Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 208 of 250
Found at i:64864180 original size:88 final size:88
Alignment explanation
Indices: 64864031--64864215 Score: 352
Period size: 88 Copynumber: 2.1 Consensus size: 88
64864021 AGTTAAAATT
*
64864031 TAACTTACACAACTTACATAATTTACATAATGTACATAAATATATATCATATCATAACTTACATA
1 TAACTTACACAACTTACATAATTTACATAATGTACATAAATATATATCATATCACAACTTACATA
*
64864096 ATACATAAATAAATATCATCTCA
66 ATACATAAATAAATATCATATCA
64864119 TAACTTACACAACTTACATAATTTACATAATGTACATAAATATATATCATATCACAACTTACATA
1 TAACTTACACAACTTACATAATTTACATAATGTACATAAATATATATCATATCACAACTTACATA
64864184 ATACATAAATAAATATCATATCA
66 ATACATAAATAAATATCATATCA
64864207 TAACTTACA
1 TAACTTACA
64864216 TAATTTACGT
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 95 1.00
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.34
Consensus pattern (88 bp):
TAACTTACACAACTTACATAATTTACATAATGTACATAAATATATATCATATCACAACTTACATA
ATACATAAATAAATATCATATCA
Found at i:64864189 original size:52 final size:51
Alignment explanation
Indices: 64864083--64864191 Score: 139
Period size: 54 Copynumber: 2.1 Consensus size: 51
64864073 TATATCATAT
* *
64864083 CATAACTTACATAATACATAAATAAATATCATCTCATAACTTACACAACTTA
1 CATAACTTACATAATACATAAATAAATATCATATCACAACTTACACAAC-TA
* * *
64864135 CATAATTTACATAATGTACATAAATATATATCATATCACAACTTACATAA-TA
1 CATAACTTACATAA--TACATAAATAAATATCATATCACAACTTACACAACTA
64864187 CATAA
1 CATAA
64864192 ATAAATATCA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
52 20 0.40
54 30 0.60
ACGTcount: A:0.49, C:0.18, G:0.01, T:0.32
Consensus pattern (51 bp):
CATAACTTACATAATACATAAATAAATATCATATCACAACTTACACAACTA
Found at i:64864193 original size:34 final size:34
Alignment explanation
Indices: 64864141--64864219 Score: 122
Period size: 34 Copynumber: 2.3 Consensus size: 34
64864131 CTTACATAAT
*
64864141 TTACATAATGTACATAAATATATATCATATCACAAC
1 TTACATAA--TACATAAATAAATATCATATCACAAC
*
64864177 TTACATAATACATAAATAAATATCATATCATAAC
1 TTACATAATACATAAATAAATATCATATCACAAC
64864211 TTACATAAT
1 TTACATAAT
64864220 TTACGTAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
34 33 0.80
36 8 0.20
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.34
Consensus pattern (34 bp):
TTACATAATACATAAATAAATATCATATCACAAC
Found at i:64868393 original size:28 final size:29
Alignment explanation
Indices: 64868341--64868395 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
64868331 GGAAACACCT
64868341 GATGAGCCTGCAAAAATTCAAAGTAATCC
1 GATGAGCCTGCAAAAATTCAAAGTAATCC
64868370 GATGAGCCTGCAAAAATTC-AAGTAAT
1 GATGAGCCTGCAAAAATTCAAAGTAAT
64868396 GCTAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (29 bp):
GATGAGCCTGCAAAAATTCAAAGTAATCC
Found at i:64870943 original size:32 final size:32
Alignment explanation
Indices: 64870846--64870959 Score: 133
Period size: 33 Copynumber: 3.5 Consensus size: 32
64870836 GTACCTAAAA
* *
64870846 TGTACAACTGGAAAAGGAAATGTACACTGTGTG
1 TGTACAACTTGAAAAGGAAATGTACCCT-TGTG
* * *
64870879 TGTACAACTTAAAAAGGAAACGTACACTTTGTG
1 TGTACAACTTGAAAAGGAAATGTAC-CCTTGTG
64870912 TGTAC-ACTTGAAAAGGAAATGTACGCCTTGTG
1 TGTACAACTTGAAAAGGAAATGTAC-CCTTGTG
64870944 TGTACAA-TGTGAAAAG
1 TGTACAACT-TGAAAAG
64870960 TGGTAGCTTC
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
32 29 0.42
33 39 0.57
34 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (32 bp):
TGTACAACTTGAAAAGGAAATGTACCCTTGTG
Found at i:64870990 original size:31 final size:31
Alignment explanation
Indices: 64870953--64871037 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
