alignment explanation
Indices: 34500327--34500352 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34500317 CAGTGACTTG
34500327 CTTAATCTTCCTT
1 CTTAATCTTCCTT
34500340 CTTAATCTTCCTT
1 CTTAATCTTCCTT
34500353 TTAGATACAG
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:0.15, C:0.31, G:0.00, T:0.54
Consensus pattern (13 bp):
CTTAATCTTCCTT
Found at i:34500705 original size:88 final size:88
Alignment explanation
Indices: 34500554--34500725 Score: 317
Period size: 88 Copynumber: 2.0 Consensus size: 88
34500544 TGCTTAATGC
* *
34500554 TCTCAGGTTTAAGCAAGAAAAATCTAGGAAAGCTGAACACATATGAAACAATTTGCGATGAACAA
1 TCTCAGGTTTAAACAAGAAAAATCTAGGAAAGCTGAACACATATGAAACAATTTGCGACGAACAA
34500619 ATCCCGCAATTTCTCAAGAACTT
66 ATCCCGCAATTTCTCAAGAACTT
*
34500642 TCTCAGGTTTAAACAAGAAAAATCTAGGAAAGCTGAACGCATATGAAACAATTTGCGACGAACAA
1 TCTCAGGTTTAAACAAGAAAAATCTAGGAAAGCTGAACACATATGAAACAATTTGCGACGAACAA
34500707 ATCCCGCAATTTCTCAAGA
66 ATCCCGCAATTTCTCAAGA
34500726 GCTCTATATT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (88 bp):
TCTCAGGTTTAAACAAGAAAAATCTAGGAAAGCTGAACACATATGAAACAATTTGCGACGAACAA
ATCCCGCAATTTCTCAAGAACTT
Found at i:34501099 original size:23 final size:23
Alignment explanation
Indices: 34501052--34501116 Score: 94
Period size: 23 Copynumber: 2.7 Consensus size: 23
34501042 AGATAAACTC
34501052 ACCGGCAGAGGGCAGAGGAACAAAGA
1 ACCGGCAGAGGGC--A-GAACAAAGA
34501078 ACCGGCAGAGGGCAGAACAAAGA
1 ACCGGCAGAGGGCAGAACAAAGA
*
34501101 ACTGGCAGAGGGCAGA
1 ACCGGCAGAGGGCAGA
34501117 GATGAGGGCA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
23 24 0.63
24 1 0.03
26 13 0.34
ACGTcount: A:0.40, C:0.20, G:0.38, T:0.02
Consensus pattern (23 bp):
ACCGGCAGAGGGCAGAACAAAGA
Found at i:34501116 original size:30 final size:30
Alignment explanation
Indices: 34501081--34501163 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
34501071 ACAAAGAACC
* **
34501081 GGCAGAGGGCAGAACAAAGAACTGGCAGAG
1 GGCAGAGAGCAGAACAAAGAACCAGCAGAG
**
34501111 GGCAGAGATG-AGGGCAAAGAACCAGCAGAG
1 GGCAGAGA-GCAGAACAAAGAACCAGCAGAG
34501141 GGCAGAGAGCAGAGAGCAAAGAA
1 GGCAGAGAGCAGA-A-CAAAGAA
34501164 GGACGTTCGT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
29 1 0.02
30 33 0.79
31 1 0.02
32 7 0.17
ACGTcount: A:0.42, C:0.16, G:0.40, T:0.02
Consensus pattern (30 bp):
GGCAGAGAGCAGAACAAAGAACCAGCAGAG
Found at i:34504669 original size:26 final size:26
Alignment explanation
Indices: 34504599--34504695 Score: 115
Period size: 26 Copynumber: 3.7 Consensus size: 26
34504589 TTGAAATGTG
* *
34504599 GGAAGTCCATCAGGACTATCTTATGT
1 GGAAGTCCGTCAGGACTATCTTTTGT
* *
34504625 GAAAGTCCG-CTAGGGCTATCTTTTGT
1 GGAAGTCCGTC-AGGACTATCTTTTGT
*
34504651 GGAAGTCCGTCAAGACTATCTTTTGT
1 GGAAGTCCGTCAGGACTATCTTTTGT
* *
34504677 GGAAGTCTGTTAGGACTAT
1 GGAAGTCCGTCAGGACTAT
34504696 TTGAAATGCG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.02
26 57 0.97
27 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.33
Consensus pattern (26 bp):
GGAAGTCCGTCAGGACTATCTTTTGT
Found at i:34509726 original size:23 final size:23
Alignment explanation
Indices: 34509699--34509810 Score: 86
Period size: 23 Copynumber: 4.8 Consensus size: 23
34509689 GACTCACCAT
34509699 AGCTCGTATGAGCTTACCATTTC
1 AGCTCGTATGAGCTTACCATTTC
* **
34509722 AGCTCTTATGAGCTTACTGTTTC
1 AGCTCGTATGAGCTTACCATTTC
* *
34509745 AGCTC-TACGGAGCTTA-CGTTTC
1 AGCTCGTA-TGAGCTTACCATTTC
*
34509767 AACTCG-ATAGAGCTTACCATTCATC
1 AGCTCGTAT-GAGCTTACCATT--TC
* *
34509792 AACTCGGAATGAGCTTACC
1 AGCTC-GTATGAGCTTACC
34509811 GATCATGGCT
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
22 19 0.26
23 35 0.48
25 7 0.10
26 10 0.14
27 2 0.03
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (23 bp):
AGCTCGTATGAGCTTACCATTTC
Found at i:34509779 original size:22 final size:23
Alignment explanation
Indices: 34509731--34509783 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
34509721 CAGCTCTTAT
* * *
34509731 GAGCTTACTGTTTCAGCTCTACG
1 GAGCTTACTGTTTCAACTCGACA
*
34509754 GAGCTTAC-GTTTCAACTCGATA
1 GAGCTTACTGTTTCAACTCGACA
34509776 GAGCTTAC
1 GAGCTTAC
34509784 CATTCATCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (23 bp):
GAGCTTACTGTTTCAACTCGACA
Found at i:34517989 original size:342 final size:342
Alignment explanation
Indices: 34517364--34518052 Score: 1254
Period size: 342 Copynumber: 2.0 Consensus size: 342
34517354 TAAACCCTTA
34517364 ACCATTAACCGAACCGAACTTTTTCAGTTAATTTGGTCGATTAACCGAAATAACTGAAATTTATA
1 ACCATTAACCGAACCGAACTTTTTCAGTTAATTTGGTCGATTAACCGAAATAACTGAAATTTATA
34517429 TGTTTTTTTGTTTTTTTGGTAAAAACAAGTGTAAAACATATAAATTTTTTTATATAAAAATATAA
66 TGTTTTTTTGTTTTTTTGGTAAAAACAAGTGTAAAACATATAAATTTTTTTATATAAAAATATAA
** *
34517494 AATTTTGGTTAATTCAGTTAATTAATTGATTTTGAACTGAATTAACCGTTAACCAGACTTTTAAA
131 AATTTTGGTTAATTCAGTTAATTAACCGATTTCGAACTGAATTAACCGTTAACCAGACTTTTAAA
* * * *
34517559 ATTTATTAATCGACCTTTGACTGAATTAATTCAGCTAACTGACTGATTAACTGAATTCAGTCAAT
196 ATTTATTAATCGACCTTTGACCGAATTAATCCAGCTAACTGACTGATTAAATAAATTCAGTCAAT
34517624 TAACCGAATTAATTCGATTTTACCCAAAATTTGCACACCCATACTCGTAAGCTGTCTCAGTGCAA
261 TAACCGAATTAATTCGATTTTACCCAAAATTTGCACACCCATACTCGTAAGCTGTCTCAGTGCAA
34517689 TTCCGTATTCTTTTAGC
326 TTCCGTATTCTTTTAGC
* *
34517706 ACCATTAACCGAATCGAACTTTTTCAGTTAATTTGGTCGATTAACCGAAATAATTGAAATTTATA
1 ACCATTAACCGAACCGAACTTTTTCAGTTAATTTGGTCGATTAACCGAAATAACTGAAATTTATA
*
34517771 T-TTTTTTTGTTTTTTTTGGTAAAAACAAGTGTAAAACATATAATTTTTTTTATATAAAAATATA
66 TGTTTTTTTG-TTTTTTTGGTAAAAACAAGTGTAAAACATATAAATTTTTTTATATAAAAATATA
*
34517835 AAATTTTGGTTAATTTAGTTAATTAACCGATTTCGAACTGAATTAACCGTTAACCAGACTTTTAA
130 AAATTTTGGTTAATTCAGTTAATTAACCGATTTCGAACTGAATTAACCGTTAACCAGACTTTTAA
*
34517900 AATTTATTAATCGACCTTTGACCGAATTAATCCAGTTAACTGACTGATTAAATAAATTCAGTCAA
195 AATTTATTAATCGACCTTTGACCGAATTAATCCAGCTAACTGACTGATTAAATAAATTCAGTCAA
34517965 TTAACCGAATTAATTCGATTTTACCCAAAATTTGCACACCCATACTCGTAAGCTGTCTCAGTGCA
260 TTAACCGAATTAATTCGATTTTACCCAAAATTTGCACACCCATACTCGTAAGCTGTCTCAGTGCA
34518030 ATTCCGTATTCTTTTAGC
325 ATTCCGTATTCTTTTAGC
34518048 ACCAT
1 ACCAT
34518053 ACAAAAGAAA
Statistics
