Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 52 of 211
Found at i:15647054 original size:17 final size:16
Alignment explanation
Indices: 15647018--15647050 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15647008 TGTGTAAAAA
15647018 TAAAAAAAAATCTATT
1 TAAAAAAAAATCTATT
15647034 TAAAAAAAGAAT-TATT
1 TAAAAAAA-AATCTATT
15647050 T
1 T
15647051 TAAATTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (16 bp):
TAAAAAAAAATCTATT
Found at i:15651390 original size:46 final size:45
Alignment explanation
Indices: 15651313--15651434 Score: 129
Period size: 45 Copynumber: 2.7 Consensus size: 45
15651303 ATGGTTGAAA
* * * * *
15651313 GATGTCATGGTGTCTTTCAACCATAGCCTTATTCACTTTCCA-TCGT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTC-CTTT-CATTCGT
* * *
15651359 GTTGCCATAGTGTCTTTCAACTATGGTCTTATTCGTTTGATTCGT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCCTTTCATTCGT
**
15651404 GATGCCATAGCATCTTTCAACTATGGTCTTA
1 GATGCCATAGTGTCTTTCAACTATGGTCTTA
15651435 CTCGTTAGAA
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
44 1 0.02
45 35 0.55
46 28 0.44
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (45 bp):
GATGCCATAGTGTCTTTCAACTATGGTCTTATTCCTTTCATTCGT
Found at i:15651420 original size:45 final size:45
Alignment explanation
Indices: 15651354--15651569 Score: 186
Period size: 45 Copynumber: 4.8 Consensus size: 45
15651344 TTCACTTTCC
* * * *
15651354 ATCGTGTTGCCATAGTGTCTTTCAACTATGGTCTTATTCGTTTGA
1 ATCGTGATGCCATAGCGTCTTTCAACTATGGTCTTACTCGTTAGA
* *
15651399 TTCGTGATGCCATAGCATCTTTCAACTATGGTCTTACTCGTTAGA
1 ATCGTGATGCCATAGCGTCTTTCAACTATGGTCTTACTCGTTAGA
* * * * * **
15651444 ATCATGATGCTATAACGTCTTTTAGCTATGGTCTTACTCAATAGA
1 ATCGTGATGCCATAGCGTCTTTCAACTATGGTCTTACTCGTTAGA
* **** * * *
15651489 ATCATGATAATGTAACGTCTTTCAACTATGGTCTTACTCGTTTTTGGT
1 ATCGTGATGCCATAGCGTCTTTCAACTATGGTCTTACTCG---TTAGA
*
15651537 AT-G-G-TGCCATAGTGTCTTTCAACTATGGTCTTA
1 ATCGTGATGCCATAGCGTCTTTCAACTATGGTCTTA
15651570 ATCAATTCCT
Statistics
Matches: 137, Mismatches: 31, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
45 132 0.96
46 1 0.01
48 4 0.03
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.41
Consensus pattern (45 bp):
ATCGTGATGCCATAGCGTCTTTCAACTATGGTCTTACTCGTTAGA
Found at i:15663297 original size:14 final size:16
Alignment explanation
Indices: 15663262--15663301 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
15663252 TTGGGTAAAG
*
15663262 AAAATTATTTAAATTA
1 AAAATTAATTAAATTA
15663278 AAAATTAATT-AATT-
1 AAAATTAATTAAATTA
15663292 AAAATTAATT
1 AAAATTAATT
15663302 TAATAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 4 0.17
16 9 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAATTAATTAAATTA
Found at i:15663304 original size:15 final size:16
Alignment explanation
Indices: 15663262--15663305 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
15663252 TTGGGTAAAG
15663262 AAAATT-ATTTAAATTA
1 AAAATTAATTT-AATTA
15663278 AAAATTAA-TTAATT-
1 AAAATTAATTTAATTA
15663292 AAAATTAATTTAAT
1 AAAATTAATTTAAT
15663306 AAATAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.31
15 9 0.35
16 8 0.31
17 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AAAATTAATTTAATTA
Found at i:15671412 original size:50 final size:50
Alignment explanation
Indices: 15671344--15671586 Score: 272
Period size: 50 Copynumber: 4.7 Consensus size: 50
15671334 TTTCTTGTAC
* * **
15671344 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * * * *
15671394 TGCCCATGCCATGTCCCAGACATAGTCTTAC-GGAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATATAGG
* * *
15671444 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
* * *
15671494 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GG
*
15671550 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
15671587 TCTCATCCTC
Statistics
Matches: 163, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 124 0.76
51 2 0.01
53 1 0.01
56 35 0.21
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGG
Found at i:15671469 original size:100 final size:102
Alignment explanation
Indices: 15671344--15671586 Score: 312
Period size: 100 Copynumber: 2.4 Consensus size: 102
15671334 TTTCTTGTAC
* * ** * *
15671344 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTC
*
15671409 CCAGACATAGTCTTACG-GAGGACCTCTC-ATCTC-GG
66 CCAGACATAGTCTTACGTG-GGACCTCTCAATCTCAGA
* * *
15671444 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTGCCAACGCCATGTC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTC
*
15671509 CCAGACATGGTCTTACGTGGGACCTCTCATAATCTCAATGA
66 CCAGACATAGTCTTACGTGGGACCTCTC--AATCTC-A-GA
*
15671550 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
15671587 TCTCATCCTC
Statistics
Matches: 122, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
100 81 0.66
101 1 0.01
103 5 0.04
106 35 0.29
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (102 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTC
CCAGACATAGTCTTACGTGGGACCTCTCAATCTCAGA
Found at i:15671988 original size:29 final size:30
Alignment explanation
Indices: 15671930--15671990 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
15671920 CCTCGACTCT
15671930 AACTTTGACAAAATTACAATTTTGCCCCTA
1 AACTTTGACAAAATTACAATTTTGCCCCTA
* * * *
15671960 AACTTTTACATAATTACACTTTT-TCCCTA
1 AACTTTGACAAAATTACAATTTTGCCCCTA
15671989 AA
1 AA
15671991 GCTCGGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTGACAAAATTACAATTTTGCCCCTA
Found at i:15674217 original size:24 final size:24
Alignment explanation
Indices: 15674189--15674239 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
15674179 ATTTGTAGGT
*
15674189 TAAATAAATTATGCTAATAAATAC
1 TAAATAAATTATACTAATAAATAC
* *
15674213 TAAATATATTATACTAATACATAC
1 TAAATAAATTATACTAATAAATAC
15674237 TAA
1 TAA
15674240 TAATACTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.35
Consensus pattern (24 bp):
TAAATAAATTATACTAATAAATAC
Found at i:15676360 original size:18 final size:18
Alignment explanation
Indices: 15676326--15676363 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
15676316 ATTAATTTAG
*
15676326 ATCAAGAATGAGTAGAAA
1 ATCAAGAATGAGAAGAAA
15676344 ATCAAGAA-GAAGAAGAAA
1 ATCAAGAATG-AGAAGAAA
15676362 AT
1 AT
15676364 TACCATATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.61, C:0.05, G:0.21, T:0.13
Consensus pattern (18 bp):
ATCAAGAATGAGAAGAAA
Found at i:15676730 original size:42 final size:42
Alignment explanation
Indices: 15676658--15676760 Score: 136
Period size: 42 Copynumber: 2.5 Consensus size: 42
15676648 TATGGATACT
* *
15676658 CCACAGCTCGTGTGAGTAGCATCCTATAGCTTACT-TTCTGAC
1 CCACAACTCGTGTGAGTAGCATCCTATAGCTTA-TATTCTAAC
* * *
15676700 CCATAACTCGTGTGAGTAGCATCGTGTAGCTTATATTCTAAC
1 CCACAACTCGTGTGAGTAGCATCCTATAGCTTATATTCTAAC
*
15676742 CCACAGCTCGTGTGAGTAG
1 CCACAACTCGTGTGAGTAG
15676761 GACCATTTCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
41 1 0.02
42 52 0.98
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.30
Consensus pattern (42 bp):
CCACAACTCGTGTGAGTAGCATCCTATAGCTTATATTCTAAC
Found at i:15679582 original size:24 final size:24
Alignment explanation
Indices: 15679531--15679582 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
15679521 TTCGTAGGTT
* * *
15679531 AAATAAATTATACTAATGAATGCT
1 AAATAAATTATACTAATAAATACA
* *
15679555 AAATATATTATTCTAATAAATACA
1 AAATAAATTATACTAATAAATACA
15679579 AAAT
1 AAAT
15679583 CTTTTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACA
Found at i:15684118 original size:25 final size:25
Alignment explanation
Indices: 15684090--15684179 Score: 92
Period size: 25 Copynumber: 3.5 Consensus size: 25
15684080 TACAGCCCGG
* *
15684090 ATAAGCTTCCCGTTACATGTCTCAT
1 ATAAGCTTCCCGTTATATGTCTCAA
* *
15684115 ATAAGCTTCCCGTTATATGGCTCGAG
1 ATAAGCTTCCCGTTATATGTCTC-AA
*
15684141 AGAGAGCTTCCCGTT-TATGTGCTCAA
1 ATA-AGCTTCCCGTTATATGT-CTCAA
15684167 ATAAGCATTCCCG
1 ATAAGC-TTCCCG
15684180 AATATGAATT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
25 24 0.44
26 16 0.30
27 14 0.26
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (25 bp):
ATAAGCTTCCCGTTATATGTCTCAA
Found at i:15689745 original size:23 final size:24
Alignment explanation
Indices: 15689701--15689752 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
15689691 TTTTTAGATT
* *
15689701 AAATT-TTAAATTAATATTAATTA
1 AAATTATTAAATTAAAATGAATTA
15689724 AAATTATTAAA-TAAAATGAATTA
1 AAATTATTAAATTAAAATGAATTA
15689747 AAATTA
1 AAATTA
15689753 AAAAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
AAATTATTAAATTAAAATGAATTA
Found at i:15693165 original size:21 final size:21
Alignment explanation
Indices: 15693139--15693187 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
15693129 TATGGTAAGT
**
15693139 TTTAATAACATTAAAGGAATA
1 TTTAATAACATTAAAAAAATA
* *
15693160 TTTAATATCTTTAAAAAAATA
1 TTTAATAACATTAAAAAAATA
15693181 TTTAATA
1 TTTAATA
15693188 TAAATTTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (21 bp):
TTTAATAACATTAAAAAAATA
Found at i:15701380 original size:19 final size:18
Alignment explanation
Indices: 15701353--15701391 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
15701343 TTACGTTTAT
15701353 TTAGTTTAAATAC-GGTCC
1 TTAGTTTAAAT-CGGGTCC
15701371 TTAGTCTTAAATCGGGTCC
1 TTAGT-TTAAATCGGGTCC
15701390 TT
1 TT
15701392 TTGTGACACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (18 bp):
TTAGTTTAAATCGGGTCC
Found at i:15704348 original size:40 final size:40
Alignment explanation
Indices: 15704293--15704368 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