64870943 GTGTACAATG
*
64870953 TGAAAAGTGGTAGCTTCGGCTACCTGATTAA
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAA
* * * *
64870984 TGAAAAGTAGTAGCTCCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAA
* *
64871015 TGAATAGTGATAGCTTCGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
64871038 AAGTGACAAG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAA
Found at i:64871157 original size:27 final size:27
Alignment explanation
Indices: 64871127--64871178 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
64871117 TAGTTGAACT
*
64871127 ATGGAAAAGTGATAAAGTGTGCCAATC
1 ATGGAAAAATGATAAAGTGTGCCAATC
*
64871154 ATGGAAAAATGATATAGTGTGCCAA
1 ATGGAAAAATGATAAAGTGTGCCAA
64871179 ACATAGCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.10, G:0.25, T:0.23
Consensus pattern (27 bp):
ATGGAAAAATGATAAAGTGTGCCAATC
Found at i:64873199 original size:13 final size:14
Alignment explanation
Indices: 64873183--64873211 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
64873173 TTTTAAATAT
64873183 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
64873196 TTATAATGGTTTAA
1 TTATAATGGTTTAA
64873210 TT
1 TT
64873212 CGCCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:64874073 original size:43 final size:43
Alignment explanation
Indices: 64874001--64874135 Score: 157
Period size: 43 Copynumber: 3.2 Consensus size: 43
64873991 GAACATGATA
* * **
64874001 TTTAGCGGCGTTT-T-TGTAAAAGCACCGCTAAAGGTCATATTC
1 TTTAACGGCGTTTGTATG-AAAAGCGCCGCTAAAGGTCACGTTC
* * * *
64874043 TTTAATGGCGTTTGTATGAAAAGTGGCGCTAAAAGTCACGTTC
1 TTTAACGGCGTTTGTATGAAAAGCGCCGCTAAAGGTCACGTTC
* *
64874086 TTTAGCGGCGTTTGTATGGAAAGCGCCGCTAAAGGTCACGTTC
1 TTTAACGGCGTTTGTATGAAAAGCGCCGCTAAAGGTCACGTTC
64874129 TTTAACG
1 TTTAACG
64874136 ACGCTTTCTC
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
42 11 0.14
43 63 0.83
44 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TTTAACGGCGTTTGTATGAAAAGCGCCGCTAAAGGTCACGTTC
Found at i:64874181 original size:85 final size:86
Alignment explanation
Indices: 64874019--64874182 Score: 195
Period size: 85 Copynumber: 1.9 Consensus size: 86
64874009 CGTTTTTGTA
* * * * * * *
64874019 AAAGCACCGCTAAAGGTCATATTCTTTAATGGCGTTTGTATGAAAAGTGGCGCTAAAAGTCACGT
1 AAAGCACCGCTAAAGGTCACATTCTTTAACGACGCTTGTATCAAAAATGCCGCTAAAAGTCACGT
*
64874084 TCTTTAGCGGCGTTTGTATGG
66 TCTTTAGAGGCGTTTGTATGG
* * * *
64874105 AAAGCGCCGCTAAAGGTCACGTTCTTTAACGACGCTT-TCTCAAAAATGCCGCTAAAAGTCATGT
1 AAAGCACCGCTAAAGGTCACATTCTTTAACGACGCTTGTATCAAAAATGCCGCTAAAAGTCACGT
* *
64874169 TTTTTGGAGGCGTT
66 TCTTTAGAGGCGTT
64874183 GTGTTTAGCG
Statistics
Matches: 64, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
85 33 0.52
86 31 0.48
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (86 bp):
AAAGCACCGCTAAAGGTCACATTCTTTAACGACGCTTGTATCAAAAATGCCGCTAAAAGTCACGT
TCTTTAGAGGCGTTTGTATGG
Found at i:64885277 original size:13 final size:13
Alignment explanation
Indices: 64885259--64885284 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64885249 GGTGGCGGAC
64885259 ATTGCCCCACAAG
1 ATTGCCCCACAAG
64885272 ATTGCCCCACAAG
1 ATTGCCCCACAAG
64885285 GCGAAGTGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.15, T:0.15
Consensus pattern (13 bp):
ATTGCCCCACAAG
Found at i:64887961 original size:14 final size:14
Alignment explanation
Indices: 64887932--64887961 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
64887922 TTTATTATCT
64887932 AAAACAAAACCAAA
1 AAAACAAAACCAAA
64887946 AAAACCAAAACCAAA
1 AAAA-CAAAACCAAA
64887961 A
1 A
64887962 CCAAAGACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAACAAAACCAAA
