Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 104 of 208
Found at i:34735524 original size:23 final size:22
Alignment explanation
Indices: 34735493--34735560 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 22
34735483 ATTATTTGAA
*
34735493 AAATATATAAAATATATAATTAT
1 AAATATATAAAATATA-AAATAT
*
34735516 AAATTTATAAAATATAAAATAT
1 AAATATATAAAATATAAAATAT
*
34735538 AAAATATATATAAT-TAAAATAT
1 -AAATATATAAAATATAAAATAT
34735560 A
1 A
34735561 TAAAAAAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 13 0.32
23 26 0.65
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATATATAAAATATAAAATAT
Found at i:34735789 original size:15 final size:16
Alignment explanation
Indices: 34735773--34735807 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
34735763 TTTTTATTAA
34735773 TTATATATTTTAAAATT
1 TTATATATTTTAAAA-T
34735790 TTATATATTTT-AAAT
1 TTATATATTTTAAAAT
34735805 TTA
1 TTA
34735808 AAAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 3 0.17
17 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATATATTTTAAAAT
Found at i:34738512 original size:30 final size:31
Alignment explanation
Indices: 34738476--34738544 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
34738466 ACTTAACAAC
* *
34738476 TCAATGATTTAAAT-AAAACTTTTGAATATT
1 TCAATGACTTAAATGAAAACTTTTGAATAGT
34738506 TCAATGACTTAAATGAAAACTTTTGAATAGT
1 TCAATGACTTAAATGAAAACTTTTGAATAGT
*
34738537 TCATTGAC
1 TCAATGAC
34738545 CATTTTGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 13 0.37
31 22 0.63
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (31 bp):
TCAATGACTTAAATGAAAACTTTTGAATAGT
Found at i:34748842 original size:45 final size:44
Alignment explanation
Indices: 34748781--34748916 Score: 141
Period size: 45 Copynumber: 3.0 Consensus size: 44
34748771 ACACATTTGC
* * *
34748781 AGATTAAAGCTGCTAATACGGTTTGTGTAAACCACTAGTCGGTG-A
1 AGATAAAAGCTGCTAATACGGTGTG-GTAAACCACTAAT-GGTGCA
* * *
34748826 AGATAAAAGCTTCTAATATGATGTGGGTAAACCACTAAATGGTGCA
1 AGATAAAAGCTGCTAATACGGTGT-GGTAAACCACT-AATGGTGCA
*
34748872 A-ATAAAAGCTGCTAATACAGTGTGGATAAACCACTAAATGGTGCA
1 AGATAAAAGCTGCTAATACGGTGTGG-TAAACCACT-AATGGTGCA
34748917 GACAAGCTGC
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
44 2 0.03
45 70 0.91
46 5 0.06
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.26
Consensus pattern (44 bp):
AGATAAAAGCTGCTAATACGGTGTGGTAAACCACTAATGGTGCA
Found at i:34749352 original size:27 final size:27
Alignment explanation
Indices: 34749322--34749375 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
34749312 ATAAAATTCT
*
34749322 GGGCAAAACTATAAAATATGAAAATAG
1 GGGCAAAACTATAAAATATAAAAATAG
* * *
34749349 GGGCAAAATTGTAAAATTTAAAAATAG
1 GGGCAAAACTATAAAATATAAAAATAG
34749376 AAAAAAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.54, C:0.06, G:0.19, T:0.22
Consensus pattern (27 bp):
GGGCAAAACTATAAAATATAAAAATAG
Found at i:34754815 original size:19 final size:19
Alignment explanation
Indices: 34754787--34754848 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
34754777 TTAGAATTTT
34754787 TTTTATAAAAAATAATAAA
1 TTTTATAAAAAATAATAAA
* * *
34754806 TTTTAGAAAAATTATTAAA
1 TTTTATAAAAAATAATAAA
*
34754825 TTTTAATAAAAAATTA-AAA
1 TTTT-ATAAAAAATAATAAA
34754844 TTTTA
1 TTTTA
34754849 AAATTTATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
18 1 0.03
19 27 0.77
20 7 0.20
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TTTTATAAAAAATAATAAA
Found at i:34756747 original size:38 final size:39
Alignment explanation
Indices: 34756646--34756775 Score: 133
Period size: 38 Copynumber: 3.4 Consensus size: 39
34756636 GTGGAGATGT
* * * **
34756646 TTAACATG-TATTCAGTCCAATAGTAGAAATTTACATGC
1 TTAACATGCAATTCAGTTCAATAGTAGCAATAGACATGC
* *
34756684 TTAACATG-TATTCAGTTCAACAGTAGCAATAGACATGC
1 TTAACATGCAATTCAGTTCAATAGTAGCAATAGACATGC
* * *
34756722 TTAACATGCAATT-AGTTTAATAGTAGCAGTAGGCATGC
1 TTAACATGCAATTCAGTTCAATAGTAGCAATAGACATGC
*
34756760 TGAACATGCAA-TCAGT
1 TTAACATGCAATTCAGT
34756776 AATACAAAAG
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 75 0.95
39 3 0.04
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (39 bp):
TTAACATGCAATTCAGTTCAATAGTAGCAATAGACATGC
Found at i:34760214 original size:21 final size:22
Alignment explanation
Indices: 34760168--34760220 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
34760158 CAATCATTTT
34760168 AAAACATTT-GTCTATTTTGGTAG
1 AAAAC-TTTAGTCTATTTT-GTAG
34760191 AAAACTTTAGTCTATTTT-TAG
1 AAAACTTTAGTCTATTTTGTAG
*
34760212 AAAAGTTTA
1 AAAACTTTA
34760221 CAAGTTTATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 11 0.39
22 3 0.11
23 14 0.50
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (22 bp):
AAAACTTTAGTCTATTTTGTAG
Found at i:34760994 original size:21 final size:18
Alignment explanation
Indices: 34760964--34761018 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 18
34760954 CTTTACACCA
*
34760964 TGTTGCGGATAAACCACT
1 TGTTGTGGATAAACCACT
*
34760982 CATCGTTGTGGATGAACCACT
1 --T-GTTGTGGATAAACCACT
34761003 TGTTGTGGATAAACCA
1 TGTTGTGGATAAACCA
34761019 TTAGTGATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 14 0.45
19 1 0.03
20 1 0.03
21 15 0.48
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (18 bp):
TGTTGTGGATAAACCACT
Found at i:34763064 original size:26 final size:26
Alignment explanation
Indices: 34763035--34763101 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
34763025 TGAAATGCTA
*
34763035 TAAAATTAAATATATTTGAATTTAAT
1 TAAAATTAAATATATTTAAATTTAAT
*
34763061 TAAAATTAAATAT-TTTAAATTTATT
1 TAAAATTAAATATATTTAAATTTAAT
**
34763086 TTTAATTCAAATATAT
1 TAAAATT-AAATATAT
34763102 ATTATCCTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 15 0.43
26 19 0.54
27 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (26 bp):
TAAAATTAAATATATTTAAATTTAAT
Found at i:34766908 original size:9 final size:9
Alignment explanation
Indices: 34766896--34766972 Score: 55
Period size: 9 Copynumber: 8.4 Consensus size: 9
34766886 AAATAAAAAA
34766896 AATTCGGGT
1 AATTCGGGT
*
34766905 AATTAGGGT
1 AATTCGGGT
* ***
34766914 ATTTTTTGT
1 AATTCGGGT
*
34766923 TAATTCGGTT
1 -AATTCGGGT
*
34766933 AATTCGGTT
1 AATTCGGGT
*
34766942 AATTCGGTT
1 AATTCGGGT
*
34766951 AATTTGGGT
1 AATTCGGGT
*
34766960 AATTTGGGT
1 AATTCGGGT
34766969 AATT
1 AATT
34766973 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
9 51 0.93
10 4 0.07
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.47
Consensus pattern (9 bp):
AATTCGGGT
Found at i:34766962 original size:18 final size:18
Alignment explanation
Indices: 34766923--34766973 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
34766913 TATTTTTTGT
* *
34766923 TAATTCGGTTAATTCGGT
1 TAATTCGGTTAATTTGGG
34766941 TAATTCGGTTAATTTGGG
1 TAATTCGGTTAATTTGGG
* *
34766959 TAATTTGGGTAATTT
1 TAATTCGGTTAATTT
34766974 TTAACCAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.24, C:0.06, G:0.24, T:0.47
Consensus pattern (18 bp):
TAATTCGGTTAATTTGGG
Found at i:34766962 original size:27 final size:27
Alignment explanation
Indices: 34766896--34766972 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
34766886 AAATAAAAAA
* * **
34766896 AATTCGGGTAATTAGGGTATTTTTTGTT
1 AATTCGGGTAATTCGGGTA-ATTCGGTT
* *
34766924 AATTCGGTTAATTCGGTTAATTCGGTT
1 AATTCGGGTAATTCGGGTAATTCGGTT
* *
34766951 AATTTGGGTAATTTGGGTAATT
1 AATTCGGGTAATTCGGGTAATT
34766973 TTTAACCAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.47
Consensus pattern (27 bp):
AATTCGGGTAATTCGGGTAATTCGGTT
Found at i:34770845 original size:18 final size:18
Alignment explanation
Indices: 34770822--34770864 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
34770812 ATTCAAGATG
34770822 TAATTAATTTAAA-ATTTT
1 TAATTAA-TTAAATATTTT
*
34770840 TAATTAATTAAATTTTTT
1 TAATTAATTAAATATTTT
34770858 TAATTAA
1 TAATTAA
34770865 AAGCCTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTAATTAAATATTTT
Found at i:34770860 original size:14 final size:15
Alignment explanation
Indices: 34770833--34770865 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
34770823 AATTAATTTA
34770833 AAATTTTTAATTAATT
1 AAATTTTT-ATTAATT
34770849 AAATTTTT-TTAATT
1 AAATTTTTATTAATT
34770863 AAA
1 AAA
34770866 AGCCTTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
16 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AAATTTTTATTAATT
Found at i:34776422 original size:25 final size:25
Alignment explanation
Indices: 34776393--34776445 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
34776383 TCAAGTATGG
34776393 AATTATCTGCCAAAGACAGAGAAGA
1 AATTATCTGCCAAAGACAGAGAAGA
*
34776418 AATTATCTGCCAAAGATAGAGAAGA
1 AATTATCTGCCAAAGACAGAGAAGA
34776443 AAT
1 AAT
34776446 CCAAAATCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (25 bp):
AATTATCTGCCAAAGACAGAGAAGA
Found at i:34783417 original size:22 final size:22
Alignment explanation
Indices: 34783392--34783441 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
34783382 TGGACAAGCC
*
34783392 ACCACTAATTTGCAGTTAAACT
1 ACCACTAATTTGCAGATAAACT
34783414 ACCACTAATTTGCAGATAAACT
1 ACCACTAATTTGCAGATAAACT
*
34783436 GCCACT
1 ACCACT
34783442 GATAACACTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (22 bp):
ACCACTAATTTGCAGATAAACT
Found at i:34793538 original size:23 final size:23
Alignment explanation
Indices: 34793512--34793556 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
34793502 CTCTGTGATG
* *
34793512 CCTTTGTGGCGTATTTCGTAATA
1 CCTTTGTGACATATTTCGTAATA
*
34793535 CCTTTGTGACATATTTTGTAAT
1 CCTTTGTGACATATTTCGTAAT
34793557 GCTTCTGTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.47
Consensus pattern (23 bp):
CCTTTGTGACATATTTCGTAATA
Found at i:34797950 original size:14 final size:14
Alignment explanation
Indices: 34797931--34797970 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
34797921 TTGATTGGCA
34797931 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
34797945 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
34797959 GGAAAATGTTTT
1 GTAAAATGTTTT