Matches: 334, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
341 8 0.02
342 326 0.98
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (342 bp):
ACCATTAACCGAACCGAACTTTTTCAGTTAATTTGGTCGATTAACCGAAATAACTGAAATTTATA
TGTTTTTTTGTTTTTTTGGTAAAAACAAGTGTAAAACATATAAATTTTTTTATATAAAAATATAA
AATTTTGGTTAATTCAGTTAATTAACCGATTTCGAACTGAATTAACCGTTAACCAGACTTTTAAA
ATTTATTAATCGACCTTTGACCGAATTAATCCAGCTAACTGACTGATTAAATAAATTCAGTCAAT
TAACCGAATTAATTCGATTTTACCCAAAATTTGCACACCCATACTCGTAAGCTGTCTCAGTGCAA
TTCCGTATTCTTTTAGC
Found at i:34524965 original size:27 final size:27
Alignment explanation
Indices: 34524946--34525247 Score: 352
Period size: 27 Copynumber: 11.2 Consensus size: 27
34524936 GGGTATAACA
*
34524946 GTCATTCTACCTTATGGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
*
34524973 GTCATTCTACCTTATGGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* *
34525000 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* * * **
34525027 GTCATTTTATCCTATAGGGGTATTTTA
1 GTCATTCTACCCTATGGGGGTATTTCG
* * *
34525054 GTCATTTTACCCTATGGGGATATTTTG
1 GTCATTCTACCCTATGGGGGTATTTCG
* * **
34525081 ATCATTTTATTCTATGGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* *
34525108 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
*
34525135 GTCATTCTACCCTATAGGGGTATTTCG
1 GTCATTCTACCCTATGGGGGTATTTCG
* * * *
34525162 ATCATTCTACCTTATGGAGGTATTTCA
1 GTCATTCTACCCTATGGGGGTATTTCG
*
34525189 GTCATTCTACCCTATGGGGGTATTTTG
1 GTCATTCTACCCTATGGGGGTATTTCG
* * * *
34525216 GTCATTTTATCCTATGGAGGTATTTTG
1 GTCATTCTACCCTATGGGGGTATTTCG
34525243 GTCAT
1 GTCAT
34525248 AACAGTGTAA
Statistics
Matches: 238, Mismatches: 37, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 238 1.00
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (27 bp):
GTCATTCTACCCTATGGGGGTATTTCG
Found at i:34528846 original size:6 final size:6
Alignment explanation
Indices: 34528835--34528863 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
34528825 TTGATACAAA
34528835 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
34528864 CTAACAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:34538598 original size:11 final size:11
Alignment explanation
Indices: 34538582--34538618 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
34538572 ATATCATTCT
34538582 CCACCACTTCA
1 CCACCACTTCA
34538593 CCACCA-TTGCA
1 CCACCACTT-CA
34538604 CCACCACTTCA
1 CCACCACTTCA
34538615 CCAC
1 CCAC
34538619 TGCCAGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.08
11 20 0.83
12 2 0.08
ACGTcount: A:0.27, C:0.54, G:0.03, T:0.16
Consensus pattern (11 bp):
CCACCACTTCA
Found at i:34539696 original size:24 final size:24
Alignment explanation
Indices: 34539650--34539697 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
34539640 TTTACTGCAA
**
34539650 TATTGAGTGGCTTGGTCACAACGT
1 TATTGAGTGGCTTGACCACAACGT
*
34539674 TATTGAGTGGCTTGACCATAACGT
1 TATTGAGTGGCTTGACCACAACGT
34539698 GCAGCTTGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAACGT
Found at i:34539784 original size:24 final size:24
Alignment explanation
Indices: 34539713--34539784 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
34539703 TTGTCTGTGA
*
34539713 TATTGAGTGGCTTGACCACAATGC
1 TATTGAGTGGCTTGACCACAATGT
*
34539737 TATTGAGTGGCTTGGCCACAATGT
1 TATTGAGTGGCTTGACCACAATGT
* * *
34539761 TATTGAGTGACTTCACCATAATGT
1 TATTGAGTGGCTTGACCACAATGT
34539785 GCATCTTGTC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAATGT
Found at i:34539796 original size:87 final size:87
Alignment explanation
Indices: 34539650--34539820 Score: 270
Period size: 87 Copynumber: 2.0 Consensus size: 87
34539640 TTTACTGCAA
* * * *
34539650 TATTGAGTGGCTTGGTCACAACGTTATTGAGTGGCTTGACCATAACGTGCAGCTTGTCTGTGATA
1 TATTGAGTGGCTTGGCCACAACGTTATTGAGTGACTTCACCATAACGTGCAGCTTGTCTGCGATA
34539715 TTGAGTGGCTTGACCACAATGC
66 TTGAGTGGCTTGACCACAATGC
* * *
34539737 TATTGAGTGGCTTGGCCACAATGTTATTGAGTGACTTCACCATAATGTGCATCTTGTCTGCGATA
1 TATTGAGTGGCTTGGCCACAACGTTATTGAGTGACTTCACCATAACGTGCAGCTTGTCTGCGATA
*
34539802 TTGAGTGGCTTGGCCACAA
66 TTGAGTGGCTTGACCACAA
34539821 CGTGGAGTGT
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 76 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (87 bp):
TATTGAGTGGCTTGGCCACAACGTTATTGAGTGACTTCACCATAACGTGCAGCTTGTCTGCGATA
TTGAGTGGCTTGACCACAATGC
Found at i:34545848 original size:19 final size:20
Alignment explanation
Indices: 34545818--34545855 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
34545808 GTATGCTTTT
34545818 GTTTGCTTCCATCTTTTGTA
1 GTTTGCTTCCATCTTTTGTA
*
34545838 GTTTG-TTCCATTTTTTGT
1 GTTTGCTTCCATCTTTTGT
34545856 TCAAAAGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.08, C:0.16, G:0.16, T:0.61
Consensus pattern (20 bp):
GTTTGCTTCCATCTTTTGTA
Found at i:34559457 original size:27 final size:27
Alignment explanation
Indices: 34559426--34559603 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34559416 TAAATTGTAC
34559426 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34559453 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34559479 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34559507 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34559535 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34559562 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34559589 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34559604 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34559540 original size:82 final size:81
Alignment explanation
Indices: 34559427--34559582 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34559417 AAATTGTACA
* *
34559427 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34559491 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
34559508 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
34559573 TGCGAGTTGA
65 TGCGAATTGA
34559583 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34559594 original size:82 final size:81
Alignment explanation
Indices: 34559423--34559603 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
34559413 GATTAAATTG
* *