Found at i:64890093 original size:22 final size:24
Alignment explanation
Indices: 64890068--64890114 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
64890058 TCAATACAGT
*
64890068 AAAAAAA-TATTTGGAAT-AATTA
1 AAAAAAATTATTTGAAATAAATTA
64890090 AAAAAAATTATTTGAAATAAATTA
1 AAAAAAATTATTTGAAATAAATTA
64890114 A
1 A
64890115 CATTTTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.32
23 9 0.41
24 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (24 bp):
AAAAAAATTATTTGAAATAAATTA
Found at i:64895678 original size:55 final size:55
Alignment explanation
Indices: 64895596--64895708 Score: 208
Period size: 55 Copynumber: 2.1 Consensus size: 55
64895586 TATCTTAATA
*
64895596 TTTTTAGGTATATGTGTGATATTTAAAATTTAAACGGTAATAATATAAATTAAAT
1 TTTTTAGGTATATGTGTGATATTTAAAATTTAAACAGTAATAATATAAATTAAAT
*
64895651 TTTTTAGGTATCTGTGTGATATTTAAAATTTAAACAGTAATAATATAAATTAAAT
1 TTTTTAGGTATATGTGTGATATTTAAAATTTAAACAGTAATAATATAAATTAAAT
64895706 TTT
1 TTT
64895709 GAAATTGTGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.45
Consensus pattern (55 bp):
TTTTTAGGTATATGTGTGATATTTAAAATTTAAACAGTAATAATATAAATTAAAT
Found at i:64900093 original size:3 final size:3
Alignment explanation
Indices: 64900085--64900112 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
64900075 GAGAGATAGG
64900085 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
64900113 AGTGAAGTAA
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:64904325 original size:29 final size:30
Alignment explanation
Indices: 64904291--64904352 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
64904281 ACTTATTTTA
*
64904291 TTGTTAA-TCTATTATTATTTTAAAGGGAT
1 TTGTTAATTCTATTATTATTTTAAAGGCAT
* * *
64904320 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTCTATTATTATTTTAAAGGCAT
64904350 TTG
1 TTG
64904353 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.55
Consensus pattern (30 bp):
TTGTTAATTCTATTATTATTTTAAAGGCAT
Found at i:64911494 original size:21 final size:21
Alignment explanation
Indices: 64911469--64911533 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
64911459 TAGCCTTCGG
64911469 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
*
64911490 GCTTCAG-TTAGC-CTTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
*
64911508 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTGTGT
64911529 GCTTC
1 GCTTC
64911534 AGCTAGACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 6 0.17
19 9 0.25
20 10 0.28
21 11 0.31
ACGTcount: A:0.11, C:0.26, G:0.23, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTGTGT
Found at i:64911497 original size:39 final size:39
Alignment explanation
Indices: 64911451--64911550 Score: 173
Period size: 39 Copynumber: 2.6 Consensus size: 39
64911441 GCTCTGATGA
*
64911451 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
64911490 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
64911529 GCTTCAGCTAGACTTCGGGCTT
1 GCTTCAGTTAGCCTTCGGGCTT
64911551 TATATCACGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.12, C:0.26, G:0.25, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:64912834 original size:28 final size:27
Alignment explanation
Indices: 64912784--64912836 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
64912774 ACTTTTAATG
* **
64912784 ATTTTTTATATTTTGATTTTTTATACA
1 ATTTTATATATTTTGATAATTTATACA
64912811 ATTTTATATATGTTTGATAATTTATA
1 ATTTTATATAT-TTTGATAATTTATA
64912837 ATAGAAACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (27 bp):
ATTTTATATATTTTGATAATTTATACA