34797971 ACTTTGTAAA
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:34803169 original size:24 final size:24
Alignment explanation
Indices: 34803142--34803214 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
34803132 TGCAATCGAT
*
34803142 AGGGTGAATAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
* *
34803166 AGGGTGAAGAGAGGAACAGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
34803190 AGGGTGAAGAGAGGAGCTGTGGAA
1 AGGGTGAAGAGAGGAGCTGTGGAA
34803214 A
1 A
34803215 ATGTCTTACC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.37, C:0.04, G:0.47, T:0.12
Consensus pattern (24 bp):
AGGGTGAAGAGAGGAGCTGTGGAA
Found at i:34810333 original size:208 final size:208
Alignment explanation
Indices: 34809975--34810394 Score: 831
Period size: 208 Copynumber: 2.0 Consensus size: 208
34809965 TGATAGCATG
34809975 AATGTTTGATTGAGTTTGTAATTGCATATTTGAGTTATGAGATATGAAAATGTTTGACTGAATGA
1 AATGTTTGATTGAGTTTGTAATTGCATATTTGAGTTATGAGATATGAAAATGTTTGACTGAATGA
34810040 TATAATGTGGTGAGATATTAAGCTTATGTATGATTTAAATGCATGAGATATTTGTTATATTGTGT
66 TATAATGTGGTGAGATATTAAGCTTATGTATGATTTAAATGCATGAGATATTTGTTATATTGTGT
34810105 ACTGAAAATGGTGCTATTTATGCACAATGAAAATTTCTAAAGTATGTGAAATTGAACGATATTGA
131 ACTGAAAATGGTGCTATTTATGCACAATGAAAATTTCTAAAGTATGTGAAATTGAACGATATTGA
34810170 TTGATACCAACAC
196 TTGATACCAACAC
34810183 AATGTTTGATTGAGTTTGTAATTGCATATTTGAGTTATGAGATATGAAAATGTTTGACTGAATGA
1 AATGTTTGATTGAGTTTGTAATTGCATATTTGAGTTATGAGATATGAAAATGTTTGACTGAATGA
34810248 TATAATGTGGTGAGATATTAAGCTTATGTATGATTTAAATGCATGAGATATTTGTTATATTGTGT
66 TATAATGTGGTGAGATATTAAGCTTATGTATGATTTAAATGCATGAGATATTTGTTATATTGTGT
*
34810313 ACTGAAAATGGTGCTATTTATGCACAATGAAAATTTCTAAAGTATGTGAAATTGAATGATATTGA
131 ACTGAAAATGGTGCTATTTATGCACAATGAAAATTTCTAAAGTATGTGAAATTGAACGATATTGA
34810378 TTGATACCAACAC
196 TTGATACCAACAC
34810391 AATG
1 AATG
34810395 GTAATTTGAA
Statistics
Matches: 211, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
208 211 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (208 bp):
AATGTTTGATTGAGTTTGTAATTGCATATTTGAGTTATGAGATATGAAAATGTTTGACTGAATGA
TATAATGTGGTGAGATATTAAGCTTATGTATGATTTAAATGCATGAGATATTTGTTATATTGTGT
ACTGAAAATGGTGCTATTTATGCACAATGAAAATTTCTAAAGTATGTGAAATTGAACGATATTGA
TTGATACCAACAC
Found at i:34821315 original size:21 final size:23
Alignment explanation
Indices: 34821271--34821320 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
34821261 ATCGATTATT
* *
34821271 TTTAGTTTTTATATTTTTTCAAA
1 TTTATTTTTTATATGTTTTCAAA
34821294 TTTATTTTTTATA-GTTTT-AAA
1 TTTATTTTTTATATGTTTTCAAA
34821315 TTTATT
1 TTTATT
34821321 ATTGATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.36
22 4 0.16
23 12 0.48
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (23 bp):
TTTATTTTTTATATGTTTTCAAA
Found at i:34834000 original size:14 final size:14
Alignment explanation
Indices: 34833981--34834019 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
34833971 TGATTGGCAT
34833981 TAAAATATTTTCTG
1 TAAAATATTTTCTG
34833995 TAAAATGA-TTTCTG
1 TAAAAT-ATTTTCTG
*
34834009 GAAAATATTTT
1 TAAAATATTTT
34834020 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (14 bp):
TAAAATATTTTCTG
Found at i:34834031 original size:34 final size:35
Alignment explanation
Indices: 34833988--34834054 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
34833978 CATTAAAATA
* * *
34833988 TTTTCTGTAAAATGA-TTTCTGGAAAATATTTTAC
1 TTTTCTGTAAAATGACTTACAGAAAAATATTTTAC
34834022 TTTTCTGTAAAATGACTTACAGAAAAATATTTT
1 TTTTCTGTAAAATGACTTACAGAAAAATATTTT
34834055 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 15 0.52
35 14 0.48
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (35 bp):
TTTTCTGTAAAATGACTTACAGAAAAATATTTTAC
Found at i:34834119 original size:32 final size:33
Alignment explanation
Indices: 34834045--34834120 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
34834035 GACTTACAGA
* ** *
34834045 AAAATATTTTCTGGTGTTTGATTGAATCTGTGT
1 AAAATATTTTCTGCTGTTTGACAGAATCTCTGT
* *
34834078 AAAATATTTTCTGCTGTTTGACAGATTTTCTG-
1 AAAATATTTTCTGCTGTTTGACAGAATCTCTGT
34834110 AAAATATTTTC
1 AAAATATTTTC
34834121 CGGAAAAGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 11 0.30
33 26 0.70
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (33 bp):
AAAATATTTTCTGCTGTTTGACAGAATCTCTGT
Found at i:34839511 original size:19 final size:19
Alignment explanation
Indices: 34839484--34839521 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
34839474 ATAATAAAAT
* *
34839484 ATTTTTTAAAACTTATAAA
1 ATTTATTAAAAATTATAAA
34839503 ATTTATTAAAAATTATAAA
1 ATTTATTAAAAATTATAAA
34839522 TACTTAAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTATTAAAAATTATAAA
Found at i:34840858 original size:19 final size:20
Alignment explanation
Indices: 34840826--34840864 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
34840816 AGAGACTAAA
34840826 ATGTATAAAATTTGAAATTG
1 ATGTATAAAATTTGAAATTG
* *
34840846 ATGT-TAAATTTTGTAATTG
1 ATGTATAAAATTTGAAATTG
34840865 TAGATAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (20 bp):
ATGTATAAAATTTGAAATTG
Found at i:34841267 original size:51 final size:51
Alignment explanation
Indices: 34841191--34841292 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
34841181 GAAACTTACT
*
34841191 ATATTATTTGTATTATGTTTGAATCATATTATAATATCAGTTTAGGTTAAG
1 ATATTATTTGTATTATGTCTGAATCATATTATAATATCAGTTTAGGTTAAG
34841242 ATATTATTTGTATTATGTCTGAATCATATTATAATATCAGTTTAGGTTAAG
1 ATATTATTTGTATTATGTCTGAATCATATTATAATATCAGTTTAGGTTAAG
34841293 TGTAATTTGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (51 bp):
ATATTATTTGTATTATGTCTGAATCATATTATAATATCAGTTTAGGTTAAG
Found at i:34844692 original size:41 final size:41
Alignment explanation
Indices: 34844647--34844808 Score: 209
Period size: 41 Copynumber: 4.0 Consensus size: 41
34844637 TTGTATAAAA
* * * * * *
34844647 CACCGGCATAAAGCCTACTAGGCACAAAGCCCGATACATTC
1 CACCGGCACAAAGCCTACTAGACATAAAGTCTGATACATTT
34844688 CACCGGCACAAAGCCTACTAGACATAAAGTCTGATACATTT
1 CACCGGCACAAAGCCTACTAGACATAAAGTCTGATACATTT
*
34844729 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATACATTT
1 CACCGGCACAAAGCCTACTAGACATAAAGTCTGATACATTT
* * * *
34844770 TACCGGCATC-AAGCCTGCTAGACGTAAAGTCTGAAACAT
1 CACCGGCA-CAAAGCCTACTAGACATAAAGTCTGATACAT
34844809 CTTATTTTCA
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 109 0.99
42 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (41 bp):
CACCGGCACAAAGCCTACTAGACATAAAGTCTGATACATTT
Found at i:34845481 original size:16 final size:17
Alignment explanation
Indices: 34845460--34845494 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
34845450 ATCTAATAAT
34845460 TTATACAT-GTATATAC
1 TTATACATCGTATATAC
*
34845476 TTATACATCGTTTATAC
1 TTATACATCGTATATAC
34845493 TT
1 TT
34845495 CAACTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (17 bp):
TTATACATCGTATATAC
Found at i:34848704 original size:42 final size:42
Alignment explanation
Indices: 34848645--34848800 Score: 152
Period size: 42 Copynumber: 3.7 Consensus size: 42
34848635 AGCCAAGTCA
* * * **
34848645 TATGAGTTTCAGTTTAACCCTTTTACGTTTCAGTTCAGCTCT
1 TATGAGCTTCAATTTAACCCTTATGGGTTTCAGTTCAGCTCT
* * * *
34848687 TTTGAGCTTCAATTTAACCCTAATGGGTTTCAGTTTAGCCCT
1 TATGAGCTTCAATTTAACCCTTATGGGTTTCAGTTCAGCTCT
* * *
34848729 TCTGAGCTTC-ATATTAACCCTTATGGGTTTCTGTTCAGCTCC
1 TATGAGCTTCAAT-TTAACCCTTATGGGTTTCAGTTCAGCTCT
** * *
34848771 TATGAGCTTCCGTTCAACCCTTACGGGTTT
1 TATGAGCTTCAATTTAACCCTTATGGGTTT
34848801 TCGTTTAGCA
Statistics
Matches: 93, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
41 2 0.02
42 90 0.97
43 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.41
Consensus pattern (42 bp):
TATGAGCTTCAATTTAACCCTTATGGGTTTCAGTTCAGCTCT
Found at i:34848723 original size:21 final size:20
Alignment explanation
Indices: 34848698--34848759 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
34848688 TTGAGCTTCA
*
34848698 ATTTAACCCTAATGGGTTTC
1 ATTTAACCCTTATGGGTTTC
* * * *
34848718 AGTTTAGCCCTTCTGAGCTTC
1 A-TTTAACCCTTATGGGTTTC
34848739 ATATTAACCCTTATGGGTTTC
1 AT-TTAACCCTTATGGGTTTC
34848760 TGTTCAGCTC
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (20 bp):
ATTTAACCCTTATGGGTTTC
Found at i:34855786 original size:42 final size:41
Alignment explanation
Indices: 34855739--34855850 Score: 134
Period size: 42 Copynumber: 2.7 Consensus size: 41
34855729 TGAGTTTTAG
* ** *
34855739 TTTAACCCTTTTACGTTTCAGTTCAGCTATTTTGAGCTTCAA
1 TTTAACCCTTATGGGTTTCAGTTCAGCTATTCTGAGCTTC-A
* * *
34855781 TTTAACCCTAATGGGTTTCAGTTTAGCTCTTCTGAGCTTCA
1 TTTAACCCTTATGGGTTTCAGTTCAGCTATTCTGAGCTTCA
*
34855822 TATTAACCCTTATGGGTTTCTGTTCAGCT
1 T-TTAACCCTTATGGGTTTCAGTTCAGCT
34855851 CCTATGAGCT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 2 0.03
42 57 0.97
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (41 bp):
TTTAACCCTTATGGGTTTCAGTTCAGCTATTCTGAGCTTCA
Found at i:34855851 original size:42 final size:42
Alignment explanation
Indices: 34855753--34855875 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 42
34855743 ACCCTTTTAC
* * *
34855753 GTTTCAGTTCAGCTATTTTGAGCTTCA-ATTTAACCCTAATGG
1 GTTTCAGTTCAGCTCTTATGAGCTTCATA-TTAACCCTTATGG
* *
34855795 GTTTCAGTTTAGCTCTTCTGAGCTTCATATTAACCCTTATGG
1 GTTTCAGTTCAGCTCTTATGAGCTTCATATTAACCCTTATGG
* * *
34855837 GTTTCTGTTCAGCTCCTATGAGCTTC-TGTTCAACCCTTA
1 GTTTCAGTTCAGCTCTTATGAGCTTCATATT-AACCCTTA
34855876 CGAGTTGTCG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 3 0.04
42 66 0.94
43 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (42 bp):
GTTTCAGTTCAGCTCTTATGAGCTTCATATTAACCCTTATGG
Found at i:34859532 original size:24 final size:24
Alignment explanation
Indices: 34859505--34859602 Score: 108
Period size: 25 Copynumber: 4.0 Consensus size: 24
34859495 GTTATTAGGG
*
34859505 TTACTGATTACAGCTCTTATGAGC
1 TTACTGATTACAGCTCGTATGAGC
* * *
34859529 TTACTGATTCTCAGCTTGCATGAGC
1 TTACTGATT-ACAGCTCGTATGAGC
*
34859554 TTACTG-TTATTCAGCTCGTAGGAGC
1 TTACTGATTA--CAGCTCGTATGAGC
*
34859579 TTACTGTTTACAGCTCGTATGAGC
1 TTACTGATTACAGCTCGTATGAGC