34559423 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34559488 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
34559504 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34559568 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34559586 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34559604 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34567520 original size:27 final size:27
Alignment explanation
Indices: 34567489--34567666 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34567479 TAAATTGTAC
34567489 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34567516 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34567542 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34567570 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34567598 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34567625 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34567652 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34567667 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34567603 original size:82 final size:81
Alignment explanation
Indices: 34567490--34567645 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34567480 AAATTGTACA
* *
34567490 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34567554 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
34567571 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
34567636 TGCGAGTTGA
65 TGCGAATTGA
34567646 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34567657 original size:82 final size:81
Alignment explanation
Indices: 34567486--34567666 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
34567476 GATTAAATTG
* *
34567486 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34567551 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
34567567 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34567631 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34567649 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34567667 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34578040 original size:15 final size:15
Alignment explanation
Indices: 34578020--34578063 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
34578010 CCATAATAGT
34578020 CACATATCATATAAA
1 CACATATCATATAAA
* *
34578035 CACATATCACAATACA
1 CACATATCA-TATAAA
34578051 CACATATTCATAT
1 CACATA-TCATAT
34578064 TTTAAGATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 9 0.38
16 12 0.50
17 3 0.12
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (15 bp):
CACATATCATATAAA
Found at i:34579287 original size:24 final size:23
Alignment explanation
Indices: 34579246--34579291 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
34579236 GCCCGCATAC
* *
34579246 ACAAAGAAAATAATAAACCAAAT
1 ACAAAAAAAATAACAAACCAAAT
34579269 ACAAAAAAATATAACAAACCAAA
1 ACAAAAAAA-ATAACAAACCAAA
34579292 GCCCAGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.72, C:0.15, G:0.02, T:0.11
Consensus pattern (23 bp):
ACAAAAAAAATAACAAACCAAAT
Found at i:34579665 original size:22 final size:22
Alignment explanation
Indices: 34579637--34579683 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
34579627 AGGTAGTTTT
*
34579637 TTTATTTTGGCTTA-TTTATTTA
1 TTTATTTT-GATTATTTTATTTA
*
34579659 TTTATTTTTATTATTTTATTTA
1 TTTATTTTGATTATTTTATTTA
34579681 TTT
1 TTT
34579684 TAAAGAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.74
Consensus pattern (22 bp):
TTTATTTTGATTATTTTATTTA
Found at i:34580653 original size:9 final size:8
Alignment explanation
Indices: 34580613--34580672 Score: 52
Period size: 9 Copynumber: 7.0 Consensus size: 8
34580603 ACTTCGTTAC
34580613 TATTATTAT
1 TATT-TTAT
34580622 TATTATTAT
1 TATT-TTAT
34580631 TATTTTA-
1 TATTTTAT
34580638 TAGTTTTCAT
1 TA-TTTT-AT
34580648 TATTTTAT
1 TATTTTAT
34580656 T-TATTTAT
1 TAT-TTTAT
34580664 ATATTTTAT
1 -TATTTTAT
34580673 GCCAAATTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
7 3 0.07
8 15 0.33
9 24 0.53
10 3 0.07
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (8 bp):
TATTTTAT
Found at i:34584431 original size:241 final size:241
Alignment explanation
Indices: 34584008--34584491 Score: 923
Period size: 241 Copynumber: 2.0 Consensus size: 241
34583998 AATTCTGTAT
34584008 TAGAGTTGAAAGCAAGTTTAAGCAAGATTGAAAAGATGAAGAGCAGAATAGAAGAGTTAGAAACA
1 TAGAGTTGAAAGCAAGTTTAAGCAAGATTGAAAAGATGAAGAGCAGAATAGAAGAGTTAGAAACA
34584073 ACATTGCGAAATTGTAAGGTCCGAATAGAGAACCTGGAAGCAAATTAGAGTCGTCAGACTGAGCA
66 ACATTGCGAAATTGTAAGGTCCGAATAGAGAACCTGGAAGCAAATTAGAGTCGTCAGACTGAGCA
34584138 ACTTCATTACTTTCAAAATCAAGTTAGAAACAGGGATCATATTATGGGAAAAGCTGTGGTTCAGA
131 ACTTCATTACTTTCAAAATCAAGTTAGAAACAGGGATCATATTATGGGAAAAGCTGTGGTTCAGA
*
34584203 TTCGAGAGGTAGCAGATTACCAGCAAACTTTGGCAATACAGGCTAA
196 TTCGAGAGATAGCAGATTACCAGCAAACTTTGGCAATACAGGCTAA
* *
34584249 TAGAGTTGAATGCAAGTTTAAGCAAGATTGAAGAGATGAAGAGCAGAATAGAAGAGTTAGAAACA
1 TAGAGTTGAAAGCAAGTTTAAGCAAGATTGAAAAGATGAAGAGCAGAATAGAAGAGTTAGAAACA
*
34584314 ACATTGCGAAATTGTGAGGTCCGAATAGAGAACCTGGAAGCAAATTAGAGTCGTCAGACTGAGCA
66 ACATTGCGAAATTGTAAGGTCCGAATAGAGAACCTGGAAGCAAATTAGAGTCGTCAGACTGAGCA
34584379 ACTTCATTACTTTCAAAATCAAGTTAGAAACAGGGATCATATTATGGGAAAAGCTGTGGTTCAGA
131 ACTTCATTACTTTCAAAATCAAGTTAGAAACAGGGATCATATTATGGGAAAAGCTGTGGTTCAGA
*
34584444 TTCGAGAGATAGCAGATTACCTGCAAACTTTGGCAATACAGGCTAA
196 TTCGAGAGATAGCAGATTACCAGCAAACTTTGGCAATACAGGCTAA
34584490 TA
1 TA
34584492 CGTTGATTGT
Statistics
Matches: 238, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
241 238 1.00
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (241 bp):
TAGAGTTGAAAGCAAGTTTAAGCAAGATTGAAAAGATGAAGAGCAGAATAGAAGAGTTAGAAACA
ACATTGCGAAATTGTAAGGTCCGAATAGAGAACCTGGAAGCAAATTAGAGTCGTCAGACTGAGCA
ACTTCATTACTTTCAAAATCAAGTTAGAAACAGGGATCATATTATGGGAAAAGCTGTGGTTCAGA
TTCGAGAGATAGCAGATTACCAGCAAACTTTGGCAATACAGGCTAA
Found at i:34584637 original size:13 final size:14
Alignment explanation
Indices: 34584619--34584647 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34584609 AAGAAATGTA
34584619 TTTTCT-AATAAAG