15704283 ATATGCCAAC
15704293 AATGAGTAAGACCATAAG-TGAAAGATG-TTATGACATAAAA
1 AATGAGTAAGACCAT-AGCTGAAAGATGCTT-TGACATAAAA
15704333 AATGAGTAAGACCATAGCTGAAAGATGCTTTGACAT
1 AATGAGTAAGACCATAGCTGAAAGATGCTTTGACAT
15704369 CATATAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
39 2 0.06
40 30 0.88
41 2 0.06
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGAGTAAGACCATAGCTGAAAGATGCTTTGACATAAAA
Found at i:15710279 original size:42 final size:42
Alignment explanation
Indices: 15710220--15710304 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
15710210 AATTGATACC
15710220 TCTATGTTTTAAAACTTGTAGGGAGTCAGAATAGAGATTTGG
1 TCTATGTTTTAAAACTTGTAGGGAGTCAGAATAGAGATTTGG
15710262 TCTATGTTTTAAAACTTGTAGGGAGTCAGAATAGAGATTTGG
1 TCTATGTTTTAAAACTTGTAGGGAGTCAGAATAGAGATTTGG
15710304 T
1 T
15710305 ATCGATACCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (42 bp):
TCTATGTTTTAAAACTTGTAGGGAGTCAGAATAGAGATTTGG
Found at i:15721375 original size:4 final size:4
Alignment explanation
Indices: 15721366--15721445 Score: 160
Period size: 4 Copynumber: 20.0 Consensus size: 4
15721356 AAATATGTAC
15721366 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
15721414 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
15721446 GGTGAAAGTA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
TAGA
Found at i:15724100 original size:33 final size:33
Alignment explanation
Indices: 15724018--15724109 Score: 80
Period size: 33 Copynumber: 2.7 Consensus size: 33
15724008 TGGTCCAACC
* * ** *
15724018 ATGGTCTTACGTTGAAGGTGCCATAACCCAGTT
1 ATGGTCTTACATTTAAAATGCCATAACCCAGCT
*
15724051 ATGGTCTTTTCA-TTAAAATGCCATAGA-CCAGCT
1 ATGGTC-TTACATTTAAAATGCCATA-ACCCAGCT
15724084 ATGGTCTTACATTTAAACACTGCCAT
1 ATGGTCTTACATTTAAA-A-TGCCAT
15724110 GTGTAACGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
32 4 0.09
33 32 0.68
34 5 0.11
35 6 0.13
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (33 bp):
ATGGTCTTACATTTAAAATGCCATAACCCAGCT
Found at i:15726787 original size:20 final size:20
Alignment explanation
Indices: 15726755--15726797 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
15726745 AGAAGCTCTC
15726755 GAATGATTGTTTTTGGTTGA
1 GAATGATTGTTTTTGGTTGA
15726775 GAAT-ATTGTTTTTGGTTGA
1 GAATGATTGTTTTTGGTTGA
15726794 GAAT
1 GAAT
15726798 TGAAGAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (20 bp):
GAATGATTGTTTTTGGTTGA
Found at i:15732513 original size:13 final size:13
Alignment explanation
Indices: 15732491--15732539 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
15732481 CTTGTTTTTT
*
15732491 TTTATATTATTTA
1 TTTATTTTATTTA
15732504 TTTATTTTATTT-
1 TTTATTTTATTTA
15732516 TATTATTTTACTTTA
1 T-TTATTTTA-TTTA
15732531 CTTTATTTT
1 -TTTATTTT
15732540 TCTTATTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 1 0.03
13 19 0.61
14 3 0.10
15 7 0.23
16 1 0.03
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:15732513 original size:18 final size:17
Alignment explanation
Indices: 15732490--15732523 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15732480 CCTTGTTTTT
15732490 TTTTATATTATTTATTTA
1 TTTTATATTA-TTATTTA
*
15732508 TTTTATTTTATTATTT
1 TTTTATATTATTATTT
15732524 TACTTTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATATTATTATTTA
Found at i:15732516 original size:23 final size:24
Alignment explanation
Indices: 15732485--15732546 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
15732475 TGGTCCCTTG
*
15732485 TTTTTTTTTATATTA-TTTA-TTTA
1 TTTTATTTT-TATTATTTTACTTTA
15732508 TTTTA-TTTTATTATTTTACTTTA
1 TTTTATTTTTATTATTTTACTTTA
* *
15732531 CTTTATTTTTCTTATT
1 TTTTATTTTTATTATT
15732547 ATTTGTCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 5 0.15
22 7 0.21
23 12 0.36
24 9 0.27
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTATTTTTATTATTTTACTTTA
Found at i:15732546 original size:32 final size:31
Alignment explanation
Indices: 15732500--15732572 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 31
15732490 TTTTATATTA
*
15732500 TTTATTTATTTTATT-TTAT-TATTTTACTTTAC
1 TTTATTT-TTTTATTATT-TGTATATTAC-TTAC
*
15732532 TTTATTTTTCTTATTATTTGTCTATTACTTAC
1 TTTATTTTT-TTATTATTTGTATATTACTTAC
15732564 TTTATTTTT
1 TTTATTTTT
15732573 ATTTTTCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
31 2 0.06
32 26 0.72
33 8 0.22
ACGTcount: A:0.19, C:0.08, G:0.01, T:0.71
Consensus pattern (31 bp):
TTTATTTTTTTATTATTTGTATATTACTTAC
Found at i:15734321 original size:28 final size:25
Alignment explanation
Indices: 15734277--15734340 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 25
15734267 TTAATTTCAA
*
15734277 TTATTTTATTTTTATTTGTGAGACTTAT
1 TTATTTTATTTTGATTT-TGA-AC-TAT
15734305 TTATTTTATTTTGATTTTGAACTAT
1 TTATTTTATTTTGATTTTGAACTAT
*
15734330 GT-TTTTATTTT
1 TTATTTTATTTT
15734341 TCTTATTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 9 0.26
25 4 0.12
26 2 0.06
27 3 0.09
28 16 0.47
ACGTcount: A:0.20, C:0.03, G:0.09, T:0.67
Consensus pattern (25 bp):
TTATTTTATTTTGATTTTGAACTAT
Found at i:15739150 original size:11 final size:12
Alignment explanation
Indices: 15739128--15739181 Score: 56
Period size: 11 Copynumber: 4.3 Consensus size: 12
15739118 TAGATAAGTA
15739128 AATATAAATAAT
1 AATATAAATAAT
15739140 AATAT-AATAAT
1 AATATAAATAAT
*
15739151 AATACAAAGCTAAT
1 AATATAAA--TAAT
*
15739165 AGTATAATATAAT
1 AATATAA-ATAAT
15739178 AATA
1 AATA
15739182 CAATAGTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
11 10 0.29
12 7 0.21
13 7 0.21
14 9 0.26
15 1 0.03
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (12 bp):
AATATAAATAAT
Found at i:15741193 original size:44 final size:44
Alignment explanation
Indices: 15741090--15741236 Score: 190
Period size: 44 Copynumber: 3.4 Consensus size: 44
15741080 TGCTCCATTG
*
15741090 CAACTTCAGGGAGATAAGACTTGTATCTTCAATCTAC-CCACTA
1 CAACTTCAGGGAGATAAGACTTGTAACTTCAATCTACTCCACTA
* * * ** *
15741133 CAACTTTAGGGGGATAA-AATTAGTGGCTTCAATCTACTCCACTG
1 CAACTTCAGGGAGATAAGACTT-GTAACTTCAATCTACTCCACTA
*
15741177 CAACTTCAGGGAGATAAGACTTGTAACTTCAATCAACTCCACTA
1 CAACTTCAGGGAGATAAGACTTGTAACTTCAATCTACTCCACTA
*
15741221 CAACTTCATGGAGATA
1 CAACTTCAGGGAGATA
15741237 GGATTTGTGG
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
42 3 0.03
43 28 0.32
44 53 0.61
45 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.27
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGACTTGTAACTTCAATCTACTCCACTA
Found at i:15753184 original size:18 final size:18
Alignment explanation
Indices: 15753163--15753208 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
15753153 ATGGACACAT
*
15753163 AAATAAATATCAAGTAA-A
1 AAATAAATAACAA-TAAGA
15753181 AAAT-AATAACAATAAGGA
1 AAATAAATAACAATAA-GA
15753199 AAATAAATAA
1 AAATAAATAA
15753209 GATTGTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 3 0.12
17 7 0.29
18 9 0.38
19 5 0.21
ACGTcount: A:0.70, C:0.04, G:0.07, T:0.20
Consensus pattern (18 bp):
AAATAAATAACAATAAGA
Found at i:15753365 original size:12 final size:10
Alignment explanation
Indices: 15753348--15753453 Score: 50
Period size: 9 Copynumber: 11.1 Consensus size: 10
15753338 AATACAAAAG
15753348 ATATAAGTAATT
1 ATATAA-TAA-T
15753360 ATATAATAAT
1 ATATAATAAT
*
15753370 ATATAATAAG
1 ATATAATAAT
* *
15753380 ACAAAAT-AT
1 ATATAATAAT
*
15753389 ATTTAA-AAT
1 ATATAATAAT
15753398 -T-TAGAT-AT
1 ATATA-ATAAT
*
15753406 GTA-AAT-AT
1 ATATAATAAT
* *
15753414 AAATAATAACA
1 ATATAATAA-T
15753425 ATATAATAAT
1 ATATAATAAT
15753435 A-ATAATAAT
1 ATATAATAAT
15753444 A-ATAATAAT
1 ATATAATAAT
15753453 A
1 A
15753454 CAAAGCTAAT
Statistics
Matches: 74, Mismatches: 12, Indels: 19
0.70 0.11 0.18
Matches are distributed among these distances:
7 2 0.03
8 9 0.12
9 29 0.39
10 17 0.23
11 11 0.15
12 6 0.08
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (10 bp):
ATATAATAAT
Found at i:15753433 original size:3 final size:3
Alignment explanation
Indices: 15753415--15753488 Score: 66
Period size: 3 Copynumber: 24.7 Consensus size: 3
15753405 TGTAAATATA
*
15753415 AAT AAT AAC AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT ACA- AAGCT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA--T
*
15753461 AAT -AT AAT AAT -AT AAT AGT AAT GAAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AA
15753489 GTAAATATAA
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
2 7 0.12
3 46 0.78
4 4 0.07
5 2 0.03
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:15756858 original size:14 final size:14
Alignment explanation
Indices: 15756836--15756902 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
15756826 TTTTTACCCT
*
15756836 AAACCCTAAATCTC
1 AAACTCTAAATCTC
*
15756850 AAACTCTAAATATC
1 AAACTCTAAATCTC
* *
15756864 GAACTTTAAA-CTC
1 AAACTCTAAATCTC
*
15756877 AAACAT-TAAA-CCC
1 AAAC-TCTAAATCTC
*
15756890 AAACCCTAAATCT
1 AAACTCTAAATCT
15756903 TATCCTTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
13 19 0.46
14 22 0.54
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.24
Consensus pattern (14 bp):
AAACTCTAAATCTC
Found at i:15760575 original size:11 final size:10
Alignment explanation
Indices: 15760544--15760640 Score: 53
Period size: 9 Copynumber: 9.8 Consensus size: 10
15760534 TAAAATACTT
15760544 TTTTTAAA-A
1 TTTTTAAATA
*
15760553 TTTTT-TA-A
1 TTTTTAAATA
*
15760561 TTTTGAAATA
1 TTTTTAAATA
15760571 TTTTTAAAATA
1 TTTTT-AAATA
15760582 CTTTTTAAAT-
1 -TTTTTAAATA
**
15760592 TTTTTTTA-A
1 TTTTTAAATA
*
15760601 TTTTAAAATA
1 TTTTTAAATA