34859603 ATACATGTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
24 24 0.39
25 34 0.56
26 3 0.05
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.37
Consensus pattern (24 bp):
TTACTGATTACAGCTCGTATGAGC
Found at i:34861405 original size:45 final size:45
Alignment explanation
Indices: 34861351--34861482 Score: 183
Period size: 45 Copynumber: 2.9 Consensus size: 45
34861341 TTATTTCTTT
* *
34861351 AATTCGTGATGCCATAGCATCTTTTAGCTATGGTCTTACTCGATAG
1 AATT-GTGATGCCATAACATCTTTTAGCCATGGTCTTACTCGATAG
* * *
34861397 AATTGTGATGCCATAACTTCTTTCAGCCATGGTCTTACTCGATTG
1 AATTGTGATGCCATAACATCTTTTAGCCATGGTCTTACTCGATAG
* * *
34861442 AATCGTGATTCCATAATATCTTTTAGCCATGGTCTTACTCG
1 AATTGTGATGCCATAACATCTTTTAGCCATGGTCTTACTCG
34861483 TTTCTGGTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
45 72 0.95
46 4 0.05
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (45 bp):
AATTGTGATGCCATAACATCTTTTAGCCATGGTCTTACTCGATAG
Found at i:34861623 original size:15 final size:15
Alignment explanation
Indices: 34861594--34861627 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
34861584 CCAACAAACT
34861594 CAATTCATATATAAA
1 CAATTCATATATAAA
34861609 CAATT-ATATATTAAA
1 CAATTCATATA-TAAA
34861624 CAAT
1 CAAT
34861628 CAAAAACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (15 bp):
CAATTCATATATAAA
Found at i:34863224 original size:23 final size:24
Alignment explanation
Indices: 34863179--34863226 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
34863169 GAGTAAAGAA
** *
34863179 TTTTATTTTTTTATTTCATTTAGT
1 TTTTATTTTTCAATTTCAATTAGT
34863203 TTTTATTTTTCAATTT-AATTAGT
1 TTTTATTTTTCAATTTCAATTAGT
34863226 T
1 T
34863227 AAAGTTGACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (24 bp):
TTTTATTTTTCAATTTCAATTAGT
Found at i:34864100 original size:102 final size:102
Alignment explanation
Indices: 34863905--34864100 Score: 214
Period size: 102 Copynumber: 1.9 Consensus size: 102
34863895 TAACTTAATG
* * * * ** * * *
34863905 TTTTGGATTTAGGGTTACACGGGCCAGGGGCACTGGCGTGTTTCTAGGCCGTGTGAGGGGGTTTA
1 TTTTGGATTTAGGGTCACACGAGCCAGGGACACAGAAGTGTTTCTAGGCCCTATGAGGGAGTTTA
* *
34863970 AGCCACAGGGATGTGAGGTAGGCCGTGTAACTCACCA
66 AGCCACAGGGACGTGAGCTAGGCCGTGTAACTCACCA
* *
34864007 TTTTGGATTTAGGGTCACACGAGCTAGGGACACAGAAGTGTGTTCT-GGCCCTATGAGGGATTTT
1 TTTTGGATTTAGGGTCACACGAGCCAGGGACACAGAAGTGT-TTCTAGGCCCTATGAGGGAGTTT
* * * * *
34864071 GAGCCACATGGACGTGTGCTTGGCTGTGTA
65 AAGCCACAGGGACGTGAGCTAGGCCGTGTA
34864101 CGAGACCGTG
Statistics
Matches: 75, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
102 71 0.95
103 4 0.05
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.28
Consensus pattern (102 bp):
TTTTGGATTTAGGGTCACACGAGCCAGGGACACAGAAGTGTTTCTAGGCCCTATGAGGGAGTTTA
AGCCACAGGGACGTGAGCTAGGCCGTGTAACTCACCA
Found at i:34867656 original size:27 final size:28
Alignment explanation
Indices: 34867617--34867697 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 28
34867607 ACACGTCAGG
*
34867617 AAAGAAAAACCTTTATGGCAAACTCT-A
1 AAAGAAAAGCCTTTATGGCAAACTCTGA
* *
34867644 AAAGAAAAGCCTTTGTGGCGAACTCTGA
1 AAAGAAAAGCCTTTATGGCAAACTCTGA
* **
34867672 AAA-AAGAGCCTTTATGGTGAACTCTG
1 AAAGAAAAGCCTTTATGGCAAACTCTG
34867698 TATGGACTGT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 43 0.91
28 4 0.09
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (28 bp):
AAAGAAAAGCCTTTATGGCAAACTCTGA
Found at i:34868536 original size:20 final size:20
Alignment explanation
Indices: 34868511--34868559 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
34868501 CTAGAAACTT
*
34868511 ACAGAAACCTTTCAAATTTG
1 ACAGAAACCTTTCAAATATG
**
34868531 ACAGAAATTTTTCAAATATG
1 ACAGAAACCTTTCAAATATG
34868551 ACAGAAACC
1 ACAGAAACC
34868560 GTTACCTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.27
Consensus pattern (20 bp):
ACAGAAACCTTTCAAATATG
Found at i:34872317 original size:3 final size:3
Alignment explanation
Indices: 34872309--34872341 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
34872299 TTAAGCCTTT
34872309 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
34872342 ACACCACCGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:34883368 original size:21 final size:20
Alignment explanation
Indices: 34883329--34883368 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
34883319 TCCATTATAA
*
34883329 TTATGTCTCTGTATCTGTGG
1 TTATGTCTCTGTATATGTGG
*
34883349 TTATGTGCTCTGTTTATGTG
1 TTATGT-CTCTGTATATGTG
34883369 TTTGAGGTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.12, G:0.25, T:0.53
Consensus pattern (20 bp):
TTATGTCTCTGTATATGTGG
Found at i:34885437 original size:128 final size:128
Alignment explanation
Indices: 34885294--34885551 Score: 419
Period size: 128 Copynumber: 2.0 Consensus size: 128
34885284 GATTGTTGAA
*
34885294 TTATCGACTGGGTTTTTATGATTGTTATAATCTGTCAAATGGTTTTTAACTGTGTTTATAAAAGT
1 TTATCGACTGAGTTTTTATGATTGTTATAATCTGTCAAATGGTTTTTAACTGTGTTTATAAAAGT
*
34885359 TGGTTTTTTTTATAATAACGTTACTGTAACTTTTCAGACTTGGTCTTAACATCTAGG-TCGAGT
66 TGGTTTTTTTTATAATAACGTTAATGTAACTTTTCAGACTTGGTCTTAACATCTAGGCT-GAGT
* *
34885422 TTATCGACTGAGTTTTTATGATTGTTATAATCTGTCAGATGGTTTTTAACTGTGTTTATACAAGT
1 TTATCGACTGAGTTTTTATGATTGTTATAATCTGTCAAATGGTTTTTAACTGTGTTTATAAAAGT
* * * * *
34885487 TGGTTTTTTTTCTAATAATGTTAATGTAACTTTTTAGAGTTGGTCTTAACGTCTAGGCTGAGT
66 TGGTTTTTTTTATAATAACGTTAATGTAACTTTTCAGACTTGGTCTTAACATCTAGGCTGAGT
34885550 TT
1 TT
34885552 GGGGTGTTAC
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
128 119 0.99
129 1 0.01
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.47
Consensus pattern (128 bp):
TTATCGACTGAGTTTTTATGATTGTTATAATCTGTCAAATGGTTTTTAACTGTGTTTATAAAAGT
TGGTTTTTTTTATAATAACGTTAATGTAACTTTTCAGACTTGGTCTTAACATCTAGGCTGAGT
Found at i:34885732 original size:6 final size:6
Alignment explanation
Indices: 34885721--34885748 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
34885711 TCCACTCCAT
34885721 ATTTAA ATTTAA ATTTAA ATTTAA ATTT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTT
34885749 TCAATCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTAA
Found at i:34888316 original size:13 final size:13
Alignment explanation
Indices: 34888298--34888350 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
34888288 CCACTCGCTC
34888298 TATTATTAAATTT
1 TATTATTAAATTT
* *
34888311 TATTATTAGA-TA
1 TATTATTAAATTT
*
34888323 TAATATTAAATTT
1 TATTATTAAATTT
34888336 TATTATTAAAATTT
1 TATTATT-AAATTT
34888350 T
1 T
34888351 CCTTTTAGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
12 9 0.28
13 16 0.50
14 7 0.22
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
TATTATTAAATTT
Found at i:34895181 original size:13 final size:13
Alignment explanation
Indices: 34895163--34895188 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34895153 TCTGTTGCTG
34895163 CACAAAACTTTAT
1 CACAAAACTTTAT
34895176 CACAAAACTTTAT
1 CACAAAACTTTAT
34895189 TTTGTTTATG
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:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
CACAAAACTTTAT
Found at i:34895438 original size:5 final size:5
Alignment explanation
Indices: 34895430--34895460 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
34895420 TAACTAAGAT
34895430 AAATA AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA A
34895461 TAAATCAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:34905230 original size:18 final size:18
Alignment explanation
Indices: 34905191--34905226 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
34905181 CATGATGTTC
*
34905191 GCCCGTGTGGGCCGACAT
1 GCCCGTGTGGGCCCACAT
34905209 GCCCGTGT-GGCCCACAT
1 GCCCGTGTGGGCCCACAT
34905226 G
1 G
34905227 GCCCAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.11, C:0.36, G:0.36, T:0.17
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAT
Found at i:34907865 original size:20 final size:20
Alignment explanation
Indices: 34907842--34907906 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
34907832 CACTTACGTG
34907842 CCCCTATTTGTACTTCGGTA
1 CCCCTATTTGTACTTCGGTA
* *
34907862 CCCCTGA-TTGCACTTAC-GTG
1 CCCCT-ATTTGTACTT-CGGTA
*
34907882 CCCCTATTTGTACTTCGATA
1 CCCCTATTTGTACTTCGGTA
34907902 CCCCT
1 CCCCT
34907907 GAATGTACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
19 2 0.06
20 32 0.89
21 2 0.06
ACGTcount: A:0.15, C:0.35, G:0.14, T:0.35
Consensus pattern (20 bp):
CCCCTATTTGTACTTCGGTA
Found at i:34907883 original size:40 final size:40
Alignment explanation
Indices: 34907828--34907929 Score: 159
Period size: 40 Copynumber: 2.5 Consensus size: 40
34907818 TTATTGAATT
*
34907828 ATTGCACTTACGTGCCCCTATTTGTACTTCGGTACCCCTG
1 ATTGCACTTACGTGCCCCTATTTGTACTTCGATACCCCTG
34907868 ATTGCACTTACGTGCCCCTATTTGTACTTCGATACCCCTG
1 ATTGCACTTACGTGCCCCTATTTGTACTTCGATACCCCTG
* * * *
34907908 AATGTACATATGTGCCCCTATT
1 ATTGCACTTACGTGCCCCTATT
34907930 GCACTTTGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (40 bp):
ATTGCACTTACGTGCCCCTATTTGTACTTCGATACCCCTG
Found at i:34907913 original size:20 final size:19
Alignment explanation
Indices: 34907849--34907914 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
34907839 GTGCCCCTAT
34907849 TTGTACTTCGGTACCCCTGA
1 TTGTACTTC-GTACCCCTGA
* *
34907869 TTGCACTTACGTGCCCCT-A
1 TTGTACTT-CGTACCCCTGA
34907888 TTTGTACTTCGATACCCCTGA
1 -TTGTACTTCG-TACCCCTGA
*
34907909 ATGTAC
1 TTGTAC
34907915 ATATGTGCCC
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
19 3 0.08
20 32 0.86
21 2 0.05
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (19 bp):
TTGTACTTCGTACCCCTGA
Found at i:34916044 original size:9 final size:9
Alignment explanation
Indices: 34916032--34916082 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
34916022 ATTAAAAAGA
34916032 AGAGAGTTG
1 AGAGAGTTG
*
34916041 AGAGACTTG
1 AGAGAGTTG
*
34916050 AGAGGGTTTG
1 AGAGAG-TTG
34916060 AGAG-GATTG
1 AGAGAG-TTG
*
34916069 AGAGACTTG
1 AGAGAGTTG
34916078 AGAGA
1 AGAGA
34916083 AGAATGTGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 28 0.80
10 7 0.20