1 TTTTCTGAATAAAG
34584632 TTTTCTGAATAAAG
1 TTTTCTGAATAAAG
34584646 TT
1 TT
34584648 GAATTAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (14 bp):
TTTTCTGAATAAAG
Found at i:34588349 original size:12 final size:12
Alignment explanation
Indices: 34588332--34588357 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34588322 TGAGCCAATA
34588332 TTCTTTTATTCT
1 TTCTTTTATTCT
34588344 TTCTTTTATTCT
1 TTCTTTTATTCT
34588356 TT
1 TT
34588358 TAGATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (12 bp):
TTCTTTTATTCT
Found at i:34592319 original size:26 final size:26
Alignment explanation
Indices: 34592285--34592338 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
34592275 TTCGTATTAC
*
34592285 TTGTTGTTCTTGGAATACTTTATTCT
1 TTGTCGTTCTTGGAATACTTTATTCT
*
34592311 TTGTCGTTCTTGGAATACTTTGTTCT
1 TTGTCGTTCTTGGAATACTTTATTCT
34592337 TT
1 TT
34592339 TCAAGATACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.13, C:0.13, G:0.17, T:0.57
Consensus pattern (26 bp):
TTGTCGTTCTTGGAATACTTTATTCT
Found at i:34593381 original size:45 final size:44
Alignment explanation
Indices: 34593221--34593697 Score: 314
Period size: 44 Copynumber: 10.9 Consensus size: 44
34593211 CGGTGAAACC
* * *
34593221 ACAAATTCTATCTCCCTCAAGTTGCAGTGGAGTGGATTGAAGAT
1 ACAAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAGAT
34593265 ACAAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAGAT
1 ACAAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAGAT
* * *
34593309 ACAAATCCCATCTCCCTAAAGTTGCAGTAGAGCGGACTGAAGAT
1 ACAAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAGAT
* * * *
34593353 AGCAAATCTTATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGAT
1 A-CAAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAGAT
* * * **
34593398 AGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATT-AA-A-
1 A-CAAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAGAT
* * **
34593440 ACCAATAATCCTATCTCCTTGAAGTTGCAGTGGAGCAAATT-AA-ACT
1 A-C-A-AATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAGA-T
* * * * * * *
34593486 AACAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATTG--CAT
1 -ACAAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAGAT
* * * * * * *
34593528 -CTAGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACT-AAGCAA
1 ACAAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAG-AT
** * * * *
34593571 ACAGCTCTTATCCCCCTAAAGCTGCAGTAGG-GCAGATTGAAGAT
1 ACAAATCCTATCTCCCTAAAGTTGCAGT-GGAGCGGATTGAAGAT
** * * *
34593615 GACGTATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-AT
1 -ACAAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAGAT
* * * * *
34593658 TCAATAATCCTATCTCCCTGAAGTTGTAGCGAAGCGGATT
1 AC-A-AATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATT
34593698 AAAATGATAG
Statistics
Matches: 357, Mismatches: 57, Indels: 38
0.79 0.13 0.08
Matches are distributed among these distances:
40 21 0.06
41 8 0.02
42 3 0.01
43 14 0.04
44 202 0.57
45 107 0.30
46 1 0.00
47 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
ACAAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAGAT
Found at i:34593560 original size:84 final size:87
Alignment explanation
Indices: 34593229--34593683 Score: 311
Period size: 89 Copynumber: 5.2 Consensus size: 87
34593219 CCACAAATTC
* * ** * ** * *
34593229 TATCTCCCTCAAGTTGCAGTGGAGTGGATTGAAGATACAAATCCTATCTCCCTAAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTG-ACATACGTATCTTATCTCCCTGAAGTTGCAGTG
* * *
34593294 GAGCGGATTGAAGA-T-ACAAATCC
65 GAGCAGATT-AA-ACTAACAGATCT
* * * * * ** *
34593317 CATCTCCCTAAAGTTGCAGTAGAGCGGACTGAAGATAGCAAATCTTATCTCCCTGAAGTAGCAGT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTG-ACATA-CGTATCTTATCTCCCTGAAGTTGCAGT
*
34593382 GGAGCAGATTGAAGA-TAGA-AAATCT
64 GGAGCAGATT-AA-ACTA-ACAGATCT
* * * * * *
34593407 TATCTCCCTGAAGTTGCAGTGGAGCAAATT-A-AAACCAATAATCCTATCTCCTTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTGACATA-C-GT-ATCTTATCTCCCTGAAGTTGCAG
*
34593470 TGGAGCAAATTAAACTAACAGATCT
63 TGGAGCAGATTAAACTAACAGATCT
* * *
34593495 TATCTCTCTGAAGTTGCAG-AGAGCAGATTG-CAT-C-TAGTCTTATCTCCCTAAAGTTGCAGCG
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTGACATACGTA-TCTTATCTCCCTGAAGTTGCAGTG
* * * *
34593556 GAGCAGACTAAGCAAACAGCTCT
65 GAGCAGATTAAACTAACAGATCT
* * * * *
34593579 TATCCCCCTAAAGCTGCAGTAGGGCAGATTGAAGATGACGTATCTTATCTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTG-ACAT-ACGTATCTTATCTCCCTGAAGTTGCAGT
* * *
34593644 GGAGCAGATTAAATTCAATA-ATCC
64 GGAGCAGATTAAACT-AACAGATCT
34593668 TATCTCCCTGAAGTTG
1 TATCTCCCTGAAGTTG
34593684 TAGCGAAGCG
Statistics
Matches: 295, Mismatches: 55, Indels: 33
0.77 0.14 0.09
Matches are distributed among these distances:
83 1 0.00
84 54 0.18
85 10 0.03
86 1 0.00
87 15 0.05
88 62 0.21
89 117 0.40
90 34 0.12
91 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (87 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGATTGACATACGTATCTTATCTCCCTGAAGTTGCAGTGG
AGCAGATTAAACTAACAGATCT
Found at i:34593630 original size:217 final size:216
Alignment explanation
Indices: 34593318--34593817 Score: 673
Period size: 217 Copynumber: 2.3 Consensus size: 216
34593308 TACAAATCCC
** * * *
34593318 ATCTCCCTAAAGTTGCAGTAGAGCGGACTGAAG-ATAGCAAATCTTATCTCCCTGAAGTAGCAGT
1 ATCTCCCTAAAGTTGCAGCGGAGCAGACT-AAGCA-AGCAGATCTTATCCCCCTGAAGT-GCAGT
34593382 GGAGCAGATTGAAGATAGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACCAATA
63 GGAGCAGATTGAAGATAGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACCAATA
* * * * *
34593447 ATCCTATCTCCTTGAAGTTGCAGTGGAGCAAATTAAACTAACAGATCTTATCTCTCTGAAGTTGC
128 ATCCTATCTCCCTGAAGTTGCAGCGAAGCAAATTAAAATAACAGATCTTATCTCTCTGAAGTTGA
*
34593512 AGAGAGCAGATTGCATCTAGTCTT
193 AGAGAGCAGATCGCATCTAGTCTT
* * *
34593536 ATCTCCCTAAAGTTGCAGCGGAGCAGACTAAGCAAACAGCTCTTATCCCCCTAAAGCTGCAGTAG
1 ATCTCCCTAAAGTTGCAGCGGAGCAGACTAAGCAAGCAGATCTTATCCCCCTGAAG-TGCAGT-G
** * **
34593601 G-GCAGATTGAAGAT-GACGTATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATTCAATA
64 GAGCAGATTGAAGATAGA-AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACCAATA
* ** * *
34593664 ATCCTATCTCCCTGAAGTTGTAGCGAAGCGGATTAAAATGATAGATCTTATCTCTCTGAAGTTGA
128 ATCCTATCTCCCTGAAGTTGCAGCGAAGCAAATTAAAATAACAGATCTTATCTCTCTGAAGTTGA
34593729 AGAGAGCAGATCGCATCTAGTCTT
193 AGAGAGCAGATCGCATCTAGTCTT
* * *
34593753 ATCTCCCTGAAGTTGTAGCGGAGCAGACTAAGCAAGCAGATCTTATACCCCTGAAGTTGCAGTGG
1 ATCTCCCTAAAGTTGCAGCGGAGCAGACTAAGCAAGCAGATCTTATCCCCCTGAAG-TGCAGTGG
34593818 TGCAAACAGA
Statistics
Matches: 247, Mismatches: 31, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
216 4 0.02
217 213 0.86
218 30 0.12
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (216 bp):
ATCTCCCTAAAGTTGCAGCGGAGCAGACTAAGCAAGCAGATCTTATCCCCCTGAAGTGCAGTGGA
GCAGATTGAAGATAGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACCAATAATC
CTATCTCCCTGAAGTTGCAGCGAAGCAAATTAAAATAACAGATCTTATCTCTCTGAAGTTGAAGA
GAGCAGATCGCATCTAGTCTT
Found at i:34594456 original size:4 final size:4
Alignment explanation
Indices: 34594447--34594480 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
34594437 TTATTTTGGC
34594447 TTAT TTAT TTAT TTAT TTA- TTATT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTA-T TTAT TTAT TT
34594481 TAAAGAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.11
4 22 0.79
5 3 0.11
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:34595410 original size:3 final size:3
Alignment explanation
Indices: 34595402--34595439 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
34595392 ACTTCGTTAC
34595402 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
34595440 AGTTTTCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:34595474 original size:9 final size:8
Alignment explanation
Indices: 34595402--34595473 Score: 67
Period size: 9 Copynumber: 8.4 Consensus size: 8
34595392 ACTTCGTTAC
34595402 TATTATTAT
1 TATTATT-T
34595411 TATTATTAT
1 TATTATT-T
34595420 TATTATTAT
1 TATTATT-T
34595429 TATTATTT
1 TATTATTT
34595437 TA-TAGTTT
1 TATTA-TTT
34595445 TCATTATTT
1 T-ATTATTT
34595454 TATT-TATT
1 TATTAT-TT
34595462 TATATATTT
1 TAT-TATTT
34595471 TAT
1 TAT
34595474 ACCAAATTGT
Statistics
Matches: 57, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
7 3 0.05
8 15 0.26
9 36 0.63
10 3 0.05
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (8 bp):
TATTATTT
Found at i:34597274 original size:22 final size:22
Alignment explanation
Indices: 34597235--34597276 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
34597225 AACCAGGATT
*
34597235 ACATACACAATTTATCATGAGA
1 ACATACAAAATTTATCATGAGA
34597257 ACATACTAAAATTT-TCATGA
1 ACATAC-AAAATTTATCATGA
34597277 AACTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (22 bp):
ACATACAAAATTTATCATGAGA
Found at i:34598194 original size:73 final size:74
Alignment explanation
Indices: 34598075--34598218 Score: 245
Period size: 73 Copynumber: 2.0 Consensus size: 74
34598065 CGCATCACAG
* *
34598075 TAATCAATTCATAATTATTCACATAACCACATAATTTGCCAAAATAAAACAAA-GAAATAGAAAG
1 TAATCAATCCACAATTATTCACATAACCACATAATTTGCCAAAATAAAACAAAGGAAATAGAAAG
34598139 CTTACATAA
66 CTTACATAA
* *
34598148 TAATCAATCCACAATTATTCACATAATCACATGATTTGCCAAAATAAAACAAAGGAAATAGAAAG
1 TAATCAATCCACAATTATTCACATAACCACATAATTTGCCAAAATAAAACAAAGGAAATAGAAAG
34598213 CTTACA
66 CTTACA
34598219 CTCAAAACTT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
73 49 0.74
74 17 0.26
ACGTcount: A:0.51, C:0.17, G:0.07, T:0.25
Consensus pattern (74 bp):
TAATCAATCCACAATTATTCACATAACCACATAATTTGCCAAAATAAAACAAAGGAAATAGAAAG
CTTACATAA
Found at i:34599469 original size:41 final size:41
Alignment explanation
Indices: 34599424--34599618 Score: 196
Period size: 41 Copynumber: 4.8 Consensus size: 41
34599414 ACCAGAGTGT
* * *
34599424 AAACAAGGGCACGTATGTGCAATTCAGGGGTCTCGAAGAAC
1 AAACAGGGGCACATATGTGCAATTCAGGGGTCTCGAAGTAC
* * * * *
34599465 AAACAGGGGCATAAATGTGTAATTTAGGGGTATCGAAGTAC
1 AAACAGGGGCACATATGTGCAATTCAGGGGTCTCGAAGTAC
* * *
34599506 AAATAGGGGCACGTATGTGCAATTCAGGGGTACT-GAAGTCC
1 AAACAGGGGCACATATGTGCAATTCAGGGGT-CTCGAAGTAC
* * *
34599547 AAACAGGGGCACATATGTGTAATTTAGGGGTAC-CAAAGTAC
1 AAACAGGGGCACATATGTGCAATTCAGGGGT-CTCGAAGTAC
* ** *
34599588 AAATAGGGATACATATGTGCAATTCAAGGGT
1 AAACAGGGGCACATATGTGCAATTCAGGGGT
34599619 TAATTAACTA
Statistics
Matches: 124, Mismatches: 28, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
41 123 0.99
42 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (41 bp):
AAACAGGGGCACATATGTGCAATTCAGGGGTCTCGAAGTAC
Found at i:34599567 original size:82 final size:82
Alignment explanation
Indices: 34599430--34599618 Score: 272
Period size: 82 Copynumber: 2.3 Consensus size: 82
34599420 GTGTAAACAA
*
34599430 GGGCACGTATGTGCAATTCAGGGGTCTCGAAGAACAAACAGGGGCATAAATGTGTAATTTAGGGG
1 GGGCACGTATGTGCAATTCAGGGGTCTCGAAGAACAAACAGGGGCACAAATGTGTAATTTAGGGG
* *
34599495 TATCGAAGTACAAATAG
66 TACCAAAGTACAAATAG
** *
34599512 GGGCACGTATGTGCAATTCAGGGGTACT-GAAGTCCAAACAGGGGCACATATGTGTAATTTAGGG
1 GGGCACGTATGTGCAATTCAGGGGT-CTCGAAGAACAAACAGGGGCACAAATGTGTAATTTAGGG
34599576 GTACCAAAGTACAAATAG
65 GTACCAAAGTACAAATAG
** * *
34599594 GGATACATATGTGCAATTCAAGGGT
1 GGGCACGTATGTGCAATTCAGGGGT
34599619 TAATTAACTA
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
82 94 0.98
83 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (82 bp):
GGGCACGTATGTGCAATTCAGGGGTCTCGAAGAACAAACAGGGGCACAAATGTGTAATTTAGGGG
TACCAAAGTACAAATAG
Found at i:34606924 original size:25 final size:23
Alignment explanation
Indices: 34606896--34606954 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 23
34606886 AATTTTTCTC
*
34606896 TTAAATTTTAATTTTATTTAATTAA
1 TTAAATTTTAA-TTTATTGAATT-A
34606921 TT-AATTTTCAATTTATTGAATTA
1 TTAAATTTT-AATTTATTGAATTA
34606944 TTAATATTTTA
1 TTAA-ATTTTA
34606955 CACTAATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
23 3 0.10
24 18 0.60
25 9 0.30
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TTAAATTTTAATTTATTGAATTA
Found at i:34609851 original size:22 final size:22
Alignment explanation
Indices: 34609826--34609874 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
34609816 AATTATGAAC
*