Found at i:64913485 original size:25 final size:25
Alignment explanation
Indices: 64913457--64913510 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
64913447 TTTCTATTTC
64913457 TGTTAAAGATTTCATGAAATACCAT
1 TGTTAAAGATTTCATGAAATACCAT
64913482 TGTTAAAGATTTCATGAAATACCAT
1 TGTTAAAGATTTCATGAAATACCAT
64913507 TGTT
1 TGTT
64913511 GATATCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (25 bp):
TGTTAAAGATTTCATGAAATACCAT
Found at i:64914692 original size:12 final size:13
Alignment explanation
Indices: 64914675--64914706 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
64914665 GCAAATGTTA
64914675 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
64914687 AGTTTTGATGCAT
1 AGTTTTGATGCAT
64914700 -GTTTTGA
1 AGTTTTGA
64914707 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:64915627 original size:45 final size:45
Alignment explanation
Indices: 64915570--64915659 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
64915560 TTGAACCCAA
64915570 ATACATTACCCATAATGGAAGTAAACATGTTAGTAACAGAACCTT
1 ATACATTACCCATAATGGAAGTAAACATGTTAGTAACAGAACCTT
64915615 ATACATTACCCATAATGGAAGTAAACATGTTAGTAACAGAACCTT
1 ATACATTACCCATAATGGAAGTAAACATGTTAGTAACAGAACCTT
64915660 CTTCAAAAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (45 bp):
ATACATTACCCATAATGGAAGTAAACATGTTAGTAACAGAACCTT
Found at i:64917007 original size:209 final size:209
Alignment explanation
Indices: 64916642--64917061 Score: 795
Period size: 209 Copynumber: 2.0 Consensus size: 209
64916632 ATGGATGGTG
* * *
64916642 TTGCTTATAATGATGGACAAATGAAAGACTCTCCCAAAATTTTTATTTATCCACTTCCTATTTTG
1 TTGCCTATAATGATGGACAAATGAAAGACTCTCCCAAAAATTTTATTTATCCACTTCCTATTTTA
64916707 AAAATAGGTTGGTTGAACTTAAAAATTCCTTTATTGAATAAGGAAACAATCCAATTGCATGCACT
66 AAAATAGGTTGGTTGAACTTAAAAATTCCTTTATTGAATAAGGAAACAATCCAATTGCATGCACT
* *
64916772 TGAATTGGATGGGACCAACGAAATCGAGCGCTAACCCCCATTTCTTATTGAATTAACCGATCATC
131 TGAATTGGATGGGACCAACGAAATCGAGCGCTAACCCCAATTTCTTATTGAATTAACCGATCAAC
64916837 CTCCTGTCGAAGAT
196 CTCCTGTCGAAGAT
64916851 TTGCCTATAATGATGGACAAATGAAAGACTCTCCCAAAAATTTTATTTATCCACTTCCTATTTTA
1 TTGCCTATAATGATGGACAAATGAAAGACTCTCCCAAAAATTTTATTTATCCACTTCCTATTTTA
64916916 AAAATAGGTTGGTTGAACTTAAAAATTCCTTTATTGAATAAGGAAACAATCCAATTGCATGCACT
66 AAAATAGGTTGGTTGAACTTAAAAATTCCTTTATTGAATAAGGAAACAATCCAATTGCATGCACT
64916981 TGAATTGGATGGGACCAACGAAATCGAGCGCTAACCCCAATTTCTTATTGAATTAACCGATCAAC
131 TGAATTGGATGGGACCAACGAAATCGAGCGCTAACCCCAATTTCTTATTGAATTAACCGATCAAC
64917046 CTCCTGTCGAAGAT
196 CTCCTGTCGAAGAT
64917060 TT
1 TT
64917062 ATTTTGTATT
Statistics
Matches: 206, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
209 206 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (209 bp):
TTGCCTATAATGATGGACAAATGAAAGACTCTCCCAAAAATTTTATTTATCCACTTCCTATTTTA
AAAATAGGTTGGTTGAACTTAAAAATTCCTTTATTGAATAAGGAAACAATCCAATTGCATGCACT
TGAATTGGATGGGACCAACGAAATCGAGCGCTAACCCCAATTTCTTATTGAATTAACCGATCAAC
CTCCTGTCGAAGAT
Found at i:64920185 original size:21 final size:21
Alignment explanation
Indices: 64920159--64920201 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
64920149 TCACCGAATT
64920159 TGTGAGTGTGTTAAAATCTAG
1 TGTGAGTGTGTTAAAATCTAG
* *
64920180 TGTGAGTTTGTTATAATCTAG
1 TGTGAGTGTGTTAAAATCTAG
64920201 T
1 T
64920202 AAATGTAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.44
Consensus pattern (21 bp):
TGTGAGTGTGTTAAAATCTAG
Found at i:64922160 original size:16 final size:16
Alignment explanation
Indices: 64922141--64922187 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
64922131 TTAACTACTG
*
64922141 AAAAATAAGTGTTG-A