ACGTcount: A:0.33, C:0.04, G:0.41, T:0.22
Consensus pattern (9 bp):
AGAGAGTTG
Found at i:34917717 original size:3 final size:3
Alignment explanation
Indices: 34917709--34917740 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
34917699 GAGTGAAAAA
34917709 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
34917741 CGACAAGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:34918348 original size:3 final size:3
Alignment explanation
Indices: 34918340--34918392 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
34918330 AACATTTTTG
*
34918340 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34918388 AAT AA
1 AAT AA
34918393 GAGTTTAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:34919264 original size:6 final size:6
Alignment explanation
Indices: 34919249--34919288 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
34919239 ATCTACCCAA
* *
34919249 CCCTGT CCCTGC CCCTGC CCCTGC CCCTGC CTCTGC CCCT
1 CCCTGC CCCTGC CCCTGC CCCTGC CCCTGC CCCTGC CCCT
34919289 TTTCTCCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.62, G:0.15, T:0.23
Consensus pattern (6 bp):
CCCTGC
Found at i:34921635 original size:3 final size:3
Alignment explanation
Indices: 34921627--34921654 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
34921617 CCATGATCTT
34921627 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
34921655 CATCATCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:34933173 original size:46 final size:46
Alignment explanation
Indices: 34933086--34933175 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 46
34933076 GTTGCAATTA
* *
34933086 TAGTGGCTCGACCACACATATCTGTTTTGGTAACTTGACTGCAATG
1 TAGTGGCTCGACCACACATATCTGATTTGGTAACTTAACTGCAATG
* * * **
34933132 TAGTGGCTTGACCACATATATTTGATTTGGTAGTTTAACTGCAA
1 TAGTGGCTCGACCACACATATCTGATTTGGTAACTTAACTGCAA
34933176 CTTTGGTGGC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (46 bp):
TAGTGGCTCGACCACACATATCTGATTTGGTAACTTAACTGCAATG
Found at i:34934005 original size:29 final size:30
Alignment explanation
Indices: 34933962--34934039 Score: 95
Period size: 29 Copynumber: 2.6 Consensus size: 30
34933952 AAATTGAATC
* *
34933962 AAATCAAATTTTCATGTATAAAATCGCACA-
1 AAATCAAA-GTTCATGTACAAAATCGCACAT
* *
34933992 AAATCAAAGTTCATGTACAACATTGCACATT
1 AAATCAAAGTTCATGTACAAAATCGCACA-T
34934023 AAATCAAAGTTCATGTA
1 AAATCAAAGTTCATGTA
34934040 AATATTCATC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 17 0.40
30 8 0.19
31 17 0.40
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (30 bp):
AAATCAAAGTTCATGTACAAAATCGCACAT
Found at i:34940021 original size:39 final size:38
Alignment explanation
Indices: 34939966--34940144 Score: 205
Period size: 39 Copynumber: 4.6 Consensus size: 38
34939956 GAAAGTACTA
* *
34939966 TCAGGAGTACCAAAGTACAACAAGGGCACGTAAGTGCGT
1 TCAGG-GTACCGAAGTACAACAAGGGCACGTAAGTGCAT
*
34940005 TCAGGGATACCGAAGTACAACAAGGGTACGTAAGTGCAT
1 TCAGGG-TACCGAAGTACAACAAGGGCACGTAAGTGCAT
* *
34940044 TCAGTGGTACTGAAGTACAACAGGGGCACGTAAGTGCAT
1 TCAG-GGTACCGAAGTACAACAAGGGCACGTAAGTGCAT
* * * * *
34940083 TTAGGGGTACCGAAGTACAATAGGGGCATGTACGTGCAT
1 TCA-GGGTACCGAAGTACAACAAGGGCACGTAAGTGCAT
* *
34940122 TCAAAGGTACTGAAGTACAACAA
1 TC-AGGGTACCGAAGTACAACAA
34940145 TTTTTCTACA
Statistics
Matches: 120, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
38 1 0.01
39 115 0.96
40 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (38 bp):
TCAGGGTACCGAAGTACAACAAGGGCACGTAAGTGCAT
Found at i:34940108 original size:19 final size:19
Alignment explanation
Indices: 34940007--34940108 Score: 55
Period size: 19 Copynumber: 5.3 Consensus size: 19
34939997 AAGTGCGTTC
* *
34940007 AGGGATACCGAAGTACAAC
1 AGGGGTACCGAAGTACAAT
* * *
34940026 AAGGGTA-CGTAAGTGCATT
1 AGGGGTACCG-AAGTACAAT
* * *
34940045 CAGTGGTACTGAAGTACAAC
1 -AGGGGTACCGAAGTACAAT
* * *
34940065 AGGGGCA-CGTAAGTGCATTT
1 AGGGGTACCG-AAGTACA-AT
34940085 AGGGGTACCGAAGTACAAT
1 AGGGGTACCGAAGTACAAT
34940104 AGGGG
1 AGGGG
34940109 CATGTACGTG
Statistics
Matches: 57, Mismatches: 20, Indels: 12
0.64 0.22 0.13
Matches are distributed among these distances:
18 3 0.05
19 28 0.49
20 23 0.40
21 3 0.05
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.19
Consensus pattern (19 bp):
AGGGGTACCGAAGTACAAT
Found at i:34940120 original size:78 final size:78
Alignment explanation
Indices: 34939978--34940144 Score: 235
Period size: 78 Copynumber: 2.1 Consensus size: 78
34939968 AGGAGTACCA
* *
34939978 AAGTACAACAAGGGCACGTAAGTGCGTTCAGGGATACCGAAGTACAACAAGGGTACGTAAGTGCA
1 AAGTACAACAAGGGCACGTAAGTGCATTCAGGGATACCGAAGTACAACAAGGGCACGTAAGTGCA
**
34940043 TTCAGTGGTACTG
66 TTCAAAGGTACTG
* * * * * * *
34940056 AAGTACAACAGGGGCACGTAAGTGCATTTAGGGGTACCGAAGTACAATAGGGGCATGTACGTGCA
1 AAGTACAACAAGGGCACGTAAGTGCATTCAGGGATACCGAAGTACAACAAGGGCACGTAAGTGCA
34940121 TTCAAAGGTACTG
66 TTCAAAGGTACTG
34940134 AAGTACAACAA
1 AAGTACAACAA
34940145 TTTTTCTACA
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (78 bp):
AAGTACAACAAGGGCACGTAAGTGCATTCAGGGATACCGAAGTACAACAAGGGCACGTAAGTGCA
TTCAAAGGTACTG
Found at i:34947715 original size:25 final size:24
Alignment explanation
Indices: 34947683--34947732 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
34947673 ACCCTTATCA
34947683 TCTCTTCACTT-CTCTCTCATTTTTC
1 TCTCTTCA-TTCCTCTC-CATTTTTC
*
34947708 TCTCTTCATTCCTTTCCATTTTTC
1 TCTCTTCATTCCTCTCCATTTTTC
34947732 T
1 T
34947733 TCATTTCCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.08, C:0.34, G:0.00, T:0.58
Consensus pattern (24 bp):
TCTCTTCATTCCTCTCCATTTTTC
Found at i:34947732 original size:24 final size:25
Alignment explanation
Indices: 34947683--34947732 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
34947673 ACCCTTATCA
34947683 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCTCTCTCATTTTTC
*
34947708 TCTCTTCA-TTC-CTTTCCATTTTTC
1 TCTCTTCACTTCTCTCT-CATTTTTC
34947732 T
1 T
34947733 TCATTTCCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 3 0.13
24 12 0.52
25 8 0.35
ACGTcount: A:0.08, C:0.34, G:0.00, T:0.58
Consensus pattern (25 bp):
TCTCTTCACTTCTCTCTCATTTTTC
Found at i:34957483 original size:26 final size:27
Alignment explanation
Indices: 34957454--34957590 Score: 170
Period size: 27 Copynumber: 5.1 Consensus size: 27
34957444 TATAAAGATC
*
34957454 ATTTTACCCTTAG-GGGTATTACGGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
**
34957480 ATTTTACCCTTAG-GGGTATTTTAGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
* * *
34957506 ATTTTAACCTTTGAGGGTATTTCGATA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
* *
34957533 ATTTTACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
* *
34957560 ATTTTACCCTTTGAGGGTATTTCGATA
1 ATTTTACCCTTAGAGGGTATTTCGGTA
34957587 ATTT
1 ATTT
34957591 ACTCATGAAT
Statistics
Matches: 95, Mismatches: 15, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
26 34 0.36
27 61 0.64
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTAGAGGGTATTTCGGTA
Found at i:34957571 original size:54 final size:53
Alignment explanation
Indices: 34957454--34957590 Score: 204
Period size: 54 Copynumber: 2.6 Consensus size: 53
34957444 TATAAAGATC
* * * *
34957454 ATTTTACCCTTAG-GGGTATTACGGTAATTTTACCCTTAGGGGTATTTTAGTA
1 ATTTTACCCTTTGAGGGTATTTCGATAATTTTACCCTTAGGGGTATTTCAGTA
* *
34957506 ATTTTAACCTTTGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCTTTGAGGGTATTTCGATAATTTTACCCTTAG-GGGTATTTCAGTA
34957560 ATTTTACCCTTTGAGGGTATTTCGATAATTT
1 ATTTTACCCTTTGAGGGTATTTCGATAATTT
34957591 ACTCATGAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
52 11 0.14
53 23 0.30
54 42 0.55
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (53 bp):
ATTTTACCCTTTGAGGGTATTTCGATAATTTTACCCTTAGGGGTATTTCAGTA
Found at i:34958753 original size:571 final size:571
Alignment explanation
Indices: 34957671--34958813 Score: 1914
Period size: 571 Copynumber: 2.0 Consensus size: 571
34957661 ACGGCTTTTT
* *
34957671 GGCTTTTCGCCGATCTACGGTTGCAGTGGGTGATTACACACTTGATTACGAGAAATGCGCCAACC
1 GGCTTTTCGCCGATCTACGGTTGCAGTGGGTGATTACACACCTGATTACGAGAAATGCGCAAACC
* * *
34957736 TCCACGGACACCAACCTAGATTTCATCAAATCACAAGTCAGCCCTTAAAGTAATACACCCTATTA
66 TCCACGCACACCAACCTAGATTTCATCAAATCACAAGTCAGCCCTTAAAGCAAGACACCCTATTA
* *
34957801 ATAACACTTAAACCACACACCATCCTTACCCTGCTTGATAGAGGGTGACTTAACTCCTTCAAGAC
131 ATAACACTTAAACCACACACCATCCTTACCCTGCTTCATAGAAGGTGACTTAACTCCTTCAAGAC
* **
34957866 TCCCAACCGAAAATGGTCACCCACTTAATGATTACCTGTACCACAACACAGATCTTCATAAACTA
196 TCCCAACCGAAAATGGTCACCCACCTAATGATTACCAATACCACAACACAGATCTTCATAAACTA
* *
34957931 ACTTGGCCAAAATAGTGGCCAAGAGGAGTATTCAATTTTAATGAAAAAGAAAGAAAGAGAACCAA
261 ACTAGGACAAAATAGTGGCCAAGAGGAGTATTCAATTTTAATGAAAAAGAAAGAAAGAGAACCAA
34957996 TTTTAAACAAAAAGTGAAGAGTATTCAAACTTTACCGATAACTAGGAATACTTGCAGCACCGAGA
326 TTTTAAACAAAAAGTGAAGAGTATTCAAACTTTACCGATAACTAGGAATACTTGCAGCACCGAGA
* * * *
34958061 CAGTAAAAATAGTGAAGAGAAGATCGGCGCAGAGGAATAGAGCAAAAGGTGATAATCGACTGAAC
391 CAGTAAAAATAGCGAAGAGAAGATCAGCGCAAAGGAATAAAGCAAAAGGTGATAATCGACTGAAC
34958126 CACACTCCAAATAGAGAGATCGCTCTCAGTCAAAAAGAGAAGAAAATAATAAAAGGTAAAATAAA
456 CACACTCCAAATAGAGAGATCGCTCTCAGTCAAAAAGAGAAGAAAATAATAAAAGGTAAAATAAA
*
34958191 ATCAGAACAGAAAGAAAGAGAGGGATAACATAACAAAGAAAAGGAGGAGGA
521 ATCAGAACAGAAAGAAAGAGAGGGATAACATAACAAAGAAAAAGAGGAGGA
*
34958242 GGCTTTTCGTCGATCTACGGTTGCAGTGGGTGATTACACACCTGATTACGAGAAATGCGCAAACC
1 GGCTTTTCGCCGATCTACGGTTGCAGTGGGTGATTACACACCTGATTACGAGAAATGCGCAAACC
* *
34958307 TCCATGCACACCAACCTAGATTTCATCAAATCACAAGTCAGCCCTTAAAGCAAGACACCCTTTTA
66 TCCACGCACACCAACCTAGATTTCATCAAATCACAAGTCAGCCCTTAAAGCAAGACACCCTATTA
*
34958372 ATAACACTTAAACCACACACCATCCTTACCTTGCTTCATAGAAGGTGACTTAACTCCTTCAAGAC
131 ATAACACTTAAACCACACACCATCCTTACCCTGCTTCATAGAAGGTGACTTAACTCCTTCAAGAC
34958437 TCCCAACCGAAAATGGTCACCCACCTAACT-ATTACCAATACCACAACACAGATCTTCATAAACT
196 TCCCAACCGAAAATGGTCACCCACCTAA-TGATTACCAATACCACAACACAGATCTTCATAAACT
* * *
34958501 AACTAGGACAAAATAGTGGCTAAGAGGAGTATTCGATTTTAATGAAAAAGAAAGAAAGAGAACCG
260 AACTAGGACAAAATAGTGGCCAAGAGGAGTATTCAATTTTAATGAAAAAGAAAGAAAGAGAACCA