34609826 ATATTGAATTTTAATTAATTTT
1 ATATTAAATTTTAATTAATTTT
* *
34609848 ATATCAAATTTTGATTAATTTT
1 ATATTAAATTTTAATTAATTTT
34609870 -TATTA
1 ATATTA
34609875 TTTTAGATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (22 bp):
ATATTAAATTTTAATTAATTTT
Found at i:34610744 original size:20 final size:18
Alignment explanation
Indices: 34610711--34610747 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
34610701 TTTGATGTTG
34610711 ATATGTTTAATTTAATTA
1 ATATGTTTAATTTAATTA
34610729 ATATGTCTTGAATTTAATT
1 ATATGT-TT-AATTTAATT
34610748 TGTGTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (18 bp):
ATATGTTTAATTTAATTA
Found at i:34613096 original size:31 final size:33
Alignment explanation
Indices: 34613042--34613110 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 33
34613032 ATACAACAAG
*
34613042 CAGTAACAGTCTGGGCCTGAGCCC-TTCAGTAA
1 CAGTAACAGTCTGGGCCTGAGCCCATACAGTAA
*
34613074 CAGT-ACAGTGTGGGCCCT-AGCCCAATACAGTAA
1 CAGTAACAGTCTGGG-CCTGAGCCC-ATACAGTAA
34613107 CAGT
1 CAGT
34613111 GTGGGCCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 14 0.44
32 7 0.22
33 11 0.34
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.20
Consensus pattern (33 bp):
CAGTAACAGTCTGGGCCTGAGCCCATACAGTAA
Found at i:34613127 original size:28 final size:27
Alignment explanation
Indices: 34613073--34613130 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
34613063 CCCTTCAGTA
*
34613073 ACAGTACAGTGTGGGCCCTAGCCCAAT
1 ACAGTACAGTGTGGGCCCTAACCCAAT
* *
34613100 ACAGTAACAGTGTGGGCCTTAACTCAAT
1 ACAGT-ACAGTGTGGGCCCTAACCCAAT
34613128 ACA
1 ACA
34613131 ATATCAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (27 bp):
ACAGTACAGTGTGGGCCCTAACCCAAT
Found at i:34613458 original size:28 final size:27
Alignment explanation
Indices: 34613423--34613505 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
34613413 AACCTACCTC
*
34613423 TAGGGGTATAATGGTCATTTCTATCTAT
1 TAGGGGTATAATGGTCATTT-TACCTAT
* *
34613451 TAGGGGTAAAATAGTCATTTTACCCT-T
1 TAGGGGTATAATGGTCATTTTA-CCTAT
**
34613478 TAGGGGTATTTTGGTCATTTTACCTAT
1 TAGGGGTATAATGGTCATTTTACCTAT
34613505 T
1 T
34613506 TTAGGGTCTC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 3 0.07
27 23 0.50
28 20 0.43
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.43
Consensus pattern (27 bp):
TAGGGGTATAATGGTCATTTTACCTAT
Found at i:34615606 original size:20 final size:20
Alignment explanation
Indices: 34615569--34615607 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34615559 CCAAATTTTC
*
34615569 TTACTTTCATTTGTATTTAA
1 TTACTTTCATTTGCATTTAA
34615589 TTACTTTCCA-TTGCATTTA
1 TTACTTT-CATTTGCATTTA
34615608 CTTTCTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.56
Consensus pattern (20 bp):
TTACTTTCATTTGCATTTAA
Found at i:34618328 original size:15 final size:15
Alignment explanation
Indices: 34618308--34618342 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
34618298 TTCAAACTCT
34618308 TATGATCAGAAAACA
1 TATGATCAGAAAACA
34618323 TATGATCAGAAAACA
1 TATGATCAGAAAACA
34618338 TATGA
1 TATGA
34618343 CACTTCTCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.23
Consensus pattern (15 bp):
TATGATCAGAAAACA
Found at i:34620252 original size:43 final size:44
Alignment explanation
Indices: 34620097--34620253 Score: 189
Period size: 43 Copynumber: 3.6 Consensus size: 44
34620087 TGTGATCTTG
*
34620097 TGTAAGACCACGTCTGGGATGTTGGCATCGAT-TTGAGATTTACA
1 TGTAAGACCACGTCTGGGATGTTGGCATCGATATT-TGATTTACA
* * * *
34620141 TGTAAGACCATGTCTGGGATATTGGCATCG-TATATGATTTA-G
1 TGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTTACA
** *
34620183 TGTAAGACCTTGTCTGTGATAG-TGGCATCGATATTTGA-TTACA
1 TGTAAGACCACGTCTGGGAT-GTTGGCATCGATATTTGATTTACA
34620226 TGTAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGATGTTGGCAT
34620254 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
42 30 0.32
43 36 0.38
44 29 0.31
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTTACA
Found at i:34629258 original size:15 final size:17
Alignment explanation
Indices: 34629232--34629263 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
34629222 ACACTTCCGC
34629232 TTTTTCCTCTCT-TTTT
1 TTTTTCCTCTCTGTTTT
34629248 TTTTTCC-CTCTGTTTT
1 TTTTTCCTCTCTGTTTT
34629264 CGATGGCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTTTCCTCTCTGTTTT
Found at i:34646624 original size:9 final size:9
Alignment explanation
Indices: 34646597--34646679 Score: 96
Period size: 9 Copynumber: 9.2 Consensus size: 9
34646587 TGGTTAAAAG
*
34646597 TTAACCAAA
1 TTAACCGAA
**
34646606 TTAATTGAA
1 TTAACCGAA
34646615 TTAACCGAA
1 TTAACCGAA
*
34646624 TTACCCGAA
1 TTAACCGAA
*
34646633 TTAACTGAA
1 TTAACCGAA
*
34646642 TTACCCGAA
1 TTAACCGAA
34646651 TT-ACCTGAA
1 TTAACC-GAA
34646660 TTAACCGAA
1 TTAACCGAA
34646669 TTAACCGAA
1 TTAACCGAA
34646678 TT
1 TT
34646680 GAATCACTAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
8 2 0.03
9 56 0.92
10 3 0.05
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (9 bp):
TTAACCGAA
Found at i:34646634 original size:27 final size:27
Alignment explanation
Indices: 34646604--34646679 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
34646594 AAGTTAACCA
*
34646604 AATTAATTGAATTAACCGAATTACCCG
1 AATTAACTGAATTAACCGAATTACCCG
* *
34646631 AATTAACTGAATTACCCGAATTACCTG
1 AATTAACTGAATTAACCGAATTACCCG
*
34646658 AATTAACCGAATTAACCGAATT
1 AATTAACTGAATTAACCGAATT
34646680 GAATCACTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.29
Consensus pattern (27 bp):
AATTAACTGAATTAACCGAATTACCCG
Found at i:34651776 original size:18 final size:18
Alignment explanation
Indices: 34651755--34651792 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
34651745 GTCTCAGCTT
34651755 GTTATATTGGGTTTGTGG
1 GTTATATTGGGTTTGTGG
34651773 GTTATATTGGGTTTGTGG
1 GTTATATTGGGTTTGTGG
34651791 GT
1 GT
34651793 AAGTGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.39, T:0.50
Consensus pattern (18 bp):
GTTATATTGGGTTTGTGG
Found at i:34654442 original size:27 final size:27
Alignment explanation
Indices: 34654404--34654650 Score: 295