1 AAAAATAAGTATTGAA
*
64922156 AAAAATAAGTACT-AA
1 AAAAATAAGTATTGAA
64922171 AAAAATTAAGTATTGAA
1 AAAAA-TAAGTATTGAA
64922188 TTTAATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 17 0.65
16 7 0.27
17 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.13, T:0.26
Consensus pattern (16 bp):
AAAAATAAGTATTGAA
Found at i:64923251 original size:22 final size:23
Alignment explanation
Indices: 64923226--64923273 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 23
64923216 ATTAAATTTC
64923226 TAAAATTAAAAATA-AAAAAAAT
1 TAAAATTAAAAATAGAAAAAAAT
** *
64923248 T-AAATTTCAAATAGAAAAAACT
1 TAAAATTAAAAATAGAAAAAAAT
64923270 TAAA
1 TAAA
64923274 TCATATTGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
21 10 0.48
22 9 0.43
23 2 0.10
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (23 bp):
TAAAATTAAAAATAGAAAAAAAT
Found at i:64923253 original size:21 final size:22
Alignment explanation
Indices: 64923228--64923274 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
64923218 TAAATTTCTA
64923228 AAATTAAAAATA-AAAAAAATT
1 AAATTAAAAATAGAAAAAAATT
** *
64923249 AAATTTCAAATAGAAAAAACTT
1 AAATTAAAAATAGAAAAAAATT
64923271 AAAT
1 AAAT
64923275 CATATTGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (22 bp):
AAATTAAAAATAGAAAAAAATT
Found at i:64929262 original size:3 final size:3
Alignment explanation
Indices: 64929248--64929283 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
64929238 CACTCATGAA
64929248 ATT ATCT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
64929284 AAGGAGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:64935165 original size:33 final size:34
Alignment explanation
Indices: 64935126--64935202 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
64935116 TAACTTGAAA
64935126 GTGTCTTCAACAGAGT-ACTC-TAATACTTCATTG
1 GTGTCTTCAACAGA-TAACTCTTAATACTTCATTG
* *
64935159 GTGTCTTCAACATATAACTCTTATTACTTCATTG
1 GTGTCTTCAACAGATAACTCTTAATACTTCATTG
64935193 GTGTCTTCAA
1 GTGTCTTCAA
64935203 AACTTTCAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
32 1 0.03
33 17 0.43
34 22 0.55
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (34 bp):
GTGTCTTCAACAGATAACTCTTAATACTTCATTG
Found at i:64953228 original size:14 final size:14
Alignment explanation
Indices: 64953206--64953243 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
64953196 AGGAAACAGG
64953206 AAAAA-AAAAAAAC
1 AAAAACAAAAAAAC
*
64953219 AAAAACAAAAAAAT
1 AAAAACAAAAAAAC
*
64953233 AAGAACAAAAA
1 AAAAACAAAAA
64953244 GTACACTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.03
Consensus pattern (14 bp):
AAAAACAAAAAAAC
Found at i:64953231 original size:20 final size:20
Alignment explanation
Indices: 64953206--64953243 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64953196 AGGAAACAGG
64953206 AAAAAAAAAAAACAAAAACA
1 AAAAAAAAAAAACAAAAACA
* *
64953226 AAAAAATAAGAACAAAAA
1 AAAAAAAAAAAACAAAAA
64953244 GTACACTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAAAACAAAAACA
Found at i:64957468 original size:14 final size:15
Alignment explanation
Indices: 64957438--64957470 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
64957428 AGCCTAAATT
*
64957438 TTTATAGTTTTAGCA
1 TTTATAGTTTTACCA
64957453 TTTATA-TTTTACCA
1 TTTATAGTTTTACCA
64957467 TTTA
1 TTTA
64957471 ACAATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.09, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTATAGTTTTACCA
Found at i:64957695 original size:2 final size:2
Alignment explanation
Indices: 64957688--64957715 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