*
34958566 ATTTTAAACAAAAAGTGAAGAGTATTCAAACTTTACCGATAA-TCAGGAATACTTGTAGCACCGA
325 ATTTTAAACAAAAAGTGAAGAGTATTCAAACTTTACCGATAACT-AGGAATACTTGCAGCACCGA
* * * * *
34958630 GATAGTAAAAATAGCGAGGAGAATATCAGCTCAAAGGAATAAAGCAAAAGGTGATAATCTG-TTG
389 GACAGTAAAAATAGCGAAGAGAAGATCAGCGCAAAGGAATAAAGCAAAAGGTGATAATC-GACTG
* *
34958694 AACTACACTCCAAATAGAGAGATCGCTCTCAGTCAACAAGAGAAGAAAATAATAAAAGGTAAAAT
453 AACCACACTCCAAATAGAGAGATCGCTCTCAGTCAAAAAGAGAAGAAAATAATAAAAGGTAAAAT
* * **
34958759 AAAATCAGAATAGAAAGAAAGAGAGGGATAACCTGTCAAAGAAAAAGAGGAGGA
518 AAAATCAGAACAGAAAGAAAGAGAGGGATAACATAACAAAGAAAAAGAGGAGGA
34958813 G
1 G
34958814 AGGTCAGAGA
Statistics
Matches: 533, Mismatches: 36, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
570 1 0.00
571 530 0.99
572 2 0.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.20
Consensus pattern (571 bp):
GGCTTTTCGCCGATCTACGGTTGCAGTGGGTGATTACACACCTGATTACGAGAAATGCGCAAACC
TCCACGCACACCAACCTAGATTTCATCAAATCACAAGTCAGCCCTTAAAGCAAGACACCCTATTA
ATAACACTTAAACCACACACCATCCTTACCCTGCTTCATAGAAGGTGACTTAACTCCTTCAAGAC
TCCCAACCGAAAATGGTCACCCACCTAATGATTACCAATACCACAACACAGATCTTCATAAACTA
ACTAGGACAAAATAGTGGCCAAGAGGAGTATTCAATTTTAATGAAAAAGAAAGAAAGAGAACCAA
TTTTAAACAAAAAGTGAAGAGTATTCAAACTTTACCGATAACTAGGAATACTTGCAGCACCGAGA
CAGTAAAAATAGCGAAGAGAAGATCAGCGCAAAGGAATAAAGCAAAAGGTGATAATCGACTGAAC
CACACTCCAAATAGAGAGATCGCTCTCAGTCAAAAAGAGAAGAAAATAATAAAAGGTAAAATAAA
ATCAGAACAGAAAGAAAGAGAGGGATAACATAACAAAGAAAAAGAGGAGGA
Found at i:34960986 original size:28 final size:28
Alignment explanation
Indices: 34960929--34960986 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
34960919 TATAAAATAA
* *
34960929 TTAATTTGTACTTAAATTATTAGAATTT
1 TTAATTTGTACTTAAATTATAAGAAATT
* *
34960957 TTAATTT-TACTTAATTTTATAATAAATT
1 TTAATTTGTACTTAA-ATTATAAGAAATT
34960985 TT
1 TT
34960987 GATTAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.57
Consensus pattern (28 bp):
TTAATTTGTACTTAAATTATAAGAAATT
Found at i:34969324 original size:13 final size:14
Alignment explanation
Indices: 34969305--34969342 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
34969295 CAATGGCATA
34969305 GAAATAATATAAAC
1 GAAATAATATAAAC
34969319 -AAATAA-ATAAAC
1 GAAATAATATAAAC
34969331 GAAATTAATATA
1 GAAA-TAATATA
34969343 CAAAAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:34969957 original size:17 final size:17
Alignment explanation
Indices: 34969897--34969969 Score: 60
Period size: 17 Copynumber: 4.3 Consensus size: 17
34969887 AAATAAAAAA
*
34969897 ATATAAAAGTGTATATGC
1 ATATAAAA-TGTATATGT
* *
34969915 ATATAAAA-GT-TAGGAA
1 ATATAAAATGTATATG-T
*
34969931 ATAAAAAATGTATATGT
1 ATATAAAATGTATATGT
* *
34969948 ATATAAAATGTAAATAT
1 ATATAAAATGTATATGT
34969965 ATATA
1 ATATA
34969970 TGTATATAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
15 3 0.07
16 9 0.20
17 21 0.48
18 11 0.25
ACGTcount: A:0.53, C:0.01, G:0.12, T:0.33
Consensus pattern (17 bp):
ATATAAAATGTATATGT
Found at i:34970458 original size:23 final size:24
Alignment explanation
Indices: 34970428--34970485 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 24
34970418 AAATTAAATC
34970428 TCTAAGATTACA-AAATCATATCT
1 TCTAAGATTACATAAATCATATCT
* *
34970451 TCTAAGATTGCATATATCATA---
1 TCTAAGATTACATAAATCATATCT
34970472 TCTAAGATTACATA
1 TCTAAGATTACATA
34970486 TCCTTGAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
23 11 0.35
24 7 0.23
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (24 bp):
TCTAAGATTACATAAATCATATCT
Found at i:34970474 original size:24 final size:23
Alignment explanation
Indices: 34970428--34970474 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
34970418 AAATTAAATC
34970428 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTACAAAATCATATCT
* *
34970451 TCTAAGATTGCATATATCATATCT
1 TCTAAGATTACA-AAATCATATCT
34970475 AAGATTACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (23 bp):
TCTAAGATTACAAAATCATATCT
Found at i:34975275 original size:29 final size:30
Alignment explanation
Indices: 34975233--34975295 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 30
34975223 ACAATATCAA
*
34975233 AAATAATTTGATCTTTATCCAGCCAA-TTT
1 AAATAATTTAATCTTTATCCAGCCAACTTT
34975262 CAAAT-ATTTAATCTTTATCCAGCCAACTTT
1 -AAATAATTTAATCTTTATCCAGCCAACTTT
34975292 AAAT
1 AAAT
34975296 CTCCAATCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.40
Consensus pattern (30 bp):
AAATAATTTAATCTTTATCCAGCCAACTTT
Found at i:34975303 original size:29 final size:29
Alignment explanation
Indices: 34975243--34975306 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
34975233 AAATAATTTG
**
34975243 ATCTTTATCCAGCCAATTTCAAATATTTA
1 ATCTTTATCCAGCCAATTTCAAATATCCA
*
34975272 ATCTTTATCCAGCCAACTTT-AAATCTCCA
1 ATCTTTATCCAGCCAA-TTTCAAATATCCA
34975301 ATCTTT
1 ATCTTT
34975307 CAATCTACTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 28 0.90
30 3 0.10
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (29 bp):
ATCTTTATCCAGCCAATTTCAAATATCCA
Found at i:34976181 original size:28 final size:26
Alignment explanation
Indices: 34976130--34976183 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
34976120 CGAGCCGATA
* *
34976130 TATATTTAGCAAGTTTTGTGCCAGTG
1 TATATTTAGCAAGTTATGTACCAGTG
34976156 TATATTTAGCAAGTACTATGTACCAGTG
1 TATATTTAGCAAGT--TATGTACCAGTG
34976184 ATGGATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.58
28 10 0.42
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (26 bp):
TATATTTAGCAAGTTATGTACCAGTG
Found at i:34984490 original size:11 final size:11
Alignment explanation
Indices: 34984474--34984500 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
34984464 AAAAAATTTA
34984474 AGGTACCAACT
1 AGGTACCAACT
34984485 AGGTACCAACT
1 AGGTACCAACT
34984496 AGGTA
1 AGGTA
34984501 TTTTTGGACA
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:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (11 bp):
AGGTACCAACT
Found at i:34990425 original size:26 final size:26
Alignment explanation
Indices: 34990390--34990441 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
34990380 TAGACATAGC
34990390 TTTTGCAGTGAGCTTAGTGGGTCAAT
1 TTTTGCAGTGAGCTTAGTGGGTCAAT
34990416 TTTTGCAGTGAGCTTAGTGGGTCAAT
1 TTTTGCAGTGAGCTTAGTGGGTCAAT
34990442 ATACTTGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.12, G:0.31, T:0.38
Consensus pattern (26 bp):
TTTTGCAGTGAGCTTAGTGGGTCAAT
Found at i:34996183 original size:38 final size:38
Alignment explanation
Indices: 34996132--34996207 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
34996122 GCATTGTTGC
34996132 AATACAAGTCACTTCAAAGCTGCCAAGAGAGTTCTCAG
1 AATACAAGTCACTTCAAAGCTGCCAAGAGAGTTCTCAG
34996170 AATACAAGTCACTTCAAAGCTGCCAAGAGAGTTCTCAG
1 AATACAAGTCACTTCAAAGCTGCCAAGAGAGTTCTCAG
34996208 GTACATCAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (38 bp):
AATACAAGTCACTTCAAAGCTGCCAAGAGAGTTCTCAG
Found at i:34999216 original size:27 final size:26
Alignment explanation
Indices: 34999175--34999234 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
34999165 CATATGTATC
*
34999175 TTATTATATATATATTTTAT-TTATTT
1 TTATTATATACATATTTTATATT-TTT
34999201 TTATATATATACATATTTTATATTTTT
1 TTAT-TATATACATATTTTATATTTTT
34999228 TTATTAT
1 TTATTAT
34999235 TATATTTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 7 0.23
27 22 0.71
28 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (26 bp):
TTATTATATACATATTTTATATTTTT
Found at i:34999238 original size:33 final size:34
Alignment explanation
Indices: 34999185--34999249 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
34999175 TTATTATATA
*
34999185 TATATTTTATTTATTTTTATATATATACATATTT
1 TATATTTTATTTATTATTATATATATACATATTT
* *
34999219 TATATTTT-TTTATTATTATATTTATGCATAT
1 TATATTTTATTTATTATTATATATATACATAT
34999250 ACACGCATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 20 0.71
34 8 0.29
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (34 bp):
TATATTTTATTTATTATTATATATATACATATTT
Found at i:34999239 original size:23 final size:25
Alignment explanation
Indices: 34999179--34999241 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 25
34999169 TGTATCTTAT
34999179 TATATATATATTTTATTTATTTTTA
1 TATATATATATTTTATTTATTTTTA
34999204 TATATATACATATTTTATATT-TTTTTA
1 TATATAT--ATATTTTAT-TTATTTTTA
34999231 T-TAT-TATATTT
1 TATATATATATTT
34999242 ATGCATATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
23 6 0.17
25 8 0.23
26 3 0.09
27 16 0.46
28 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
TATATATATATTTTATTTATTTTTA
Found at i:35003454 original size:10 final size:10
Alignment explanation
Indices: 35003438--35003494 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 10
35003428 GATTGAATGC
35003438 AAAAAAAAAGG
1 AAAAAAAAA-G
35003449 AAAAAAAAAG
1 AAAAAAAAAG
*
35003459 AAAAAAGAATG
1 AAAAAA-AAAG
*
35003470 AAAAACAAA-
1 AAAAAAAAAG
* *
35003479 AAAAAGAAAC
1 AAAAAAAAAG
35003489 AAAAAA
1 AAAAAA
35003495 CCCTTTACCG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
9 8 0.21
10 14 0.36
11 17 0.44
ACGTcount: A:0.84, C:0.04, G:0.11, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:35004031 original size:7 final size:7
Alignment explanation
Indices: 35004021--35004062 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
35004011 AAAGATGTGA
35004021 AAAAATG
1 AAAAATG
35004028 -AAAATG
1 AAAAATG
35004034 AAAAATG
1 AAAAATG
35004041 AAAAATGG
1 AAAAAT-G
35004049 AAAAA-G
1 AAAAATG
35004055 TAAAAATG
1 -AAAAATG
35004063 GAAAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 7 0.23
7 17 0.55
8 7 0.23
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:35004051 original size:15 final size:15
Alignment explanation
Indices: 35004021--35004066 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
35004011 AAAGATGTGA
35004021 AAAAATG-AAAAT-G
1 AAAAATGAAAAATGG
35004034 AAAAATGAAAAATGG
1 AAAAATGAAAAATGG
35004049 AAAAA-GTAAAAATGG
1 AAAAATG-AAAAATGG
35004064 AAA
1 AAA
35004067 GGCTAAGGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.23