Period size: 27 Copynumber: 9.1 Consensus size: 27
34654394 GTAATGGGCC
*
34654404 TAAAATGACTGAAATATCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
*
34654431 TAAAATGACTGAAATACCC-CTGAAGGA
1 TAAAATGACTGAAATACCCTC-GAAGGG
* *
34654458 TAAAGTGACCGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
*
34654485 TAAAATGA-TCGAAATACCCCCGAAGGG
1 TAAAATGACT-GAAATACCCTCGAAGGG
** *
34654512 TAAAATGACCAAAATACCCTCAAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* *
34654539 TAAAATGACCGAAATACCCTCGCAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
** *
34654566 TGGAATGA-TCGAAAAACCCTCGAAGGG
1 TAAAATGACT-GAAATACCCTCGAAGGG
* *
34654593 TAAAATAACTGAAATACCCTCGCAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
34654620 TAAAATGACTGAAATACCC-CTGAAGGG
1 TAAAATGACTGAAATACCCTC-GAAGGG
34654647 TAAA
1 TAAA
34654651 GTTGAAATAT
Statistics
Matches: 186, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.01
27 182 0.98
28 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.17
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCTCGAAGGG
Found at i:34654838 original size:26 final size:27
Alignment explanation
Indices: 34654781--34654863 Score: 98
Period size: 26 Copynumber: 3.1 Consensus size: 27
34654771 ATAGGGTAAG
** **
34654781 TATACTG-TACTGGTGGCTTTGCCACA
1 TATACTGTTACTGGCAGCTTTGCTGCA
34654807 TATACTGTTACTGGCAGCTTTGCTGCA
1 TATACTGTTACTGGCAGCTTTGCTGCA
*
34654834 T-TACTGTTACTGGCAGCTTTACTGCGA
1 TATACTGTTACTGGCAGCTTTGCTGC-A
34654861 TAT
1 TAT
34654864 TTGTATGTTG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 30 0.61
27 18 0.37
28 1 0.02
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (27 bp):
TATACTGTTACTGGCAGCTTTGCTGCA
Found at i:34662979 original size:40 final size:40
Alignment explanation
Indices: 34662896--34663158 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
34662886 TTGAATGCTG
* * * * * *
34662896 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
34662936 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
34662976 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
34663016 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
34663056 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
34663096 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
34663135 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
34663159 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:34663178 original size:79 final size:80
Alignment explanation
Indices: 34662935--34663193 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
34662925 AAGTGAATAT
* * * * * *
34662935 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
34662999 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
34663015 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
34663080 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
34663095 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
34663159 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
34663174 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
34663194 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:34670931 original size:40 final size:40
Alignment explanation
Indices: 34670848--34671110 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
34670838 TTGAATGCTG
* * * * * *
34670848 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
34670888 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
34670928 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
34670968 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
34671008 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
34671048 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
34671087 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
34671111 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:34671130 original size:79 final size:80
Alignment explanation
Indices: 34670887--34671145 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
34670877 AAGTGAATAT
* * * * * *
34670887 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
34670951 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
34670967 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
34671032 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
34671047 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
34671111 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
34671126 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
34671146 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:34673406 original size:37 final size:40
Alignment explanation
Indices: 34673329--34673429 Score: 145
Period size: 37 Copynumber: 2.6 Consensus size: 40
34673319 TGCATCTTGA
* *
34673329 AGTGCTGGGCACATATATATATTTGCCGGTTTTACCGACC
1 AGTGCTGAGCACATATATATATTTGCCGGTTTTACAGACC
34673369 AGTGCT-AGC-CATATATATATTTG-CGGTTTTACAGACC
1 AGTGCTGAGCACATATATATATTTGCCGGTTTTACAGACC
* *
34673406 AGTGTTGGGCACATATATATATTT
1 AGTGCTGAGCACATATATATATTT
34673430 TTCGGTTCCA
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
37 18 0.33
38 16 0.29
39 15 0.27
40 6 0.11
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (40 bp):
AGTGCTGAGCACATATATATATTTGCCGGTTTTACAGACC
Found at i:34673572 original size:42 final size:40
Alignment explanation
Indices: 34673329--34673585 Score: 214
Period size: 43 Copynumber: 6.2 Consensus size: 40
34673319 TGCATCTTGA
*
34673329 AGTGCTGGGCACATATATATATTTGCCGGTTTTACCGACC
1 AGTGCTGGGCACATATATATATTTGTCGGTTTTACCGACC
* *
34673369 AGTGCT-AGC-CATATATATATTTG-CGGTTTTACAGACC
1 AGTGCTGGGCACATATATATATTTGTCGGTTTTACCGACC
* * ** * *
34673406 AGTGTTGGGCACATATATATATTTTTCGGTTCCACCAACT
1 AGTGCTGGGCACATATATATATTTGTCGGTTTTACCGACC
* * * * *
34673446 AGTGCTTGACATATATATACATATATATTTGTTGGTTTTACCGACT
1 AGTGCTGGGC----ACAT--ATATATATTTGTCGGTTTTACCGACC
* * *
34673492 AGTGCTGGGCACACATATATAATATTTTTTGATTTTACCGACC
1 AGTGCTGGG--CACATATAT-ATATTTGTCGGTTTTACCGACC
* *
34673535 AGTGCTGGGTACACATATACATATTTGTCGATTTTACCGACC
1 AGTGCTGGG--CACATATATATATTTGTCGGTTTTACCGACC
*
34673577 AGCGCTGGG
1 AGTGCTGGG
34673586 TGCAAAACTT