15760611 TTTTTAAAATAA
1 TTTTT-AAAT-A
*
15760623 TTTTTTTAA-A
1 -TTTTTAAATA
15760633 TTTTTAAA
1 TTTTTAAA
15760641 AATAAATTTT
Statistics
Matches: 67, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
8 6 0.09
9 24 0.36
10 11 0.16
11 13 0.19
12 8 0.12
13 5 0.07
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (10 bp):
TTTTTAAATA
Found at i:15760587 original size:30 final size:29
Alignment explanation
Indices: 15760523--15760594 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
15760513 ATATTTTTAT
*
15760523 TTTTTTAATTTTAAAATACTTTTTTTAAAA
1 TTTTTTAATTTTAAAATAC-TTTTTAAAAA
*
15760553 TTTTTTAATTTTGAAATA-TTTTTAAAATA
1 TTTTTTAATTTTAAAATACTTTTTAAAA-A
*
15760582 CTTTTTAAATTTT
1 -TTTTTTAATTTT
15760595 TTTTAATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 8 0.22
29 1 0.03
30 28 0.76
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (29 bp):
TTTTTTAATTTTAAAATACTTTTTAAAAA
Found at i:15760587 original size:40 final size:40
Alignment explanation
Indices: 15760531--15760637 Score: 153
Period size: 40 Copynumber: 2.6 Consensus size: 40
15760521 ATTTTTTTAA
*
15760531 TTTTAAAATACTTTTTTTAAAATTTTTTAATTTTGAAATAT
1 TTTTAAAATAC-TTTTTTAAAATTTTTTAATTTTAAAATAT
*
15760572 TTTTAAAATAC-TTTTTAAATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTAAA-ATTTTTTAATTTTAAAATAT
* *
15760612 TTTTAAAATAATTTTTTTAAATTTTT
1 TTTTAAAATACTTTTTTAAAATTTTT
15760638 AAAAATAAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
39 8 0.14
40 33 0.56
41 18 0.31
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (40 bp):
TTTTAAAATACTTTTTTAAAATTTTTTAATTTTAAAATAT
Found at i:15760588 original size:12 final size:11
Alignment explanation
Indices: 15760561--15760641 Score: 57
Period size: 11 Copynumber: 7.7 Consensus size: 11
15760551 AATTTTTTAA
*
15760561 TTTTGAAATAT
1 TTTTAAAATAT
15760572 TTTTAAAATACT
1 TTTTAAAATA-T
15760584 TTTT-AAAT-T
1 TTTTAAAATAT
* *
15760593 TTTT---TTAA
1 TTTTAAAATAT
15760601 TTTTAAAATAT
1 TTTTAAAATAT
15760612 TTTTAAAATAAT
1 TTTTAAAAT-AT
**
15760624 TTTTTTAA-AT
1 TTTTAAAATAT
15760634 TTTTAAAA
1 TTTTAAAA
15760642 ATAAATTTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
7 1 0.02
8 4 0.07
9 5 0.09
10 8 0.15
11 24 0.44
12 13 0.24
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:15760633 original size:24 final size:23
Alignment explanation
Indices: 15760601--15760652 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
15760591 TTTTTTTTAA
* *
15760601 TTTTAAAATATTTTTAAAATAATT
1 TTTTAAAAT-TTTTAAAAATAAAT
*
15760625 TTTTTAAATTTTTAAAAATAAAT
1 TTTTAAAATTTTTAAAAATAAAT
15760648 TTTTA
1 TTTTA
15760653 GTATTTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTTAAAATTTTTAAAAATAAAT
Found at i:15760658 original size:23 final size:23
Alignment explanation
Indices: 15760608--15760667 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
15760598 TAATTTTAAA
*
15760608 ATATTTTT-AAAATAATTTTTTT
1 ATATTTTTAAAAATAATATTTTT
*
15760630 AAATTTTTAAAAATAA-ATTTTT
1 ATATTTTTAAAAATAATATTTTT
15760652 AGTATTTATTTAAAAA
1 A-TA-TT-TTTAAAAA
15760668 ACAGGCCGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 13 0.42
23 8 0.26
24 2 0.06
25 8 0.26
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
ATATTTTTAAAAATAATATTTTT
Found at i:15768128 original size:39 final size:40
Alignment explanation
Indices: 15768050--15768157 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 40
15768040 TTAGTCCTCG
* * *
15768050 TTCAAGTGCCTTCGCGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCG-GGACTTAACCCGGATTATAGAAACTCA
* *
15768091 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
**
15768130 CACGAATGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
15768158 ATTAGTATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
39 17 0.29
40 36 0.62
41 5 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:15768156 original size:79 final size:79
Alignment explanation
Indices: 15768056--15768223 Score: 180
Period size: 79 Copynumber: 2.1 Consensus size: 79
15768046 CTCGTTCAAG
* * ** *
15768056 TGCCTTCGCGGACATAGCCCGG-TTATAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGAT
1 TGCCTTCG-GGACATAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCGGGACTTAA-CCGGA-
* *
15768119 TTTAA-AACTCGCACGAA
62 ATTAATAACTCGCACAAA
* * *
15768136 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCGGAATTA
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCGGAATTA
15768201 ATAACTCGCACAAA
66 ATAACTCGCACAAA
*
15768215 TACCTTCGG
1 TGCCTTCGG
15768224 ATCTTAGTCG
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
78 4 0.05
79 44 0.59
80 26 0.35
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (79 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCGGAATTA
ATAACTCGCACAAA
Found at i:15768209 original size:39 final size:40
Alignment explanation
Indices: 15768094--15768223 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
15768084 TAACTCATTC
* *
15768094 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
15768134 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
15768174 AAGGCCTTCGGGACTTAA-CCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
15768213 AATACCTTCGG
1 AATGCCTTCGG
15768224 ATCTTAGTCG
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 31 0.39
40 49 0.61
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:15768252 original size:79 final size:79
Alignment explanation
Indices: 15768097--15768274 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 79
15768087 CTCATTCAAT
* * *
15768097 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGAATTA
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGAATTA
*
15768162 GTATCTCGCACAAA
66 GTATCTAGCACAAA
**
15768176 GGCCTTCGGGACTTAA-CCGGA-ATTAATAACTCGCACAAATACCTTC-GGATCTT-AGTCGG-A
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGGA-CTTAACCCGGAA
15768236 TATAGTCA-CTTAGCACAAA
63 T-TAGT-ATC-TAGCACAAA
*
15768255 GCCTTC-GGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
15768275 CAGCAATTCA
Statistics
Matches: 85, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
77 9 0.11
78 27 0.32
79 34 0.40
80 15 0.18
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (79 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGGACTTAACCCGGAATTA
GTATCTAGCACAAA
Found at i:15775224 original size:39 final size:40
Alignment explanation
Indices: 15775147--15775293 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
15775137 TAGCTCCTCG
* * *
15775147 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
15775187 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
15775226 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
15775266 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
15775294 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:15775304 original size:80 final size:80
Alignment explanation
Indices: 15775193--15775373 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
15775183 CTCATTCAAT
* * *
15775193 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
15775256 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
15775272 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
15775336 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
15775353 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
15775374 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:15775333 original size:40 final size:40
Alignment explanation
Indices: 15775190--15775373 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
15775180 TAACTCATTC
* *
15775190 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
15775230 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
15775270 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
15775310 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
15775351 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
15775374 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:15778058 original size:22 final size:22
Alignment explanation
Indices: 15778033--15778077 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
15778023 GTTATATGAA
15778033 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
15778055 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
15778077 T
1 T
15778078 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:15787715 original size:20 final size:20
Alignment explanation
Indices: 15787687--15787725 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15787677 AAATTTTCTC
15787687 CTAAATTTT-AATTTTATTGT
1 CTAAATTTTCAA-TTTATTGT
*
15787707 CTAATTTTTCAATTTATTG
1 CTAAATTTTCAATTTATTG
15787726 AATTATTAAT
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:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (20 bp):
CTAAATTTTCAATTTATTGT
Found at i:15790234 original size:15 final size:15
Alignment explanation
Indices: 15790214--15790321 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
15790204 TTTATGGAAA
15790214 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
15790229 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
15790243 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
15790259 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
15790273 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
15790289 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
15790303 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
15790319 ATC
1 ATC
15790322 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:15790243 original size:30 final size:30