14 6 0.20
15 17 0.57
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (15 bp):
AAAAATGAAAAATGG
Found at i:35005431 original size:49 final size:49
Alignment explanation
Indices: 35005377--35005911 Score: 227
Period size: 50 Copynumber: 10.8 Consensus size: 49
35005367 GTAGCGGAGC
* * *
35005377 AGATTGAAGTCACAACGGCGAATCTGGTTTCCTCGACAACGCAATTAAA
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCTCGACAATGCAATTAAA
*** *** * * **
35005426 AGATTGAAGCCACAACGGCGGATCTTACTTCC-CTGGTGATGCAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCTC-GACAATGCAAT-TAAA
* *
35005476 AGATTGAAGTCACAACGGCGGATCTGGTTTCC-CTGACAGTGCAATTAAA
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCTC-GACAATGCAATTAAA
* * *** * * * * * **
35005525 AGATTGAAGCCATAACGGTGGATCTTACTTCCTTGGCGATGCAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCTCGACAATGCAAT-TAAA
* * *
35005575 AGATTGAAGTCACAACGGCAGATCTGGTTTCCTCGACAGTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCTCGACAATGCAATT-AAA
* * *** * * * * **
35005625 AGATTGAAGCCATAACGGCAGATCTTACTTCC-CTGGCGATGCAGTGGAGC
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCTC-GACAATGCAAT-TAAA
* * * * * * **
35005675 AGATTGAAGTCACAACGACAGATCTAGTTTCCCCGATAGCGCAATTAAA
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCTCGACAATGCAATTAAA
* *** * ** * **
35005724 AGATTGAAGCCACAACGGCAGATCTTACTT-CTCTGGCGGTGCAATGGAGC
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCTC-GACAATGCAAT-TAAA
* * * * **
35005774 AGATTGAAGTCACAGCAGCAGATCTGGTTTCC-CTGACAGCGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCTC-GACAATGCAATT-AAA
**** * * * *
35005824 AGATTGAAGCCACAACGGCGGATCTTACCTCCT-TAGCAGTGCAGTTGAAC
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCTCGA-CAATGCAATT-AAA
* * *
35005874 AGATTGAAGCTACGACGGCGGATCTTGTTTCCTCGACA
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCTCGACA
35005912 TTGTAATTGG
Statistics
Matches: 346, Mismatches: 125, Indels: 29
0.69 0.25 0.06
Matches are distributed among these distances:
48 3 0.01
49 102 0.29
50 238 0.69
51 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (49 bp):
AGATTGAAGCCACAACGGCGGATCTGGTTTCCTCGACAATGCAATTAAA
Found at i:35005490 original size:50 final size:50
Alignment explanation
Indices: 35005426--35005851 Score: 269
Period size: 50 Copynumber: 8.6 Consensus size: 50
35005416 CGCAATTAAA
* * *
35005426 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGTGATGCAGTGGAGC
1 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGATGCAATGGAGC
* * *** * * **
35005476 AGATTGAAGTCACAACGGCGGATCTGGTTTCCCTGAC-AGTGCAAT-TAAA
1 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGA-TGCAATGGAGC
* ** * *
35005525 AGATTGAAGCCATAACGGTGGATCTTACTTCCTTGGCGATGCAGTGGAGC
1 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGATGCAATGGAGC
* ** * * ** **
35005575 AGATTGAAGTCACAACGGCAGATC-TGGTTTCCTCGAC-AGTGCAATTAAAA
1 AGATTGAAGCCACAACGGCAGATCTTACTTCCCT-GGCGA-TGCAATGGAGC
* *
35005625 AGATTGAAGCCATAACGGCAGATCTTACTTCCCTGGCGATGCAGTGGAGC
1 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGATGCAATGGAGC
* * * * **
35005675 AGATTGAAGTCACAACGACAGATC-TAGTTTCCC---CGATAGCGCAAT-TAAA
1 AGATTGAAGCCACAACGGCAGATCTTA-CTTCCCTGGCGAT---GCAATGGAGC
* *
35005724 AGATTGAAGCCACAACGGCAGATCTTACTTCTCTGGCGGTGCAATGGAGC
1 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGATGCAATGGAGC
* * * *** * * ** **
35005774 AGATTGAAGTCACAGCAGCAGATCTGGTTTCCCTGAC-AGCGCAATTAAAA
1 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGA-TGCAATGGAGC
*
35005824 AGATTGAAGCCACAACGGCGGATCTTAC
1 AGATTGAAGCCACAACGGCAGATCTTAC
35005852 CTCCTTAGCA
Statistics
Matches: 275, Mismatches: 84, Indels: 34
0.70 0.21 0.09
Matches are distributed among these distances:
47 4 0.01
49 76 0.28
50 185 0.67
51 7 0.03
52 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGATGCAATGGAGC
Found at i:35005548 original size:99 final size:99
Alignment explanation
Indices: 35005372--35005905 Score: 718
Period size: 99 Copynumber: 5.4 Consensus size: 99
35005362 ACGTTGTAGC
*
35005372 GGAGCAGATTGAAGTCACAACGGC-GAATCTGGTTT-CCTCGACAACGCAATTAAAAGATTGAAG
1 GGAGCAGATTGAAGTCACAACGGCAG-ATCTGGTTTCCCT-GACAGCGCAATTAAAAGATTGAAG
*
35005435 CCACAACGGCGGATCTTACTTCCCTGGTGATGCAGT
64 CCACAACGGCGGATCTTACTTCCCTGGCGATGCAGT
* *
35005471 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCTGACAGTGCAATTAAAAGATTGAAGCC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCTGACAGCGCAATTAAAAGATTGAAGCC
* * *
35005536 ATAACGGTGGATCTTACTTCCTTGGCGATGCAGT
66 ACAACGGCGGATCTTACTTCCCTGGCGATGCAGT
*
35005570 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTT-CCTCGACAGTGCAATTAAAAAGATTGAAG
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCT-GACAGCGCAATT-AAAAGATTGAAG
* *
35005634 CCATAACGGCAGATCTTACTTCCCTGGCGATGCAGT
64 CCACAACGGCGGATCTTACTTCCCTGGCGATGCAGT
* * * *
35005670 GGAGCAGATTGAAGTCACAACGACAGATCTAGTTTCCCCGATAGCGCAATTAAAAGATTGAAGCC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCTGACAGCGCAATTAAAAGATTGAAGCC
* * * *
35005735 ACAACGGCAGATCTTACTTCTCTGGCGGTGCAAT
66 ACAACGGCGGATCTTACTTCCCTGGCGATGCAGT
* *
35005769 GGAGCAGATTGAAGTCACAGCAGCAGATCTGGTTTCCCTGACAGCGCAATTAAAAAGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCTGACAGCGCAATT-AAAAGATTGAAGC
* * *
35005834 CACAACGGCGGATCTTACCTCCTTAGC-AGTGCAGT
65 CACAACGGCGGATCTTACTTCCCTGGCGA-TGCAGT
* * * * *
35005869 TGAACAGATTGAAG-CTACGACGGCGGATCTTGTTTCC
1 GGAGCAGATTGAAGTC-ACAACGGCAGATCTGGTTTCC
35005906 TCGACATTGT
Statistics
Matches: 388, Mismatches: 39, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
98 3 0.01
99 223 0.57
100 160 0.41
101 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (99 bp):
GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCTGACAGCGCAATTAAAAGATTGAAGCC
ACAACGGCGGATCTTACTTCCCTGGCGATGCAGT
Found at i:35005721 original size:199 final size:199
Alignment explanation
Indices: 35005372--35005882 Score: 744
Period size: 199 Copynumber: 2.6 Consensus size: 199
35005362 ACGTTGTAGC
*
35005372 GGAGCAGATTGAAGTCACAACGGC-GAATCTGGTTTCCTCGACAACGCAATT-AAAAGATTGAAG
1 GGAGCAGATTGAAGTCACAACGGCAG-ATCTGGTTTCCTCGACAGCGCAATTAAAAAGATTGAAG
* * *
35005435 CCACAACGGCGGATCTTACTTCCCTGGTGATGCAGTGGAGCAGATTGAAGTCACAACGGCGGATC
65 CCACAACGGCGGATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTGAAGTCACAACGACAGATC
* * * * **
35005500 TGGTTTCCCTGACAGTGCAATTAAAAGATTGAAGCCATAACGGTGGATCTTACTTC-CTTGGCGA
130 TAGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCCACAACGGCAGATCTTACTTCTC-TGGCGA
*
35005564 TGCAGT
194 TGCAAT
*
35005570 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCTCGACAGTGCAATTAAAAAGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCTCGACAGCGCAATTAAAAAGATTGAAGC
* *
35005635 CATAACGGCAGATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTGAAGTCACAACGACAGATCT
66 CACAACGGCGGATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTGAAGTCACAACGACAGATCT
* *
35005700 AGTTTCCCCGATAGCGCAATTAAAAGATTGAAGCCACAACGGCAGATCTTACTTCTCTGGCGGTG
131 AGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCCACAACGGCAGATCTTACTTCTCTGGCGATG
35005765 CAAT
196 CAAT
* *
35005769 GGAGCAGATTGAAGTCACAGCAGCAGATCTGGTTTCC-CTGACAGCGCAATTAAAAAGATTGAAG
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCTC-GACAGCGCAATTAAAAAGATTGAAG
* * * * *
35005833 CCACAACGGCGGATCTTACCTCCTTAGC-AGTGCAGTTGAACAGATTGAAG
65 CCACAACGGCGGATCTTACTTCCCTGGCGA-TGCAGTGGAGCAGATTGAAG
35005883 CTACGACGGC
Statistics
Matches: 282, Mismatches: 26, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
198 49 0.17
199 232 0.82
200 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (199 bp):
GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCTCGACAGCGCAATTAAAAAGATTGAAGC
CACAACGGCGGATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTGAAGTCACAACGACAGATCT
AGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCCACAACGGCAGATCTTACTTCTCTGGCGATG
CAAT
Found at i:35007305 original size:29 final size:27
Alignment explanation
Indices: 35007256--35007320 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 27
35007246 CATATGTATC
*
35007256 TTATTATATATATATTTTATTTATTTA
1 TTATTATATACATATTTTATTTATTTA
*
35007283 -TATATATATACATATTTTATATTTTTTTA
1 TTAT-TATATACATA-TTT-TATTTATTTA
35007312 TTATTATAT
1 TTATTATAT
35007321 TTATGCATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 3 0.09
27 9 0.28
28 3 0.09
29 14 0.44
30 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (27 bp):
TTATTATATACATATTTTATTTATTTA
Found at i:35007320 original size:33 final size:34
Alignment explanation
Indices: 35007266--35007330 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
35007256 TTATTATATA
35007266 TATATTTTATTTATTTATATATATATACATATTT
1 TATATTTTATTTATTTATATATATATACATATTT
* *
35007300 TATATTTT-TTTA-TTATTATATTTATGCATAT
1 TATATTTTATTTATTTA-TATATATATACATAT
35007331 ACACGCATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 3 0.11
33 17 0.61
34 8 0.29
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (34 bp):
TATATTTTATTTATTTATATATATATACATATTT
Found at i:35009444 original size:16 final size:16
Alignment explanation
Indices: 35009423--35009457 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
35009413 GCACTTTGAC
35009423 TAAAATTAATAGGCTG
1 TAAAATTAATAGGCTG
35009439 TAAAATTAATAGGCTG
1 TAAAATTAATAGGCTG
35009455 TAA
1 TAA
35009458 GACTTGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (16 bp):
TAAAATTAATAGGCTG
Found at i:35012938 original size:17 final size:18
Alignment explanation
Indices: 35012904--35012949 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
35012894 CCGTTATGTC
35012904 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
35012919 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
35012936 CGCGACCGCGACCG
1 CGCGACCGCGACCG
35012950 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:35016917 original size:24 final size:23
Alignment explanation
Indices: 35016855--35016919 Score: 60
Period size: 29 Copynumber: 2.6 Consensus size: 23