64957678 TAAGCTGATG
64957688 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64957716 CCATTTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64960396 original size:2 final size:2
Alignment explanation
Indices: 64960389--64960416 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
64960379 ATCACCTGTC
64960389 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64960417 GATTATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64965505 original size:12 final size:13
Alignment explanation
Indices: 64965490--64965521 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
64965480 ATAACACATT
64965490 TCAAAAC-ATGCA
1 TCAAAACTATGCA
64965502 TCAAAACTATGCA
1 TCAAAACTATGCA
64965515 -CAAAACT
1 TCAAAACT
64965522 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:64966122 original size:44 final size:43
Alignment explanation
Indices: 64965989--64966136 Score: 144
Period size: 44 Copynumber: 3.4 Consensus size: 43
64965979 TCCCAGATGT
* * *
64965989 GGTCTTACATGT-AATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAAATTCAA-ATCGATGCCTGTGTCCCAGACAC
* * * *
64966032 GGTCTTATACG-AAAAT-AGATACGATGCC-GATGTCCCAGACAT
1 GGTCTTACACGTAAATTCAAAT-CGATGCCTG-TGTCCCAGACAC
*
64966074 GGTCTTACACGTAAATTTCAAATCGATGCCTGTGTCCCAGGCAC
1 GGTCTTACACGTAAA-TTCAAATCGATGCCTGTGTCCCAGACAC
64966118 GGTCTTACACG-ATAATTCA
1 GGTCTTACACGTA-AATTCA
64966137 GGTCAATACC
Statistics
Matches: 86, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
41 2 0.02
42 29 0.34
43 20 0.23
44 31 0.36
45 4 0.05
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAAATTCAAATCGATGCCTGTGTCCCAGACAC
Found at i:64968522 original size:79 final size:80
Alignment explanation
Indices: 64968380--64968560 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
64968370 TACTCGTTCA
* **
64968380 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
64968445 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
**
64968460 AATGCCTTCGGG-CTTAGCCCGAA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
64968522 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
64968539 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
64968561 GACATCATTC
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 4 0.05
79 58 0.67
80 25 0.29
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:64968562 original size:40 final size:40
Alignment explanation
Indices: 64968359--64968562 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
64968349 CGGAATTTAA
** *
64968359 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64968399 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64968439 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
64968478 CC-GAAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
64968518 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
64968558 CCGGA
1 CCGGA
64968563 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 4 0.03
39 30 0.22
40 91 0.65
41 14 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:64978281 original size:128 final size:127
Alignment explanation
Indices: 64977900--64978283 Score: 585
Period size: 128 Copynumber: 3.0 Consensus size: 127
64977890 TTATATTGAT
*
64977900 GATACTAAATAGAATAATGTTGATAATATCACCAAGGCTAATGA---TTATTTGACCTTCAATTG
1 GATACTAAATAGAA-AATGTTGATAATATCACCAAGGCTAATGATCTTTATTTGACTTTCAATTG
*
64977962 GCTAGCATGATCTTATAAAACCTAAGGCACATTACAATATCACTGATAATGATGAGCTGCAAC
65 GCTAGCATGATCTCATAAAACCTAAGGCACATTACAATATCACTGATAATGATGAGCTGCAAC
* ** * * *
64978025 AATACTAAATAGAGTGATGCTGATAATATCACCAAGGCTAATGATCTCTATTTAACTTTCAATTG