Alignment explanation
Indices: 15790207--15790321 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
15790197 ATCCATATTT
*
15790207 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
15790237 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
15790267 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
15790297 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
15790322 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:15794927 original size:15 final size:15
Alignment explanation
Indices: 15794907--15794984 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
15794897 TTTATGGAAA
15794907 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
15794922 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
15794936 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
15794952 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
15794966 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
15794982 ATC
1 ATC
15794985 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:15794936 original size:30 final size:30
Alignment explanation
Indices: 15794900--15794984 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
15794890 ATCCATATTT
*
15794900 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
15794930 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
15794960 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
15794985 GAGATATTGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:15803100 original size:27 final size:27
Alignment explanation
Indices: 15803070--15803197 Score: 127
Period size: 27 Copynumber: 4.7 Consensus size: 27
15803060 GTACCCTATG
*
15803070 GGGGTATTTCGATAATTTTAACTTTTA
1 GGGGTATTTCGATAATTTTAACCTTTA
*
15803097 GGGGTATTTC-AGTAATTTTACCCTTTA
1 GGGGTATTTCGA-TAATTTTAACCTTTA
** *
15803124 GGGGTATTTC-AGTAATTTT-ACCCATC
1 GGGGTATTTCGA-TAATTTTAACCTTTA
* *
15803150 GAGGGTATTTCGGTAATTTTATCCTTTA
1 G-GGGTATTTCGATAATTTTAACCTTTA
* *
15803178 GGGGTATTTTGGTAATTTTA
1 GGGGTATTTCGATAATTTTA
15803198 CTTATTGAGG
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
26 5 0.06
27 76 0.89
28 4 0.05
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.45
Consensus pattern (27 bp):
GGGGTATTTCGATAATTTTAACCTTTA
Found at i:15803128 original size:54 final size:53
Alignment explanation
Indices: 15803061--15803213 Score: 166
Period size: 54 Copynumber: 2.8 Consensus size: 53
15803051 ACAGGCATTG
* *
15803061 TACCCTATGGGGGTATTTCGATAATTTTAACTTTT-AGGGGTATTTCAGTAATTT
1 TACCCTTTAGGGGTATTTCGATAATTTT-ACTTTTGA-GGGTATTTCAGTAATTT
** * *
15803115 TACCCTTTAGGGGTATTTC-AGTAATTTTACCCATCGAGGGTATTTCGGTAATTT
1 TACCCTTTAGGGGTATTTCGA-TAATTTTA-CTTTTGAGGGTATTTCAGTAATTT
* * *
15803169 TATCCTTTAGGGGTATTTTGGTAATTTTACTTATTGAGGGTATTT
1 TACCCTTTAGGGGTATTTCGATAATTTTACTT-TTGAGGGTATTT
15803214 GGGTTATTTA
Statistics
Matches: 82, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
53 3 0.04
54 78 0.95
55 1 0.01
ACGTcount: A:0.22, C:0.12, G:0.21, T:0.45
Consensus pattern (53 bp):
TACCCTTTAGGGGTATTTCGATAATTTTACTTTTGAGGGTATTTCAGTAATTT
Found at i:15803209 original size:27 final size:27
Alignment explanation
Indices: 15803071--15803222 Score: 125
Period size: 27 Copynumber: 5.6 Consensus size: 27
15803061 TACCCTATGG
* * *
15803071 GGGTATTTCGATAATTTTAACT-TTTA
1 GGGTATTTCGGTAATTTTACCTATTGA
*
15803097 GGGGTATTTCAGTAATTTTACCCT-TT-A
1 -GGGTATTTCGGTAATTTTA-CCTATTGA
* * *
15803124 GGGGTATTTCAGTAATTTTACCCATCGA
1 -GGGTATTTCGGTAATTTTACCTATTGA
15803152 GGGTATTTCGGTAATTTTATCCT-TT-A
1 GGGTATTTCGGTAATTTTA-CCTATTGA
* *
15803178 GGGGTATTTTGGTAATTTTACTTATTGA
1 -GGGTATTTCGGTAATTTTACCTATTGA
* *
15803206 GGGTATTTGGGTTATTT
1 GGGTATTTCGGTAATTT
15803223 AACAACCTTT
Statistics
Matches: 106, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
26 5 0.05
27 93 0.88
28 8 0.08
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.47
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCTATTGA
Found at i:15820153 original size:135 final size:135
Alignment explanation
Indices: 15819904--15820166 Score: 391
Period size: 135 Copynumber: 1.9 Consensus size: 135
15819894 AAGGTTCTTA
* ** *
15819904 TTGATGAACGCATGAATTAACATAAAACTGGTTTCATCTTAATATGTTACAATAGTAAAAGCTCA
1 TTGATGAACACATGAATTAACATAAAACAAGTTTCATCTTAATATGTTACAATAGTAAAAGATCA
* * *
15819969 CTAGTAAGACATAGAGAAGTAAACAAGCCGAAGTCAAAAGTGTAGATAACTACATATTATAGTGA
66 CTAGTAAGACACAGAGAAGTAAACAAGCCGAAGTCAAAAATGTAGATAACAACATATTATAGTGA
15820034 ACATT
131 ACATT
* * * * *
15820039 TTGATGAACACATGAATTAACATAAAACAAGTTTCCTCTTAATATGTTATAGTAGTGAAAGATGA
1 TTGATGAACACATGAATTAACATAAAACAAGTTTCATCTTAATATGTTACAATAGTAAAAGATCA
* * *
15820104 TTGGTAAGACACAGAGAAGTAAACAAGCCGAAGTCAAAAATGTATATAACAACATATTATAGT
66 CTAGTAAGACACAGAGAAGTAAACAAGCCGAAGTCAAAAATGTAGATAACAACATATTATAGT
15820167 AAAAAGTAGA
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
135 113 1.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (135 bp):
TTGATGAACACATGAATTAACATAAAACAAGTTTCATCTTAATATGTTACAATAGTAAAAGATCA
CTAGTAAGACACAGAGAAGTAAACAAGCCGAAGTCAAAAATGTAGATAACAACATATTATAGTGA
ACATT
Found at i:15826680 original size:20 final size:20
Alignment explanation
Indices: 15826655--15826694 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15826645 ACAACCACTT
* *
15826655 TAATTTATAAATAACAAATA
1 TAATTTACAAATAAAAAATA
15826675 TAATTTACAAATAAAAAATA
1 TAATTTACAAATAAAAAATA
15826695 GCAGATACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
TAATTTACAAATAAAAAATA
Found at i:15828272 original size:41 final size:41
Alignment explanation
Indices: 15828216--15828297 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
15828206 CAAAACTAAG
15828216 TAAGCTCAAATGAACTTAATGAGTTTCTAATATTTCATATC
1 TAAGCTCAAATGAACTTAATGAGTTTCTAATATTTCATATC
15828257 TAAGCTCAAATGAACTTAATGAGTTTCTAATATTTCATATC
1 TAAGCTCAAATGAACTTAATGAGTTTCTAATATTTCATATC
15828298 GTTCCTGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (41 bp):
TAAGCTCAAATGAACTTAATGAGTTTCTAATATTTCATATC
Found at i:15830070 original size:20 final size:20
Alignment explanation
Indices: 15830047--15830096 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
15830037 AAAATATAAA
*
15830047 ATATATATATACGTATGTAT
1 ATATATATATACGTATGCAT
*
15830067 ATAT-TATAAAACGTATGCAT
1 ATATATAT-ATACGTATGCAT
*
15830087 GTATATATAT
1 ATATATATAT
15830097 CTCTAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 3 0.12
20 18 0.75
21 3 0.12
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (20 bp):
ATATATATATACGTATGCAT
Found at i:15830234 original size:21 final size:18
Alignment explanation
Indices: 15830178--15830223 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
15830168 AATAAACGCG
*
15830178 ATAATAGTAATATTAAAA
1 ATAATAATAATATTAAAA
*
15830196 ATAATAATAATAGTAAAA
1 ATAATAATAATATTAAAA
*
15830214 ATAATGATAA
1 ATAATAATAA
15830224 CACTATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (18 bp):
ATAATAATAATATTAAAA
Found at i:15832095 original size:44 final size:44
Alignment explanation
Indices: 15832038--15832123 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
15832028 TCCGAGGTAT
* ** *
15832038 GATTCATTATTTTGGTCCGCTCCACTGCAACTTCAGGGAGATAA
1 GATTCATCATTTTGACCCACTCCACTGCAACTTCAGGGAGATAA
* *
15832082 GATTCATCGTTTTGACCCATTCCACTGCAACTTCAGGGAGAT
1 GATTCATCATTTTGACCCACTCCACTGCAACTTCAGGGAGAT
15832124 GGGACTCGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (44 bp):
GATTCATCATTTTGACCCACTCCACTGCAACTTCAGGGAGATAA
Found at i:15832354 original size:44 final size:44
Alignment explanation
Indices: 15832249--15832589 Score: 148
Period size: 44 Copynumber: 7.6 Consensus size: 44
15832239 ATTTTGACCC
*
15832249 GCTCCACTACAACTTCAAGGAGATAGGACTTGTATCTTCAACTT
1 GCTCCACTACAACTTCAGGGAGATAGGACTTGTATCTTCAACTT
* *
15832293 GCCCCACTACAACTTCAGGGAGATATGA-TTAGTGA-CTTCAACTT
1 GCTCCACTACAACTTCAGGGAGATAGGACTT-GT-ATCTTCAACTT
* * ** * * * * *
15832337 GCTCTACTGCAACTTCAGAAATACAAGG-TTTGTTAT-TTTAACCT
1 GCTCCACTACAACTTCAGGGAGA-TAGGACTTG-TATCTTCAACTT
* * * *
15832381 ACTCTACTACAACTTCAGAGAGATAAGG-TTTGTAAT-TT-ATAGCTT
1 GCTCCACTACAACTTCAGGGAGAT-AGGACTTGT-ATCTTCA-A-CTT
* * * * * *
15832426 CCATCTATTCCACTACAAATTTAGGG-GAATAAGACTCGCTATCTTCAACCT
1 ---GC---TCCACTACAACTTCAGGGAG-ATAGGACTTG-TATCTTCAACTT
* * * *
15832477 GCACCACTGCAACTTCAGGGAGAT-GAGA-TTAGTAACTTC-AGTCT
1 GCTCCACTACAACTTCAGGGAGATAG-GACTT-GTATCTTCAACT-T
* * *
15832521 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAACTG
1 GCTCCACTACAACTTCAGGGAGATAGGACTTGTATCTTCAACTT
*
15832565 GC-CTCACTACAACTTCAGGGGGATA
1 GCTC-CACTACAACTTCAGGGAGATA
15832590 AGGTTTGATA
Statistics
Matches: 223, Mismatches: 45, Indels: 58
0.68 0.14 0.18
Matches are distributed among these distances:
43 6 0.03
44 153 0.69
45 31 0.14
46 1 0.00
48 2 0.01
50 3 0.01
51 22 0.10
52 4 0.02
53 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (44 bp):
GCTCCACTACAACTTCAGGGAGATAGGACTTGTATCTTCAACTT
Found at i:15832952 original size:89 final size:89
Alignment explanation
Indices: 15832819--15833122 Score: 410
Period size: 89 Copynumber: 3.4 Consensus size: 89
15832809 ACTAGTTTTT
* * * *
15832819 GATCTTCTTCACTGCCAGTACAGGATGACAAGATCTACTGCTTTTAGTCTGCTCCGCTGCAAACT
1 GATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTGCTACTTTTAGTCTGCTCCGCTGCAAACT
*
15832884 CAGGGAGGTTAGGCTTGTGTCTTC
66 CAGGGAGGTCAGGCTTGTGTCTTC
* * * * * * * *
15832908 GATTTGTTTCGCTGTCGGTACAGGAAGACAAGATCTGCTACTTTTAGTCTTCTCCACTACAAACT
1 GATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTGCTACTTTTAGTCTGCTCCGCTGCAAACT