35016845 TTAAAACGTT
35016855 TTCTATA-AGTCTTTTTTGTCTG
1 TTCTATAGAGTCTTTTTTGTCTG
35016877 TTCTGTACTTTAAGAGTCTTTTTTGTCTG
1 TTC--TA---T-AGAGTCTTTTTTGTCTG
35016906 TTCTATAGGAGTCT
1 TTCTATA-GAGTCT
35016920 ATAATACTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
22 3 0.09
23 1 0.03
24 9 0.26
27 3 0.09
28 1 0.03
29 18 0.51
ACGTcount: A:0.15, C:0.14, G:0.17, T:0.54
Consensus pattern (23 bp):
TTCTATAGAGTCTTTTTTGTCTG
Found at i:35020742 original size:29 final size:29
Alignment explanation
Indices: 35020710--35020767 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
35020700 TGTATAACCC
* *
35020710 ATATTAATTTGA-AAATAATTTCTTATTTT
1 ATATTAATTTGATAAA-AATCTCTAATTTT
*
35020739 ATATTATTTTGATAAAAATCTCTAATTTT
1 ATATTAATTTGATAAAAATCTCTAATTTT
35020768 TAAACTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.53
Consensus pattern (29 bp):
ATATTAATTTGATAAAAATCTCTAATTTT
Found at i:35022109 original size:18 final size:17
Alignment explanation
Indices: 35022086--35022145 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
35022076 TATGATATGG
35022086 AACTTATTCAGTTTATTA
1 AACTTATTCAGTTTA-TA
*
35022104 AACTTAATTAAAG--TATA
1 AACTT-ATT-CAGTTTATA
35022121 AACTTATTTCAGTTTATA
1 AACTTA-TTCAGTTTATA
35022139 AA-TTATT
1 AACTTATT
35022146 TGAAAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
16 5 0.14
17 12 0.34
18 13 0.37
19 3 0.09
20 2 0.06
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (17 bp):
AACTTATTCAGTTTATA
Found at i:35023276 original size:22 final size:22
Alignment explanation
Indices: 35023248--35023297 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
35023238 ACAAATCCTA
35023248 TCTCAATTTCCTTCC-AAAATCC
1 TCTCAATTTCCTTCCAAAAAT-C
35023270 TCTCAATTTCCTTCCAAAAATC
1 TCTCAATTTCCTTCCAAAAATC
35023292 TCTCAA
1 TCTCAA
35023298 ATCCATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.30, C:0.34, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAAATC
Found at i:35023366 original size:31 final size:31
Alignment explanation
Indices: 35023331--35023393 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
35023321 CCTCAATTTC
35023331 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
1 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
35023362 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
1 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
35023393 A
1 A
35023394 GTTTCATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (31 bp):
ATTTTTTAAAAATAATTTTAAATTTTTTTAT
Found at i:35025751 original size:29 final size:29
Alignment explanation
Indices: 35025694--35025950 Score: 433
Period size: 29 Copynumber: 8.8 Consensus size: 29
35025684 TAAAAAATCA
*
35025694 TAATTTAATTAAAAACCCTAAACACTAACC
1 TAATTTAATTAAAAACCCT-AACCCTAACC
35025724 TAATTTAATTAAAAACCCTAACCCTAACC
1 TAATTTAATTAAAAACCCTAACCCTAACC
*
35025753 TAATTTAATTAAAAACCCTAACCCTAACT
1 TAATTTAATTAAAAACCCTAACCCTAACC
*
35025782 TAATTTAATTAAAAACCCTAACCCTACCC
1 TAATTTAATTAAAAACCCTAACCCTAACC
*
35025811 TAATTTAATTAAAAACCCTAACCCTAACT
1 TAATTTAATTAAAAACCCTAACCCTAACC
* *
35025840 TAATTTAATTAAAAATCCTAACCCTAACA
1 TAATTTAATTAAAAACCCTAACCCTAACC
35025869 TAATTTAATTAAAAACCCTAACCCTAACC
1 TAATTTAATTAAAAACCCTAACCCTAACC
*
35025898 TAATTTAATTAAAAACCCTAAACCCTAACT
1 TAATTTAATTAAAAACCCT-AACCCTAACC
35025928 TAATTTAATTAAAAACCCTAACC
1 TAATTTAATTAAAAACCCTAACC
35025951 ATTAACAAAA
Statistics
Matches: 215, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
29 168 0.78
30 47 0.22
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (29 bp):
TAATTTAATTAAAAACCCTAACCCTAACC
Found at i:35029373 original size:124 final size:124
Alignment explanation
Indices: 35029146--35029425 Score: 454
Period size: 124 Copynumber: 2.2 Consensus size: 124
35029136 CACGAGGGCA
*
35029146 CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAGTATTTCTTACATGACCAACTGTAGCA
1 CGATTTTATACTATTTGCTCAGAAACGTC-AAAAAAAAGTATTTCTTACATGACCAACTATAGCA
* *
35029211 AAATTGCGTCCACGAGGGCACGATTTCACAATTCCTTCTCAAATAGCATCCTGGTAGAAG
65 AAATCGCGTCCACGAGGGCACGATTTCAAAATTCCTTCTCAAATAGCATCCTGGTAGAAG
* * *
35029271 CGATTTTATACTATTTGCTCAGAAATGTCAAAAAAAATTATTTCTTACATGACCAACTATAGCGA
1 CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAGTATTTCTTACATGACCAACTATAGCAA
*
35029336 AATCGCGTCCACGAGGGCACGATTTCAAAATTTCTTCTCAAATAGCATCCTGGTAGAAG
66 AATCGCGTCCACGAGGGCACGATTTCAAAATTCCTTCTCAAATAGCATCCTGGTAGAAG
* *
35029395 TGATTTTAAACTATTTGAC-CAGAAACGTCAA
1 CGATTTTATACTATTTG-CTCAGAAACGTCAA
35029426 CTCGAAATAA
Statistics
Matches: 144, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
124 115 0.80
125 29 0.20
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.29
Consensus pattern (124 bp):
CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAGTATTTCTTACATGACCAACTATAGCAA
AATCGCGTCCACGAGGGCACGATTTCAAAATTCCTTCTCAAATAGCATCCTGGTAGAAG
Found at i:35031237 original size:43 final size:43
Alignment explanation
Indices: 35031184--35031328 Score: 166
Period size: 43 Copynumber: 3.4 Consensus size: 43
35031174 CTTTATGTGA
* * *
35031184 AAAAAATGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTAT
1 AAAAAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTAT
* * * *
35031227 AAAAAATGCCGCTAAAGAACATGTCTTTTAGCAGCGC-TTTACC
1 AAAAAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTA-T
* * *
35031270 CACAAACGCCACTAAAGAACATGACCTTTAGCAGCGCTTTTAT
1 AAAAAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTAT
* *
35031313 CACAAACGCCGCTAAA
1 AAAAAACGCCGCTAAA
35031329 CAAACTCCGT
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 4 0.05
43 79 0.91
44 4 0.05
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTAT
Found at i:35031397 original size:43 final size:43
Alignment explanation
Indices: 35031328--35031513 Score: 205
Period size: 43 Copynumber: 4.3 Consensus size: 43
35031318 ACGCCGCTAA
* * *
35031328 ACAAACTCCGTTAAAGAACATAACCTTTAGCGGCGCTTTTATC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATC
* *
35031371 ACAAACGCCGCTAAAGAGCATGACCTTTTGCGGCGCTTTTATC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATC
* * * * * *
35031414 ACAAACGCTGCTATAGAGA-ATGACTTTTAGTGGC-TTTTTTTC
1 ACAAACGCCGCTAAAGA-ACATGACCTTTAGCGGCGCTTTTATC
** * *
35031456 ACAAATTCCGCTAAAGAACATGATCTTTAGCGGTGCTTTTATC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATC
*
35031499 ACAAACGCCGTTAAA
1 ACAAACGCCGCTAAA
35031514 AGTATCGTTC
Statistics
Matches: 114, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
41 1 0.01
42 30 0.26
43 83 0.73
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATC
Found at i:35031412 original size:100 final size:100
Alignment explanation
Indices: 35031239--35031426 Score: 270
Period size: 100 Copynumber: 1.9 Consensus size: 100
35031229 AAAATGCCGC
** *
35031239 TAAAGAACATGTCTTTTAGCAGCGCTTTACCCACAAACGCCACTAAAGAACATGACCTTTAGCAG
1 TAAAGAACATAACCTTTAGCAGCGCTTTACCCACAAACGCCACTAAAGAACATGACCTTTAGCAG
35031304 CGCTTTTATCACAAACGCCGCTAAACAAACTCCGT
66 CGCTTTTATCACAAACGCCGCTAAACAAACTCCGT
* * * * * *
35031339 TAAAGAACATAACCTTTAGCGGCGCTTTTA-TCACAAACGCCGCTAAAGAGCATGACCTTTTGCG
1 TAAAGAACATAACCTTTAGCAGCGC-TTTACCCACAAACGCCACTAAAGAACATGACCTTTAGCA
*
35031403 GCGCTTTTATCACAAACGCTGCTA
65 GCGCTTTTATCACAAACGCCGCTA
35031427 TAGAGAATGA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 73 0.95
101 4 0.05
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (100 bp):
TAAAGAACATAACCTTTAGCAGCGCTTTACCCACAAACGCCACTAAAGAACATGACCTTTAGCAG
CGCTTTTATCACAAACGCCGCTAAACAAACTCCGT
Found at i:35034586 original size:42 final size:42
Alignment explanation
Indices: 35034532--35034653 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
35034522 GATTTGAGAT
*
35034532 TTACGTGTAAGACCATGTCTGGGACGTTGACATTGTATATGA
1 TTACGTGTAAGACCATGTCTGGGACGTTGGCATTGTATATGA
* * * *
35034574 TTACGTGTAAGACCCTGTCTAGGACAG-TGGCATCGTTATTTGA
1 TTACGTGTAAGACCATGTCTGGGAC-GTTGGCATTG-TATATGA
* * *
35034617 TTACATGTAAGACCATGTTTGGGACATTGGCATTGTA
1 TTACGTGTAAGACCATGTCTGGGACGTTGGCATTGTA
35034654 CGAGCTTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 31 0.47
43 35 0.53
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACGTTGGCATTGTATATGA
Found at i:35037856 original size:7 final size:7
Alignment explanation
Indices: 35037844--35038013 Score: 111
Period size: 7 Copynumber: 24.6 Consensus size: 7
35037834 AATCAGACCC
35037844 TAAACCT
1 TAAACCT
*
35037851 TAAACCC
1 TAAACCT
*
35037858 TAAACTT
1 TAAACCT
35037865 TAAACCT
1 TAAACCT
35037872 TAAACCT
1 TAAACCT
35037879 TAAACCT
1 TAAACCT
* *
35037886 TAAGCCCC
1 TAA-ACCT
35037894 T-AACACT
1 TAAAC-CT
*
35037901 TAAACCC
1 TAAACCT
*
35037908 TAAACCC
1 TAAACCT
35037915 TAAACAC-
1 TAAAC-CT
*
35037922 TAAACCA
1 TAAACCT
35037929 TAAACC-
1 TAAACCT
* *
35037935 TACACCA
1 TAAACCT
35037942 TAAA-CT
1 TAAACCT
35037948 GTAAACAC-
1 -TAAAC-CT
* *
35037956 TAAATCA
1 TAAACCT
*
35037963 TAAACCC
1 TAAACCT
35037970 TAAACCT
1 TAAACCT
35037977 TAAA-CT
1 TAAACCT
* *
35037983 CAAACCA
1 TAAACCT
35037990 TAAACC-
1 TAAACCT
*
35037996 TACACCT
1 TAAACCT
35038003 TAAACCT
1 TAAACCT
35038010 TAAA
1 TAAA
35038014 TATACATTAC
Statistics
Matches: 130, Mismatches: 21, Indels: 24
0.74 0.12 0.14
Matches are distributed among these distances:
6 19 0.15
7 103 0.79
8 7 0.05
9 1 0.01
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCT
Found at i:35037945 original size:20 final size:20
Alignment explanation
Indices: 35037922--35038013 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
35037912 CCCTAAACAC
35037922 TAAACCATAAACCTACACCA
1 TAAACCATAAACCTACACCA
** * *
35037942 TAAACTGTAAACACTAAATCA
1 TAAACCATAAAC-CTACACCA
* *
35037963 TAAACCCTAAACCTTA-AAC-
1 TAAACCATAAACC-TACACCA
*
35037982 TCAAACCATAAACCTACACCT
1 T-AAACCATAAACCTACACCA
*
35038003 TAAACCTTAAA
1 TAAACCATAAA
35038014 TATACATTAC
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
19 3 0.05
20 35 0.61
21 19 0.33
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.21
Consensus pattern (20 bp):
TAAACCATAAACCTACACCA