Statistics
Matches: 175, Mismatches: 30, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
37 18 0.10
38 16 0.09
39 15 0.09
40 22 0.13
42 32 0.18
43 37 0.21
44 6 0.03
46 28 0.16
48 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (40 bp):
AGTGCTGGGCACATATATATATTTGTCGGTTTTACCGACC
Found at i:34676667 original size:21 final size:21
Alignment explanation
Indices: 34676623--34676673 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
34676613 TTCGAGTTAG
* **
34676623 TTCTCTTTTTGTCCAAGTTGC
1 TTCTCTTTTTGTCCAACTCAC
*
34676644 TTCTCTTTTTGTCTAACTCAC
1 TTCTCTTTTTGTCCAACTCAC
34676665 TTC-CTTTTT
1 TTCTCTTTTT
34676674 TCTTTGTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.10, C:0.25, G:0.08, T:0.57
Consensus pattern (21 bp):
TTCTCTTTTTGTCCAACTCAC
Found at i:34676969 original size:157 final size:157
Alignment explanation
Indices: 34676683--34676996 Score: 601
Period size: 157 Copynumber: 2.0 Consensus size: 157
34676673 TTCTTTGTGA
34676683 ATTTTGAGAATATCCCCATTCATAGGTCTGAGATCCACATCTATGAATTGAAAGGTTCGAATGAT
1 ATTTTGAGAATATCCCCATTCATAGGTCTGAGATCCACATCTATGAATTGAAAGGTTCGAATGAT
* * *
34676748 CAACTTTGCAATCAGTTGTTAGAATCCATAGGTCTTTAGATCGTTCATTTGAAAAAATTGAAACC
66 CAACTTTGCAATCAGTTGTTAGAATCAATAGGTCTTCAAATCGTTCATTTGAAAAAATTGAAACC
34676813 TTTCTTATTGGATGATCATAATACTTC
131 TTTCTTATTGGATGATCATAATACTTC
34676840 ATTTTGAGAATATCCCCATTCATAGGTCTGAGATCCACATCTATGAATTGAAAGGTTCGAATGAT
1 ATTTTGAGAATATCCCCATTCATAGGTCTGAGATCCACATCTATGAATTGAAAGGTTCGAATGAT
34676905 CAACTTTGCAATCAGTTGTTAGAATCAATAGGTCTTCAAATCGTTCATTTGAAAAAATTGAAACC
66 CAACTTTGCAATCAGTTGTTAGAATCAATAGGTCTTCAAATCGTTCATTTGAAAAAATTGAAACC
34676970 TTTCTTATTGGATGATCATAATACTTC
131 TTTCTTATTGGATGATCATAATACTTC
34676997 TCAAAAACCG
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (157 bp):
ATTTTGAGAATATCCCCATTCATAGGTCTGAGATCCACATCTATGAATTGAAAGGTTCGAATGAT
CAACTTTGCAATCAGTTGTTAGAATCAATAGGTCTTCAAATCGTTCATTTGAAAAAATTGAAACC
TTTCTTATTGGATGATCATAATACTTC
Found at i:34701556 original size:43 final size:43
Alignment explanation
Indices: 34701424--34701556 Score: 151
Period size: 43 Copynumber: 3.1 Consensus size: 43
34701414 TGTGTAACGA
* * * *
34701424 TATATTTTCTTTGGTTTATCCAATGATTCACTATGTAG-GCCAG
1 TATATTTTCTTTGATTTATCCATTGATGCACTGTGT-GTGCCAG
* * * * * * *
34701467 TTTATTTTCTTCGATTTATACGTTGATGCACTGTGTTTTCCTG
1 TATATTTTCTTTGATTTATCCATTGATGCACTGTGTGTGCCAG
34701510 TATATTTTCTTTGATTTATCCATTGATGCACTGTGTGTGCCAG
1 TATATTTTCTTTGATTTATCCATTGATGCACTGTGTGTGCCAG
34701553 TATA
1 TATA
34701557 GTAGCTTAGG
Statistics
Matches: 71, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.20, C:0.16, G:0.17, T:0.48
Consensus pattern (43 bp):
TATATTTTCTTTGATTTATCCATTGATGCACTGTGTGTGCCAG
Found at i:34708822 original size:24 final size:24
Alignment explanation
Indices: 34708793--34708870 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
34708783 CTCTTATTCT
34708793 TATTCTTACCCCTCTCTCAGTCCC
1 TATTCTTACCCCTCTCTCAGTCCC
* * * *
34708817 TATTC-TAGCGCT-TC-AAATCCATC
1 TATTCTTACCCCTCTCTCAGTCC--C
34708840 TTATTCTTACCCCTCTCTCAGTCCC
1 -TATTCTTACCCCTCTCTCAGTCCC
34708865 TATTCT
1 TATTCT
34708871 GGCGCTCAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
21 4 0.10
22 2 0.05
23 6 0.15
24 16 0.40
25 6 0.15
26 2 0.05
27 4 0.10
ACGTcount: A:0.17, C:0.38, G:0.05, T:0.40
Consensus pattern (24 bp):
TATTCTTACCCCTCTCTCAGTCCC
Found at i:34711173 original size:33 final size:32
Alignment explanation
Indices: 34711100--34711174 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 32
34711090 TTGGTCCACA
34711100 TGCCCGTGTGGCCCAAACGCCCAAAATGGCCT
1 TGCCCGTGTGGCCCAAACGCCCAAAATGGCCT
* *
34711132 TGCTCGTGTGGCCCACACGACCCAAAATGGCCT
1 TGCCCGTGTGGCCCAAACG-CCCAAAATGGCCT
34711165 AT-CCCGTGTG
1 -TGCCCGTGTG
34711175 TCAACAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 17 0.45
33 20 0.53
34 1 0.03
ACGTcount: A:0.20, C:0.36, G:0.25, T:0.19
Consensus pattern (32 bp):
TGCCCGTGTGGCCCAAACGCCCAAAATGGCCT
Found at i:34715175 original size:23 final size:23
Alignment explanation
Indices: 34715149--34715192 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
34715139 TCCTTATTTC
34715149 TTTTCTTA-ATACATTGCATATTA
1 TTTTCTTATATACA-TGCATATTA
* *
34715172 TTTTTTTATATCCATGCATAT
1 TTTTCTTATATACATGCATAT
34715193 ACTTATGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.27, C:0.14, G:0.05, T:0.55
Consensus pattern (23 bp):
TTTTCTTATATACATGCATATTA
Found at i:34718823 original size:20 final size:22
Alignment explanation
Indices: 34718798--34718845 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
34718788 TGAATCTGTC
34718798 AAAAATAA-T-CAAAATTCACT
1 AAAAATAATTGCAAAATTCACT
* *
34718818 AAAAATAATTGTAAAATTTACT
1 AAAAATAATTGCAAAATTCACT
34718840 AAAAAT
1 AAAAAT
34718846 TAACATGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 1 0.04
22 15 0.62
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAAATAATTGCAAAATTCACT
Found at i:34726494 original size:15 final size:16
Alignment explanation
Indices: 34726474--34726504 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
34726464 AAATTGGGAA
34726474 TAAATTAT-AATTAAT
1 TAAATTATGAATTAAT
34726489 TAAATTATGAATTAAT
1 TAAATTATGAATTAAT
34726505 ACACATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
TAAATTATGAATTAAT
Found at i:34729097 original size:50 final size:50
Alignment explanation
Indices: 34728979--34729118 Score: 183
Period size: 50 Copynumber: 2.8 Consensus size: 50
34728969 TAATTGAGAT
* *
34728979 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACAT-GCGTTGGCACCGA
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
* ** *
34729028 GATGAGAGGTCCCCCGTAAGACCATGTATGGGACATGGCATGGGCACCGA
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
** * *
34729078 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCAT
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT
34729119 TGGCTGTACA
Statistics
Matches: 76, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
49 32 0.42
50 44 0.58
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
Done.