*
15832973 CAAGGAGGTCAGGCTTGTGTCTTC
66 CAGGGAGGTCAGGCTTGTGTCTTC
* * *
15832997 AATCTGCTTCACTGCCAGTACAGGAAGATAAGATCTGCTACTTATAGTCTGCTCCGCTGCAAACT
1 GATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTGCTACTTTTAGTCTGCTCCGCTGCAAACT
* * * *
15833062 TAGGGAGATCAGGCTTGTGCCTTT
66 CAGGGAGGTCAGGCTTGTGTCTTC
*
15833086 GATCTGCTTCACTGCCAGTACAGAAAGACAAGATCTG
1 GATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTG
15833123 TTGCTTCTAT
Statistics
Matches: 182, Mismatches: 33, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 182 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (89 bp):
GATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTGCTACTTTTAGTCTGCTCCGCTGCAAACT
CAGGGAGGTCAGGCTTGTGTCTTC
Found at i:15834517 original size:5 final size:5
Alignment explanation
Indices: 15834509--15834588 Score: 55
Period size: 5 Copynumber: 16.4 Consensus size: 5
15834499 GGCCTTTCCT
* *
15834509 TTTTC TTTTC TTTT- TCTTC TTTTC -TTT- TTTTC TTTTA TTTT- TATTT-
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T-TTTC
*
15834555 TTCTTC TTTTAT TTTTC TTTT- TTTTCC TTTTC TT
1 TT-TTC TTTT-C TTTTC TTTTC TTTT-C TTTTC TT
15834589 CTTTTTTTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
4 15 0.25
5 36 0.59
6 10 0.16
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:15834530 original size:14 final size:14
Alignment explanation
Indices: 15834511--15834598 Score: 70
Period size: 14 Copynumber: 5.9 Consensus size: 14
15834501 CCTTTCCTTT
15834511 TTCTTTTCTTTTTC
1 TTCTTTTCTTTTTC
15834525 TTCTTTTCTTTTTTTC
1 TTCTTTTC--TTTTTC
* *
15834541 TTTTATTTTTATTTTTC
1 --TT-CTTTTCTTTTTC
*
15834558 TTCTTTTATTTTTC
1 TTCTTTTCTTTTTC
* *
15834572 TTTTTTTTCCTTTTC
1 -TTCTTTTCTTTTTC
15834587 TTCTTTT-TTTTT
1 TTCTTTTCTTTTT
15834599 TGAACATTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
13 4 0.07
14 25 0.42
15 13 0.22
16 6 0.10
17 6 0.10
18 2 0.03
19 4 0.07
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (14 bp):
TTCTTTTCTTTTTC
Found at i:15834530 original size:20 final size:20
Alignment explanation
Indices: 15834508--15834576 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
15834498 TGGCCTTTCC
15834508 TTTTTC-TTTTCTT-TTTCT-
1 TTTTTCTTTTTCTTCTTT-TA
15834526 TCTTTTCTTTTT-TTCTTTTA
1 T-TTTTCTTTTTCTTCTTTTA
*
15834546 TTTTTATTTTTCTTCTTTTA
1 TTTTTCTTTTTCTTCTTTTA
15834566 TTTTTCTTTTT
1 TTTTTCTTTTT
15834577 TTTCCTTTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 1 0.02
19 17 0.39
20 26 0.59
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTCTTTTTCTTCTTTTA
Found at i:15834595 original size:20 final size:20
Alignment explanation
Indices: 15834507--15834599 Score: 82
Period size: 20 Copynumber: 4.5 Consensus size: 20
15834497 TTGGCCTTTC
* * *
15834507 CTTTTTCTTTTCTTTTTCTT
1 CTTTTTTTTTTCCTTTTATT
*
15834527 CTTTTCTTTTTTTCTTTTATT
1 CTTTT-TTTTTTCCTTTTATT
15834548 -TTTATTTTTCTT-CTTTTATT
1 CTTT-TTTTT-TTCCTTTTATT
* *
15834568 TTTCTTTTTTTTCCTTTTCTT
1 CTT-TTTTTTTTCCTTTTATT
15834589 CTTTTTTTTTT
1 CTTTTTTTTTT
15834600 GAACATTCTT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
20 30 0.49
21 30 0.49
22 1 0.02
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (20 bp):
CTTTTTTTTTTCCTTTTATT
Found at i:15834599 original size:14 final size:14
Alignment explanation
Indices: 15834511--15834599 Score: 81
Period size: 15 Copynumber: 5.9 Consensus size: 14
15834501 CCTTTCCTTT
*
15834511 TTCTTTTCTTTTTC
1 TTCTTTTTTTTTTC
15834525 TTCTTTTCTTTTTTTC
1 TTC-TTT-TTTTTTTC
*
15834541 TTTTATTTTTATTTTTC
1 --TTCTTTTT-TTTTTC
*
15834558 TTCTTTTATTTTTC
1 TTCTTTTTTTTTTC
15834572 TT-TTTTTTCCTTTTC
1 TTCTTTTTT--TTTTC
15834587 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
15834600 GAACATTCTT
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
13 5 0.08
14 15 0.24
15 16 0.26
16 15 0.24
17 9 0.15
18 2 0.03
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (14 bp):
TTCTTTTTTTTTTC
Found at i:15838771 original size:69 final size:71
Alignment explanation
Indices: 15838637--15838776 Score: 203
Period size: 69 Copynumber: 2.0 Consensus size: 71
15838627 TCTCGGATTT
* *
15838637 AAAAAGGGAATCATGCCCAGTAATTTAGGACACGATCTTTTCTTAATTCCCGAGATCGCTCAAAA
1 AAAAAGGGAATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGCTCAAAA
*
15838702 CTTGAG
66 CATGAG
** * *
15838708 AAAAA-GG-ATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCTTGAGATCGTTTAAAA
1 AAAAAGGGAATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGCTCAAAA
15838771 CATGAG
66 CATGAG
15838777 TTTGAAAAGA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
69 55 0.89
70 2 0.03
71 5 0.08
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (71 bp):
AAAAAGGGAATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGCTCAAAA
CATGAG
Found at i:15839423 original size:38 final size:37
Alignment explanation
Indices: 15839348--15839456 Score: 102
Period size: 38 Copynumber: 3.0 Consensus size: 37
15839338 ATTTTGAAAT
* ** * *
15839348 TATA-AAATATAAAAAATATATATGTGCACATAAATA
1 TATAGAAATATAAGAAATATATATAAGCATATATATA
15839384 TATAGAAATTATAAGAAATATATATAAGCATATATATA
1 TATAGAAA-TATAAGAAATATATATAAGCATATATATA
*
15839422 TAT-GAAA-ATTAAG-AATATGTATATAG-ATATATATA
1 TATAGAAATA-TAAGAAATATATATA-AGCATATATATA
15839457 GTTATGTTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
35 19 0.30
36 10 0.16
37 7 0.11
38 27 0.43
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (37 bp):
TATAGAAATATAAGAAATATATATAAGCATATATATA
Found at i:15839639 original size:18 final size:18
Alignment explanation
Indices: 15839618--15839663 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
15839608 AATAAACGCG
*
15839618 ATAATAGTAATATTAAAA
1 ATAATAATAATATTAAAA
15839636 ATAATAATAATATTAAAA
1 ATAATAATAATATTAAAA
*
15839654 ATAATGATAA
1 ATAATAATAA
15839664 CACTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
ATAATAATAATATTAAAA
Found at i:15839663 original size:21 final size:20
Alignment explanation
Indices: 15839625--15839683 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
15839615 GCGATAATAG
15839625 TAATATTAAAAAT-A-ATAA
1 TAATATTAAAAATAATATAA
15839643 TAATATTAAAAATAATGATAA
1 TAATATTAAAAATAAT-ATAA
* * *
15839664 CACTATTAAAATTAAT-TAA
1 TAATATTAAAAATAATATAA
15839683 T
1 T
15839684 TTAATAGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
18 13 0.38
19 4 0.12
21 17 0.50
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (20 bp):
TAATATTAAAAATAATATAA
Found at i:15843842 original size:26 final size:26
Alignment explanation
Indices: 15843807--15843857 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
15843797 AATGTGAAAG
*
15843807 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
15843833 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
15843858 TTCATTGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:15843895 original size:102 final size:101
Alignment explanation
Indices: 15843729--15844092 Score: 597
Period size: 102 Copynumber: 3.6 Consensus size: 101
15843719 TGTATATAAA
** * * *
15843729 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGT-ATCCACCATATCTT
15843794 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TGAAA--TGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
15843832 AGGGGTTGCTAAGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TATCCACCATATCTT
15843896 TGAAATGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
15843933 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TATCCACCATATCTT
*
15843998 TGAAATAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
15844035 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTATCCACCA
15844093 ATAACGGTTA
Statistics
Matches: 250, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
100 26 0.10
101 39 0.16
102 160 0.64
103 25 0.10
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (101 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTATCCACCATATCTTT
GAAATGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:15850953 original size:26 final size:26
Alignment explanation
Indices: 15850918--15850969 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
15850908 AATGTGAAAG
*
15850918 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
15850944 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
15850970 TTTCATTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:15851053 original size:104 final size:101
Alignment explanation
Indices: 15850840--15851206 Score: 599
Period size: 103 Copynumber: 3.6 Consensus size: 101
15850830 TTGTATATAA
** * * *
15850840 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGT-ATCCACCATATCTT
*
15850905 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCG
15850943 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCG-TATCCACCATATCT
15851008 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
64 TTGAAATGAAAAGGGGGTTGCTATGTGCTGATT-CCCCG
15851047 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TATCCACCATATCTT
*
15851112 TGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TGAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
* *
15851149 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTATCCACCA
15851207 ATAACGGCTA
Statistics
Matches: 252, Mismatches: 9, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
101 8 0.03
102 53 0.21
103 118 0.47
104 72 0.29
105 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.31
Consensus pattern (101 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTATCCACCATATCTTT
GAAATGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:15851159 original size:26 final size:26
Alignment explanation
Indices: 15851124--15851175 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
15851114 AAATAAAAAG
*
15851124 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
15851150 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
15851176 TTCAGTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:15861569 original size:53 final size:52
Alignment explanation
Indices: 15861484--15861586 Score: 127
Period size: 53 Copynumber: 2.0 Consensus size: 52
15861474 CAAAGAATGT
*
15861484 ATATGCATGATATTTGACTTTGCAAAGGTTTGGGCAGATTGTACGGAGGATGC
1 ATATGCATGATATTTGACTTTGCAAAGCTTTGGGCAGATTGTACGG-GGATGC
** ***
15861537 ATATGCATGATATTT-AGCTTTGCGGAGCTTTGGTTGGATTGTACGGGGAT
1 ATATGCATGATATTTGA-CTTTGCAAAGCTTTGGGCAGATTGTACGGGGAT
15861587 ATATGTGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
52 5 0.12
53 38 0.88
ACGTcount: A:0.23, C:0.11, G:0.31, T:0.35
Consensus pattern (52 bp):
ATATGCATGATATTTGACTTTGCAAAGCTTTGGGCAGATTGTACGGGGATGC
Found at i:15869462 original size:22 final size:21
Alignment explanation
Indices: 15869437--15869480 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
15869427 TGATAAACTT
15869437 TAATATATA-ATTAAATTATTTA
1 TAATATATATATT-AATT-TTTA
*
15869459 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
15869480 T
1 T
15869481 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 12 0.60
23 3 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:15878595 original size:16 final size:16
Alignment explanation
Indices: 15878558--15878597 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
15878548 TAGTAAAAAT
15878558 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
15878575 ATAATTTA-TATTTTA
1 ATAATTTATTATTTTA
15878590 ATTAATTT
1 A-TAATTT
15878598 TAATAATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.36
16 10 0.45
17 4 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:15880790 original size:26 final size:26
Alignment explanation
Indices: 15880747--15880819 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
15880737 TATCATCTCT
*
15880747 ATTTTACCCCTAGCAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGATG
*
15880773 ATTTTACCCTTAGTAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGATG
* *
15880799 ATTTTGCCCCTCGTAAAATTT
1 ATTTTACCCCTAGTAAAATTT
15880820 CGAGAAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGATG
Found at i:15888331 original size:4 final size:4
Alignment explanation
Indices: 15888322--15888349 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
15888312 TACTTTCACC
15888322 TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA
15888350 GTACATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
TCTA
Found at i:15898123 original size:27 final size:28
Alignment explanation
Indices: 15898039--15898136 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
15898029 CATGAGATTG
* * * *
15898039 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
15898068 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
15898096 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
15898123 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
15898137 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:15898147 original size:27 final size:27
Alignment explanation
Indices: 15898067--15898149 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
15898057 TAAATTGTAC
* *
15898067 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
15898095 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
15898122 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
15898149 A
1 A
15898150 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:15905948 original size:28 final size:28
Alignment explanation
Indices: 15905880--15905998 Score: 159
Period size: 28 Copynumber: 4.2 Consensus size: 28
15905870 CATGAGATTG
* * * *
15905880 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
15905909 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
15905937 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
15905965 GCACTTGAGTGGTGCGAG-TTGATTATATA
1 GCAC-TAAGT-GTGCGAGTTTGATTATATA
15905994 GCACT
1 GCACT
15905999 GATGGTGCGG
Statistics
Matches: 83, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
28 39 0.47
29 37 0.45
30 7 0.08
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:15905987 original size:57 final size:57
Alignment explanation
Indices: 15905880--15905998 Score: 161
Period size: 57 Copynumber: 2.1 Consensus size: 57
15905870 CATGAGATTG
* *
15905880 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
* * *
15905937 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTTGAGTGGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCAC-TAAGT-GTGCGAGTTTGATTATATA
15905994 GCACT
1 GCACT
15905999 GATGGTGCGG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
56 10 0.18
57 38 0.69
58 7 0.13
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.34
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
Found at i:15917865 original size:49 final size:50
Alignment explanation
Indices: 15917776--15917915 Score: 151
Period size: 50 Copynumber: 2.8 Consensus size: 50
15917766 TTCCTGATAT
* * **
15917776 TGGCTCACATAAGCTTCCCAA-ATTTGGCTCTCTTGAGCTTCCCGTTTAC-
1 TGGCTCACATGAGCTTCCCAATATTTGGCTCGCAAGAGCTTCCCG-TTACA
**
15917825 T-GCTCTTATGAGCTTCCCAATATTTGGCTCGCAAGAGCTTCCCGTTACA
1 TGGCTCACATGAGCTTCCCAATATTTGGCTCGCAAGAGCTTCCCGTTACA
** * * *
15917874 TGGCTCACATGAGCTTCCCGTTGTATGGCTCGAAAGAGCTTC
1 TGGCTCACATGAGCTTCCCAATATTTGGCTCGCAAGAGCTTC
15917916 TTGATTTCAT
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
48 20 0.27
49 22 0.29
50 33 0.44
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.32
Consensus pattern (50 bp):
TGGCTCACATGAGCTTCCCAATATTTGGCTCGCAAGAGCTTCCCGTTACA
Found at i:15917877 original size:25 final size:25
Alignment explanation
Indices: 15917849--15917915 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
15917839 TCCCAATATT
15917849 TGGCTCGCAAGAGCTTCCCGTTACA
1 TGGCTCGCAAGAGCTTCCCGTTACA
* * **
15917874 TGGCTCACATGAGCTTCCCGTTGTA
1 TGGCTCGCAAGAGCTTCCCGTTACA
*
15917899 TGGCTCGAAAGAGCTTC
1 TGGCTCGCAAGAGCTTC
15917916 TTGATTTCAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.19, C:0.28, G:0.25, T:0.27
Consensus pattern (25 bp):
TGGCTCGCAAGAGCTTCCCGTTACA
Found at i:15921073 original size:27 final size:31
Alignment explanation
Indices: 15921039--15921100 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
15921029 TTTGCACTCA
15921039 TTTT-GTTAC-TTT-AT-TTAC-ATTATGAC
1 TTTTGGTTACTTTTAATATTACTATTATGAC
15921065 TTTTGGTTACTTTTAATATTACTATTATGAC
1 TTTTGGTTACTTTTAATATTACTATTATGAC
15921096 TTTTG
1 TTTTG
15921101 ATGATTTGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 4 0.13
27 5 0.16
28 3 0.10
29 2 0.06
30 4 0.13
31 13 0.42
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.58
Consensus pattern (31 bp):
TTTTGGTTACTTTTAATATTACTATTATGAC
Found at i:15922356 original size:28 final size:28
Alignment explanation
Indices: 15922324--15922379 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
15922314 GAAGTGAGAA
15922324 AACCTCCTTGTAGTTGAGAGCCTCCATT
1 AACCTCCTTGTAGTTGAGAGCCTCCATT
15922352 AACCTCCTTGTAGTTGAGAGCCTCCATT
1 AACCTCCTTGTAGTTGAGAGCCTCCATT
15922380 GCCATTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (28 bp):
AACCTCCTTGTAGTTGAGAGCCTCCATT
Found at i:15926338 original size:50 final size:50
Alignment explanation
Indices: 15926263--15926505 Score: 324
Period size: 50 Copynumber: 4.8 Consensus size: 50
15926253 ATTTGGGTAA
* *
15926263 AGAGGTCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * *
15926313 AGAGGTCCCATGTAAGACCATGTCTGGAACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
* * *
15926363 AGAGGTCCCATGTAAGATCATGTTTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** * * * *
15926413 AGAGGTCCCCCGTAAGACCATGTCTGGAACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
** *
15926463 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
15926506 TGTTATTATC
Statistics
Matches: 167, Mismatches: 25, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
50 134 0.80
51 33 0.20
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATG
Found at i:15926436 original size:100 final size:100
Alignment explanation
Indices: 15926263--15926505 Score: 360
Period size: 100 Copynumber: 2.4 Consensus size: 100
15926253 ATTTGGGTAA
* * *
15926263 AGAGGTCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCAAGATGAGAGGTCCCATGTAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCACGTAA
* *
15926328 GACCATGTCTGGAACATGGCGTTGGCACCGAGATG
66 GACCATGTCTGGAACATGGCATGGGCACCGAGATG
* * * *
15926363 AGAGGTCCCATGTAAGATCATGTTTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCCGTAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCACGTAA
*
15926428 GACCATGTCTGGAACATGGCATGGGCACCGATATG
66 GACCATGTCTGGAACATGGCATGGGCACCGAGATG
** *
15926463 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
15926506 TGTTATTATC
Statistics
Matches: 127, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 92 0.72
101 35 0.28
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (100 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCACGTAA
GACCATGTCTGGAACATGGCATGGGCACCGAGATG
Found at i:15933444 original size:50 final size:50
Alignment explanation