Found at i:35037953 original size:34 final size:35
Alignment explanation
Indices: 35037901--35037982 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 35
35037891 CCCTAACACT
* **
35037901 TAAACCCTAAACCCTAAACACTAAACCATAAA-CC
1 TAAACCATAAACTGTAAACACTAAACCATAAACCC
* *
35037935 TACACCATAAACTGTAAACACTAAATCATAAACCC
1 TAAACCATAAACTGTAAACACTAAACCATAAACCC
*
35037970 TAAACCTTAAACT
1 TAAACCATAAACT
35037983 CAAACCATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 27 0.68
35 13 0.32
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.20
Consensus pattern (35 bp):
TAAACCATAAACTGTAAACACTAAACCATAAACCC
Found at i:35037973 original size:48 final size:48
Alignment explanation
Indices: 35037901--35037994 Score: 118
Period size: 48 Copynumber: 2.0 Consensus size: 48
35037891 CCCTAACACT
* * *
35037901 TAAACCCTAAACCCTAAACACTAAACCATAAAC-CTACACCATAAACTG
1 TAAACACTAAACCATAAACACTAAACCATAAACTC-AAACCATAAACTG
* * *
35037949 TAAACACTAAATCATAAACCCTAAACCTTAAACTCAAACCATAAAC
1 TAAACACTAAACCATAAACACTAAACCATAAACTCAAACCATAAAC
35037995 CTACACCTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 38 0.97
49 1 0.03
ACGTcount: A:0.50, C:0.31, G:0.01, T:0.18
Consensus pattern (48 bp):
TAAACACTAAACCATAAACACTAAACCATAAACTCAAACCATAAACTG
Found at i:35038201 original size:7 final size:7
Alignment explanation
Indices: 35038185--35038230 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
35038175 AGTAAACCCC
*
35038185 AAACCCT
1 AAACCAT
*
35038192 AAACTAT
1 AAACCAT
35038199 AAACCAT
1 AAACCAT
35038206 AAACCAT
1 AAACCAT
35038213 AAACCAT
1 AAACCAT
*
35038220 AAACCCT
1 AAACCAT
35038227 AAAC
1 AAAC
35038231 TCAAAACTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.54, C:0.30, G:0.00, T:0.15
Consensus pattern (7 bp):
AAACCAT
Found at i:35038237 original size:14 final size:14
Alignment explanation
Indices: 35038177--35038230 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
35038167 TATAAAATAG
* *
35038177 TAAACCCCAAACCC
1 TAAACCCTAAACCA
**
35038191 TAAACTATAAACCA
1 TAAACCCTAAACCA
*
35038205 TAAACCATAAACCA
1 TAAACCCTAAACCA
35038219 TAAACCCTAAAC
1 TAAACCCTAAAC
35038231 TCAAAACTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:35038237 original size:21 final size:21
Alignment explanation
Indices: 35038177--35038230 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
35038167 TATAAAATAG
* *
35038177 TAAACCCCAAACCCTAAACTA
1 TAAACCCTAAACCCTAAACCA
* *
35038198 TAAACCATAAACCATAAACCA
1 TAAACCCTAAACCCTAAACCA
35038219 TAAACCCTAAAC
1 TAAACCCTAAAC
35038231 TCAAAACTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (21 bp):
TAAACCCTAAACCCTAAACCA
Found at i:35038326 original size:14 final size:14
Alignment explanation
Indices: 35038267--35038327 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
35038257 ATATATATCA
*
35038267 TAAACCCTAAAAACC
1 TAAACCCTAAACA-C
* *
35038282 TAAACCATAAACAT
1 TAAACCCTAAACAC
* * *
35038296 TAAAACTTAAATAC
1 TAAACCCTAAACAC
*
35038310 TAAACCCTAAACCC
1 TAAACCCTAAACAC
35038324 TAAA
1 TAAA
35038328 ATAAAATGAT
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
14 24 0.69
15 11 0.31
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACAC
Found at i:35038766 original size:40 final size:40
Alignment explanation
Indices: 35038682--35038837 Score: 134
Period size: 40 Copynumber: 3.9 Consensus size: 40
35038672 TTTTTGTGAC
* * * * * * *
35038682 GTTTTCCAAAAAGCGCCCCTAATGCTAGATCTATATCAGC
1 GTTTTTCAAAAAGCACCGCTAATGCTTGATCTATAACGGA
* * * *
35038722 GTTTTTCCAATAGCACCGCTAATGCTTGATTTATAACGGT
1 GTTTTTCAAAAAGCACCGCTAATGCTTGATCTATAACGGA
* * *
35038762 GTTTTTCAAAAAGTGC-CCACTAATGCTCGATCTATAGCGGA
1 GTTTTTCAAAAA--GCACCGCTAATGCTTGATCTATAACGGA
* * *
35038803 GTTTTTTAAAAACCACCGCTAATGCTTGACCTATA
1 GTTTTTCAAAAAGCACCGCTAATGCTTGATCTATA
35038838 GCGACATTTG
Statistics
Matches: 91, Mismatches: 22, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
39 1 0.01
40 57 0.63
41 31 0.34
42 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (40 bp):
GTTTTTCAAAAAGCACCGCTAATGCTTGATCTATAACGGA
Found at i:35038820 original size:81 final size:80
Alignment explanation
Indices: 35038682--35038831 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 80
35038672 TTTTTGTGAC
* * * * *
35038682 GTTTTCCAAAAAGCGCCCCTAATGCTAGATCTATATCAGCGTTTTTCCAATAGCACCGCTAATGC
1 GTTTTCCAAAAAGCGCCCCTAATGCTAGATCTATAGCAGAGTTTTTCAAAAACCACCGCTAATGC
35038747 TTGATTTATAACGGT
66 TTGATTTATAACGGT
* * * * *
35038762 GTTTTTCAAAAAGTGCCCACTAATGCTCGATCTATAGCGGAGTTTTTTAAAAACCACCGCTAATG
1 GTTTTCCAAAAAGCGCCC-CTAATGCTAGATCTATAGCAGAGTTTTTCAAAAACCACCGCTAATG
35038827 CTTGA
65 CTTGA
35038832 CCTATAGCGA
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
80 16 0.27
81 43 0.73
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.32
Consensus pattern (80 bp):
GTTTTCCAAAAAGCGCCCCTAATGCTAGATCTATAGCAGAGTTTTTCAAAAACCACCGCTAATGC
TTGATTTATAACGGT
Found at i:35040044 original size:19 final size:19
Alignment explanation
Indices: 35040022--35040058 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
35040012 TTTAAGGATC
35040022 TTTTT-GGTTATTA-ATTAA
1 TTTTTAGGTT-TTAGATTAA
35040040 TTTTTAGGTTTTAGATTAA
1 TTTTTAGGTTTTAGATTAA
35040059 AGCTTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (19 bp):
TTTTTAGGTTTTAGATTAA
Found at i:35041736 original size:48 final size:47
Alignment explanation
Indices: 35041531--35041736 Score: 163
Period size: 46 Copynumber: 4.4 Consensus size: 47
35041521 CATGCTATTT
* *
35041531 TTTGTGTAGGTTCAACCCTTACGAGTGATC-AGACACTATTA-TCTGA
1 TTTGTGTAGGTTCAACCCTTACGAGTGACCAAGA-ACTATGATTCTGA
* * * *
35041577 TTCGTGTAGGTTCAACCCTTACG-GTTGACCAAGGACTATGATTTATTA
1 TTTGTGTAGGTTCAACCCTTACGAG-TGACCAAGAACTATGA-TTCTGA
* * * * * *
35041625 TTTGTGTAGGTTTAATCCTTA-TAGGTGA-CTAGAAAGTATTATTC-GA
1 TTTGTGTAGGTTCAACCCTTACGA-GTGACCAAG-AACTATGATTCTGA
* * *
35041671 TTTATGTAGGTTCAACCCTTACGAGTGACCAAGAATTATGATTCATTA
1 TTTGTGTAGGTTCAACCCTTACGAGTGACCAAGAACTATGATTC-TGA
* *
35041719 TTTTTGTAGGTTTAACCC
1 TTTGTGTAGGTTCAACCC
35041737 AAATGGGTAA
Statistics
Matches: 123, Mismatches: 26, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
45 1 0.01
46 64 0.52
47 11 0.09
48 46 0.37
49 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (47 bp):
TTTGTGTAGGTTCAACCCTTACGAGTGACCAAGAACTATGATTCTGA
Found at i:35041759 original size:94 final size:94
Alignment explanation
Indices: 35041560--35041759 Score: 242
Period size: 94 Copynumber: 2.1 Consensus size: 94
35041550 TACGAGTGAT
* * *
35041560 CAGACACTATTATCTGATTCGTGTAGGTTCAACCCTTACGGTTGACCAAGGACTATGATTTATTA
1 CAGACACTATTATCTGATTCATGTAGGTTCAACCCTTACGGTTGACCAAGAACTATGATTCATTA
* ** *
35041625 TTTGTGTAGGTTTAATCCTTATAGGTGAC
66 TTTGTGTAGGTTTAACCCAAATAGGTAAC
* * * * *
35041654 TAGAAAGTATTAT-TCGATTTATGTAGGTTCAACCCTTACGAG-TGACCAAGAATTATGATTCAT
1 CAGACACTATTATCT-GATTCATGTAGGTTCAACCCTTACG-GTTGACCAAGAACTATGATTCAT
* *
35041717 TATTTTTGTAGGTTTAACCCAAATGGGTAAC
64 TATTTGTGTAGGTTTAACCCAAATAGGTAAC
35041748 CAGACACTATTA
1 CAGACACTATTA
35041760 CTTTTACCTG
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
93 1 0.01
94 85 0.98
95 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (94 bp):
CAGACACTATTATCTGATTCATGTAGGTTCAACCCTTACGGTTGACCAAGAACTATGATTCATTA
TTTGTGTAGGTTTAACCCAAATAGGTAAC
Found at i:35043505 original size:20 final size:20
Alignment explanation
Indices: 35043480--35043547 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
35043470 CTTCAATTAT
35043480 TTAATTCAAAAAACCTCAAA
1 TTAATTCAAAAAACCTCAAA
* ** *
35043500 TTAATTCTCAAGTA--TTAAA
1 TTAATTC-AAAAAACCTCAAA
35043519 TAATAATTCAAAAAACCTCAAA
1 T--TAATTCAAAAAACCTCAAA
35043541 TTAATTC
1 TTAATTC
35043548 TCAAGTATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
19 5 0.14
20 16 0.46
21 9 0.26
22 5 0.14
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.32
Consensus pattern (20 bp):
TTAATTCAAAAAACCTCAAA
Found at i:35043551 original size:22 final size:22
Alignment explanation
Indices: 35043485--35043551 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
35043475 ATTATTTAAT
35043485 TCAAAAAACCTCAAATTAATTC
1 TCAAAAAACCTCAAATTAATTC
** *
35043507 TC-AAGTA--TTAAA-TAATAAT-
1 TCAAAAAACCTCAAATTAAT--TC
35043526 TCAAAAAACCTCAAATTAATTC
1 TCAAAAAACCTCAAATTAATTC
35043548 TCAA
1 TCAA
35043552 GTATTTAGCG
Statistics
Matches: 32, Mismatches: 6, Indels: 14
0.62 0.12 0.27
Matches are distributed among these distances:
18 4 0.12
19 6 0.19
20 4 0.12
21 4 0.12
22 10 0.31
23 4 0.12
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.30
Consensus pattern (22 bp):
TCAAAAAACCTCAAATTAATTC
Found at i:35044327 original size:24 final size:24
Alignment explanation
Indices: 35044300--35044349 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
35044290 CGATGTACTA
*
35044300 TCAGTCTAATCATTCACATCTATG
1 TCAGTCTAATCAGTCACATCTATG
35044324 TCAGTCTAATCAGTCACATCTATG
1 TCAGTCTAATCAGTCACATCTATG
35044348 TC
1 TC
35044350 TCTATCTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.36
Consensus pattern (24 bp):
TCAGTCTAATCAGTCACATCTATG
Found at i:35057033 original size:107 final size:107
Alignment explanation
Indices: 35056847--35057063 Score: 407
Period size: 107 Copynumber: 2.0 Consensus size: 107
35056837 ACGATATGTG
*
35056847 TTAGGGTTTTTGGCCAAATTGGTTTGAATATGCTTTACATGTTATTCTTTATATGAATGAATGGT
1 TTAGGGTTTTTGGCCAAATTGGTTTGAATATGCTTTACATATTATTCTTTATATGAATGAATGGT
35056912 AAGTTAATTACCATGTTATACGAACTTACTAAGCTTTAAAGC
66 AAGTTAATTACCATGTTATACGAACTTACTAAGCTTTAAAGC
*
35056954 TTAGGGTTTTTGGCCAAATTGGTTTGAATGTGCTTTACATATTATTCTTTATATGAATGAATGGT
1 TTAGGGTTTTTGGCCAAATTGGTTTGAATATGCTTTACATATTATTCTTTATATGAATGAATGGT
*
35057019 AAGTTAATTACCATGTTATTCGAACTTACTAAGCTTTAAAGC
66 AAGTTAATTACCATGTTATACGAACTTACTAAGCTTTAAAGC
35057061 TTA
1 TTA
35057064 CTCTATTTTA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 107 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (107 bp):
TTAGGGTTTTTGGCCAAATTGGTTTGAATATGCTTTACATATTATTCTTTATATGAATGAATGGT
AAGTTAATTACCATGTTATACGAACTTACTAAGCTTTAAAGC
Done.