Indices: 15933369--15933560 Score: 260
Period size: 50 Copynumber: 3.8 Consensus size: 50
15933359 ATTTGGGTAA
* * *
15933369 AGAGGTCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGAACATGGCATTGGCACCGAGATG
*
15933419 AGAGGTCCCATGTAAGACCATGTCTGGAACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGAACATGGCATTGGCACCGAGATG
** * *
15933469 AGAGGTCCCCCGTAAGACCATGTCTGGAACATGGCATAGG-ACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGAACATGGCATTGGCACCGAGATG
** * *
15933518 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGAACATGGCATTGGCA
15933561 TGTTATTATC
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
49 10 0.08
50 113 0.91
51 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGAACATGGCATTGGCACCGAGATG
Found at i:15938150 original size:17 final size:17
Alignment explanation
Indices: 15938124--15938157 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
15938114 CAATTTGTAG
15938124 TTATTTAAATAA-AACT
1 TTATTTAAATAACAACT
15938140 TTATCTTAAATAACAACT
1 TTAT-TTAAATAACAACT
15938158 AATTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (17 bp):
TTATTTAAATAACAACT
Found at i:15938678 original size:2 final size:2
Alignment explanation
Indices: 15938671--15938702 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15938661 GGAAAGTCTT
15938671 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
15938703 TCTTCAATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15939158 original size:4 final size:4
Alignment explanation
Indices: 15939149--15939177 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
15939139 AATGTATTTA
15939149 AGAT AGAT AGAT AGAT AGAT AGAT AGAT A
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT A
15939178 CACTAAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AGAT
Found at i:15958078 original size:51 final size:51
Alignment explanation
Indices: 15958002--15958532 Score: 514
Period size: 51 Copynumber: 10.8 Consensus size: 51
15957992 TGAAACCACA
** * *
15958002 AATCTTATTTCCTTGGTATTGCAGTGGAACAGATTAAAGCTGAAGTCAACG
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
** *
15958053 AATCTTATTTCCTTGGTATTGCAGTGGAACAGATTAAAGCTGAAGGCAGTG
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * * *
15958104 AATCTTATTTCCCTGGCGTTGTAGT-----AGATTAAGGTTGAAGGCAGCG
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* ** **
15958150 AATCTTATTTCCTTAGCGTTGCAGTGGAATGGATTAAAGCTGAAGGCAATG
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* ** *
15958201 AATCTTATTTCCCTGTTGTTGCAGT-----AGATTAAAGCTGAAGGTAGC-
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* *
15958246 AGATCTTATTTCCCTT-GCGTTACAGTGGAACAGATTAAAGCTGAAGGCATCG
1 A-ATCTTATTT-CCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * * * *
15958298 AATCTTATTTCCCTGGTGTTGCAGT-----AGATTAAAACAGAAGGCAGCA
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* *
15958344 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAAGTAGCG
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * *
15958395 AATCTTATTT-CTCTGGCGTTGCAGT-----AGATTACAGCTGAAGGTAACG
1 AATCTTATTTCCT-TGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * *
15958441 AATCTTATTTTCTTGGTGTTGCAATGGAACAGATTAAAGCTGAAGGCAGCG
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
* * * * *
15958492 AATCTTATTTCCCTAGCATTGCAGTAGAATAGATTAAAGCT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCT
15958533 ACAAATTATG
Statistics
Matches: 392, Mismatches: 62, Indels: 52
0.77 0.12 0.10
Matches are distributed among these distances:
45 1 0.00
46 150 0.38
47 5 0.01
50 5 0.01
51 230 0.59
52 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (51 bp):
AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCG
Found at i:15958173 original size:97 final size:97
Alignment explanation
Indices: 15958032--15958519 Score: 640
Period size: 97 Copynumber: 5.0 Consensus size: 97
15958022 GCAGTGGAAC
* * **
15958032 AGATTAAAGCTGAAGTCAACGAATCTTATTTCCTTGGTATTGCAGTGGAACAGATTAAAGCTGAA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAA
*
15958097 GGCAGTGAATCTTATTTCCCTGGCGTTGTAGT
66 GGCAGTGAATCTTATTTCCCTGGCGTTGCAGT
* * * **
15958129 AGATTAAGGTTGAAGGCAGCGAATCTTATTTCCTTAGCGTTGCAGTGGAATGGATTAAAGCTGAA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAA
* **
15958194 GGCAATGAATCTTATTTCCCTGTTGTTGCAGT
66 GGCAGTGAATCTTATTTCCCTGGCGTTGCAGT
* *
15958226 AGATTAAAGCTGAAGGTAGC-AGATCTTATTTCCCTT-GCGTTACAGTGGAACAGATTAAAGCTG
1 AGATTAAAGCTGAAGGCAGCGA-ATCTTATTT-CCTTGGCGTTGCAGTGGAACAGATTAAAGCTG
*
15958289 AAGGCA-TCGAATCTTATTTCCCTGGTGTTGCAGT
64 AAGGCAGT-GAATCTTATTTCCCTGGCGTTGCAGT
* * *
15958323 AGATTAAAACAGAAGGCAGCAAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAA
* * * *
15958388 AGTAGCGAATCTTATTTCTCTGGCGTTGCAGT
66 GGCAGTGAATCTTATTTCCCTGGCGTTGCAGT
* * * * * *
15958420 AGATTACAGCTGAAGGTAACGAATCTTATTTTCTTGGTGTTGCAATGGAACAGATTAAAGCTGAA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAA
* * *
15958485 GGCAGCGAATCTTATTTCCCTAGCATTGCAGT
66 GGCAGTGAATCTTATTTCCCTGGCGTTGCAGT
15958517 AGA
1 AGA
15958520 ATAGATTAAA
Statistics
Matches: 342, Mismatches: 43, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
96 6 0.02
97 331 0.97
98 5 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (97 bp):
AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAA
GGCAGTGAATCTTATTTCCCTGGCGTTGCAGT
Found at i:15958653 original size:44 final size:44
Alignment explanation
Indices: 15958550--15958673 Score: 144
Period size: 44 Copynumber: 2.8 Consensus size: 44
15958540 ATGACAAATT
* *
15958550 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAACGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAACGATC
** * * *
15958594 CCATCTTCCTTAAGTTGCAGTGGAGCGGATTGAAGTTACAA-G-TC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--ACAACGATC
*
15958638 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
15958674 TAGCTAATCT
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
42 1 0.02
44 60 0.92
45 1 0.02
46 3 0.05
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAACGATC
Found at i:15958891 original size:238 final size:238
Alignment explanation
Indices: 15958441--15958872 Score: 578
Period size: 238 Copynumber: 1.8 Consensus size: 238
15958431 GAAGGTAACG
* * * *
15958441 AATCTTATTTTCTTGGTGTTGCAATGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
1 AATCTTATTTCCCTAGTGTTGCAATGGAACAGATTAAAACTGAAGGCAGCGAATCTTATTTCCCT
*
15958506 AGCATTGCAGTAGAATAGATTAAAGCTACAAATTATGACAAATTTTATCTCCCTGAAGTTGCAGT
66 AGCATTGCAGTAGAATAGATTAAAGCTACAAATTATGACAAATCTTATCTCCCTGAAGTTGCAGT
* * * * * * * * * *
15958571 GGAGCAGATTAAAGCCAACGATCCCATCTTCCTTAAGTTGCAGTGGAGCGGATTGAAGTTACAAG
131 GAAGCAGATGAAAGCCAACAATCCCATCTCCCTGAAGTTACACTGGAGCGGATTAAAATGACAAG
*
15958636 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCT
196 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCT
* * *
15958679 AATCTTATTTCCCTAGTGTTGTAATGGAACAGATTAAAACTGAAGGCAGTGAATCTTATTTCTCT
1 AATCTTATTTCCCTAGTGTTGCAATGGAACAGATTAAAACTGAAGGCAGCGAATCTTATTTCCCT
* * *** *
15958744 AGCGTTGCAGTGGAATAGATTAAAGCTACAAATTATGGTGAATCTTATCTTCCTGAAGTTGCAGT
66 AGCATTGCAGTAGAATAGATTAAAGCTACAAATTATGACAAATCTTATCTCCCTGAAGTTGCAGT
* * * * *
15958809 GAAGCAGACTGAAA-CCACCAATTCTATCTCCCTGAAGTTATACTGGAGGGGATTAAAATGACAA
131 GAAGCAGA-TGAAAGCCAACAATCCCATCTCCCTGAAGTTACACTGGAGCGGATTAAAATGACAA
15958873 ATTCTATACC
Statistics
Matches: 164, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
238 160 0.98
239 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (238 bp):
AATCTTATTTCCCTAGTGTTGCAATGGAACAGATTAAAACTGAAGGCAGCGAATCTTATTTCCCT
AGCATTGCAGTAGAATAGATTAAAGCTACAAATTATGACAAATCTTATCTCCCTGAAGTTGCAGT
GAAGCAGATGAAAGCCAACAATCCCATCTCCCTGAAGTTACACTGGAGCGGATTAAAATGACAAG
TCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCT
Found at i:15963173 original size:57 final size:57
Alignment explanation
Indices: 15963112--15963227 Score: 160
Period size: 57 Copynumber: 2.0 Consensus size: 57
15963102 GTCATTATTC
* * * * * *
15963112 ACATTTTGATAACATAAATATGCACATTAAGAGACATTATGACAGTAGTTGTAAATT
1 ACATTTGGACAACATAAATATGCACATCAAAAGACATTATGACAGCAATTGTAAATT
* *
15963169 ACATTTGGACAGCATAAATATGCACATCAAAAGACATTTTGACAGCAATTGTAAATT
1 ACATTTGGACAACATAAATATGCACATCAAAAGACATTATGACAGCAATTGTAAATT
15963226 AC
1 AC
15963228 TAATGCAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (57 bp):
ACATTTGGACAACATAAATATGCACATCAAAAGACATTATGACAGCAATTGTAAATT
Found at i:15965315 original size:23 final size:23
Alignment explanation
Indices: 15965289--15965335 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
15965279 ATTGTATATG
15965289 TTTATTTTGTAGTGTAGGTTTAT
1 TTTATTTTGTAGTGTAGGTTTAT
* *
15965312 TTTATTTTTTAGTGTATGTTTAT
1 TTTATTTTGTAGTGTAGGTTTAT
15965335 T
1 T
15965336 AAGATAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (23 bp):
TTTATTTTGTAGTGTAGGTTTAT
Found at i:15965352 original size:51 final size:50
Alignment explanation
Indices: 15965293--15965428 Score: 139
Period size: 55 Copynumber: 2.6 Consensus size: 50
15965283 TATATGTTTA
* ** *
15965293 TTTT-GTAGTGTAGGTTTATTTTATTTTTTAGTGTATGTTTATTAAGATAG
1 TTTTGGTAGTGTATGTTTATTTTATTTTTTAGAAT-TGTGTATTAAGATAG
* *
15965343 TTTTGGTAGTGCATGTTTATTTTAGTAGAATTATTAGAATTGTGTATTAAGATAG
1 TTTTGGTAGTGTATGTTTATTTTA-T----TTTTTAGAATTGTGTATTAAGATAG
* *
15965398 TTTTGGTACTGTATTTTTATTTTATTTTTTA
1 TTTTGGTAGTGTATGTTTATTTTATTTTTTA
15965429 TTGATAATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
50 9 0.13
51 17 0.24
52 1 0.01
54 1 0.01
55 35 0.50
56 7 0.10
ACGTcount: A:0.24, C:0.01, G:0.18, T:0.57
Consensus pattern (50 bp):
TTTTGGTAGTGTATGTTTATTTTATTTTTTAGAATTGTGTATTAAGATAG
Found at i:15968736 original size:24 final size:24
Alignment explanation
Indices: 15968709--15968760 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
15968699 AACTTCCACC
15968709 CCCTATTGTACC-CCTTGTTACACA
1 CCCTATTGTACCTCC-TGTTACACA
*
15968733 CCCTATTGTACCTCCTGTTCCACA
1 CCCTATTGTACCTCCTGTTACACA
15968757 CCCT
1 CCCT
15968761 GTTATACATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.17, C:0.42, G:0.08, T:0.33
Consensus pattern (24 bp):
CCCTATTGTACCTCCTGTTACACA
Found at i:15968772 original size:24 final size:24
Alignment explanation
Indices: 15968724--15968772 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
15968714 TTGTACCCCT
* *
15968724 TGTTACACACCCTATTGTACCTCC
1 TGTTACACACCCTATTATACATCC
* *
15968748 TGTTCCACACCCTGTTATACATCC
1 TGTTACACACCCTATTATACATCC
15968772 T
1 T
15968773 ATTGTACCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.20, C:0.37, G:0.08, T:0.35
Consensus pattern (24 bp):
TGTTACACACCCTATTATACATCC
Found at i:15975975 original size:3 final size:3
Alignment explanation
Indices: 15975969--15976022 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
15975959 TATGATTTCC
15975969 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15976017 ATT ATT
1 ATT ATT
15976023 TGATTTTAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:15980688 original size:49 final size:48
Alignment explanation
Indices: 15980617--15980709 Score: 168
Period size: 49 Copynumber: 1.9 Consensus size: 48
15980607 AAATTCTAAA
*
15980617 AATTAAACGATAAATAATTAGACTTTAGACTTATTCAAGAATAATCAG
1 AATTAAAAGATAAATAATTAGACTTTAGACTTATTCAAGAATAATCAG
15980665 AATTAAAGAGATAAATAATTAGACTTTAGACTTATTCAAGAATAA
1 AATTAAA-AGATAAATAATTAGACTTTAGACTTATTCAAGAATAA
15980710 ACAAATAAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 7 0.16
49 36 0.84
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (48 bp):
AATTAAAAGATAAATAATTAGACTTTAGACTTATTCAAGAATAATCAG
Found at i:15983735 original size:60 final size:54
Alignment explanation
Indices: 15983657--15983804 Score: 181
Period size: 54 Copynumber: 2.6 Consensus size: 54
15983647 CATCTTCAAA
* * *
15983657 TGAAGTGTTTTCTTCATCAGAATTATAACTAGTGACTTTTATGTCTTCATCCTGATCTGT
1 TGAAGTTTTTTCTTCATCAGAATTATAACTAGTAACTTTTA-----T-ATCCTAATCTGT
*
15983717 TGAAGTTTTTTCTCCATCAG-ATTGATAACTAGTAACTTTTATATCCTAATCTGT
1 TGAAGTTTTTTCTTCATCAGAATT-ATAACTAGTAACTTTTATATCCTAATCTGT
*
15983771 TGAAGTTTTTTCTTCATCAGATTTATAACTAGTA
1 TGAAGTTTTTTCTTCATCAGAATTATAACTAGTA
15983805 GCTTCTAAGT
Statistics
Matches: 80, Mismatches: 6, Indels: 10
0.83 0.06 0.10
Matches are distributed among these distances:
54 40 0.50
55 3 0.04
59 3 0.04
60 34 0.43
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (54 bp):
TGAAGTTTTTTCTTCATCAGAATTATAACTAGTAACTTTTATATCCTAATCTGT
Found at i:15984834 original size:15 final size:15
Alignment explanation
Indices: 15984814--15984855 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
15984804 TATTTGATAA
15984814 TTTACAATCTGTTAG
1 TTTACAATCTGTTAG
**
15984829 TTTACAATCTCCTAG
1 TTTACAATCTGTTAG
15984844 TTTACAATCTGT
1 TTTACAATCTGT
15984856 CTATACAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (15 bp):
TTTACAATCTGTTAG
Found at i:15993913 original size:24 final size:24
Alignment explanation
Indices: 15993878--15993933 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
15993868 TCTTCTAGTT
15993878 AAACTCTATTTATTTGTATCAATC
1 AAACTCTATTTATTTGTATCAATC
* * * *
15993902 AACCTCTGTTTATTTGTTTTAATC
1 AAACTCTATTTATTTGTATCAATC
15993926 AAACTCTA
1 AAACTCTA
15993934 ATTAGTTTAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.46
Consensus pattern (24 bp):
AAACTCTATTTATTTGTATCAATC
Found at i:15995288 original size:25 final size:25
Alignment explanation
Indices: 15995211--15995308 Score: 76
Period size: 25 Copynumber: 3.9 Consensus size: 25
15995201 TACAAGCCAT
* * *
15995211 AATCAGTAAGATCCTTCGAGCTG-A
1 AATCAGTAAGCTCATACGAGCTGCA
* * *
15995235 AAT-ATGGTAAGCTCATACAAGTTGAA
1 AATCA--GTAAGCTCATACGAGCTGCA
*
15995261 AATCGGTAAGCTC-TCACGAGCTGCA
1 AATCAGTAAGCTCAT-ACGAGCTGCA
*
15995286 AATTAGTAAGCTCATACGAGCTG
1 AATCAGTAAGCTCATACGAGCTG
15995309 TGGTGAGTCC
Statistics
Matches: 57, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
23 1 0.02
24 4 0.07
25 47 0.82
26 5 0.09
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (25 bp):
AATCAGTAAGCTCATACGAGCTGCA
Found at i:15997372 original size:24 final size:24
Alignment explanation
Indices: 15997345--15997396 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15997335 TCTTCTAGTT
15997345 AAACGCTATTTATTCGTTTCAATC
1 AAACGCTATTTATTCGTTTCAATC
** *
15997369 AAACTTTATTTATTTGTTTCAATC
1 AAACGCTATTTATTCGTTTCAATC
15997393 AAAC
1 AAAC
15997397 TCTGATTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (24 bp):
AAACGCTATTTATTCGTTTCAATC
Found at i:15997397 original size:24 final size:24
Alignment explanation
Indices: 15997351--15997397 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
15997341 AGTTAAACGC
15997351 TATTTATTCGTTTCAATCAAACTT
1 TATTTATTCGTTTCAATCAAACTT
*
15997375 TATTTATTTGTTTCAATCAAACT
1 TATTTATTCGTTTCAATCAAACT
15997398 CTGATTAGTC
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:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (24 bp):
TATTTATTCGTTTCAATCAAACTT
Found at i:15998554 original size:21 final size:20
Alignment explanation
Indices: 15998528--15998572 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
15998518 AGATTTTTTA
*
15998528 AACACTTTGAAAATTACTTTG
1 AACACTTGGAAAA-TACTTTG
* *
15998549 AACACTTGGGAAATATTTTG
1 AACACTTGGAAAATACTTTG
15998569 AACA
1 AACA
15998573 AGTTTAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AACACTTGGAAAATACTTTG
Found at i:16000494 original size:74 final size:74
Alignment explanation
Indices: 16000415--16000562 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 74
16000405 GGTATAAAGA
* *
16000415 CTAAATTGTAAAAGTGGTGAAAGTTAATTTTTAATTAATTGAAGGACAAATTGAGCAATTAGACC
1 CTAAATTGTAAAAGTGATAAAAGTTAATTTTTAATTAATTGAAGGACAAATTGAGCAATTAGACC
16000480 TTCTTTATT
66 TTCTTTATT
*
16000489 CTAAATTGTAAAAGTGATAAAAGTTAATTTTTAATTAATTGAAGGACCAATTGAGCAATTAGACC
1 CTAAATTGTAAAAGTGATAAAAGTTAATTTTTAATTAATTGAAGGACAAATTGAGCAATTAGACC
16000554 TTCTTTATT
66 TTCTTTATT
16000563 ATGTCAAACA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.38
Consensus pattern (74 bp):
CTAAATTGTAAAAGTGATAAAAGTTAATTTTTAATTAATTGAAGGACAAATTGAGCAATTAGACC
TTCTTTATT
Found at i:16002079 original size:26 final size:26
Alignment explanation
Indices: 16002039--16002088 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
16002029 TATTTTCTCG
16002039 AAATTTTACTAGGGGTAAAATCGTTA
1 AAATTTTACTAGGGGTAAAATCGTTA
* *
16002065 AAATTTTATTTGGGGTAAAATCGT
1 AAATTTTACTAGGGGTAAAATCGT
16002089 CTAGGGGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (26 bp):
AAATTTTACTAGGGGTAAAATCGTTA
Found at i:16002093 original size:42 final size:42
Alignment explanation
Indices: 16002047--16002130 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
16002037 CGAAATTTTA
*
16002047 CTAGGGGTAAAATCGTTAAAATTTTATTTGGGGTAAAATCGT
1 CTAGGGGTAAAATCGTTAAAATTTTATTTGGAGTAAAATCGT
16002089 CTAGGGGTAAAATCGTTAAAATTTTATTTGGAGTAAAATCGT
1 CTAGGGGTAAAATCGTTAAAATTTTATTTGGAGTAAAATCGT
16002131 TAAAATTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.36
Consensus pattern (42 bp):
CTAGGGGTAAAATCGTTAAAATTTTATTTGGAGTAAAATCGT
Found at i:16002151 original size:26 final size:26
Alignment explanation
Indices: 16002089--16002153 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
16002079 GTAAAATCGT
*
16002089 CTAGGGGTAAAATCGTTAAAATTTTA
1 CTAGGGATAAAATCGTTAAAATTTTA
**
16002115 -TTTGGAGTAAAATCGTTAAAATTTTA
1 CTAGGGA-TAAAATCGTTAAAATTTTA
16002141 CTAGGGATAAAAT
1 CTAGGGATAAAAT
16002154 AGGGATGAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 3 0.09
26 25 0.78
27 4 0.12
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.35
Consensus pattern (26 bp):
CTAGGGATAAAATCGTTAAAATTTTA
Found at i:16004077 original size:27 final size:27
Alignment explanation
Indices: 16004047--16004124 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
16004037 TGTCCCGACA
* *
16004047 GACTATCCCATGTTCACTGTCCTGGTG
1 GACTATCCCATGTTTAATGTCCTGGTG
* * *
16004074 GACTACCCCGTGTTTATTGCTCC-GGTG
1 GACTATCCCATGTTTAATG-TCCTGGTG
*
16004101 GACTATCACATGTTTAATGTCCTG
1 GACTATCCCATGTTTAATGTCCTG
16004125 ACAGACTCTA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.07
27 35 0.85
28 3 0.07
ACGTcount: A:0.17, C:0.27, G:0.22, T:0.35
Consensus pattern (27 bp):
GACTATCCCATGTTTAATGTCCTGGTG
Found at i:16006965 original size:14 final size:14
Alignment explanation
Indices: 16006942--16006979 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
16006932 CGAGAGAAGG
*
16006942 AAAAACAAAAAAAA
1 AAAAAGAAAAAAAA
*
16006956 AAAAAGAAAAAGAA
1 AAAAAGAAAAAAAA
16006970 AAAAAGAAAA
1 AAAAAGAAAA
16006980 GGAGGAGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAA
Found at i:16006966 original size:20 final size:21
Alignment explanation
Indices: 16006941--16006979 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
16006931 ACGAGAGAAG
16006941 GAAAAACAAAAAAA-AAAAAA
1 GAAAAACAAAAAAAGAAAAAA
*
16006961 GAAAAAGAAAAAAAGAAAA
1 GAAAAACAAAAAAAGAAAA
16006980 GGAGGAGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (21 bp):
GAAAAACAAAAAAAGAAAAAA
Done.