1 GATACTAAATAGA-AAATGTTGATAATATCACCAAGGCTAATGATCTTTATTTGACTTTCAATTG
** * *
64978090 GCTAGCATGATCTCATAAAAATTAAGGTACATTACAATATCACTGATAATGACGAGCTGCAAC
65 GCTAGCATGATCTCATAAAACCTAAGGCACATTACAATATCACTGATAATGATGAGCTGCAAC
64978153 GATACTAAATAGAAAATTGTTGATAATATCACCAAGGCTAATGATCTTTATTTGACTTTCAATTG
1 GATACTAAATAGAAAA-TGTTGATAATATCACCAAGGCTAATGATCTTTATTTGACTTTCAATTG
* * *
64978218 GCTAGCCTGATCTCATAAAACCCAAGGCACATTATAATATCACTGATAATGATGAGCTGCAAC
65 GCTAGCATGATCTCATAAAACCTAAGGCACATTACAATATCACTGATAATGATGAGCTGCAAC
64978281 GAT
1 GAT
64978284 TTACCTTCTT
Statistics
Matches: 229, Mismatches: 25, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
125 39 0.17
127 1 0.00
128 189 0.83
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (127 bp):
GATACTAAATAGAAAATGTTGATAATATCACCAAGGCTAATGATCTTTATTTGACTTTCAATTGG
CTAGCATGATCTCATAAAACCTAAGGCACATTACAATATCACTGATAATGATGAGCTGCAAC
Found at i:64987336 original size:12 final size:12
Alignment explanation
Indices: 64987319--64987344 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64987309 TACGCCTATC
64987319 TCAACTATTGTA
1 TCAACTATTGTA
64987331 TCAACTATTGTA
1 TCAACTATTGTA
64987343 TC
1 TC
64987345 GAGTCACGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (12 bp):
TCAACTATTGTA
Found at i:64992736 original size:13 final size:13
Alignment explanation
Indices: 64992720--64992762 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 13
64992710 TTATTATGTT
64992720 TTATTATATTATA
1 TTATTATATTATA
64992733 TTATTATATTAATATA
1 TTATTATA-T--TATA
64992749 TTATTATATTATA
1 TTATTATATTATA
64992762 T
1 T
64992763 ACTTAAGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 13 0.48
14 1 0.04
15 1 0.04
16 12 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:64992737 original size:8 final size:8
Alignment explanation
Indices: 64992726--64992760 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
64992716 TGTTTTATTA
64992726 TATTATAT
1 TATTATAT
64992734 TATTATAT
1 TATTATAT
*
64992742 TAATATAT
1 TATTATAT
64992750 TATTATAT
1 TATTATAT
64992758 TAT
1 TAT
64992761 ATACTTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:64992748 original size:16 final size:15
Alignment explanation
Indices: 64992720--64992763 Score: 65
Period size: 16 Copynumber: 3.0 Consensus size: 15
64992710 TTATTATGTT
64992720 TTATTATA-T-TATA
1 TTATTATATTATATA
64992733 TTATTATATTAATATA
1 TTATTATATT-ATATA
64992749 TTATTATATTATATA
1 TTATTATATTATATA
64992764 CTTAAGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.29
14 1 0.04
15 5 0.18
16 14 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATTATATTATATA
Found at i:64999003 original size:46 final size:45
Alignment explanation
Indices: 64998914--64999037 Score: 126
Period size: 46 Copynumber: 2.7 Consensus size: 45
64998904 TATGTGTGCT
* * *
64998914 AGTGTAAGACATGTTTGGGACATGCATCAGCCACAGTATGAGAGCC
1 AGTGTAAGACATGTCT-GGACATGCATCAGCCACAGAACGAGAGCC
* *
64998960 AGTGTAAGACATGTCTCGGACATGCATC-GGCATC-GAAACGAGAGCT
1 AGTGTAAGACATGTCT-GGACATGCATCAGCCA-CAG-AACGAGAGCC
*
64999006 AGTGTAAGACCTGTCTGGAACATGGCATCAGC
1 AGTGTAAGACATGTCTGG-ACAT-GCATCAGC
64999038 TTGTTGTGTG
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
45 6 0.09
46 53 0.82
47 5 0.08
48 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGACATGCATCAGCCACAGAACGAGAGCC
Found at i:64999152 original size:49 final size:49
Alignment explanation
Indices: 64999049--64999172 Score: 142
Period size: 49 Copynumber: 2.5 Consensus size: 49
64999039 TGTTGTGTGT
* * * * *
64999049 CAGTGTAAGACCTGTCTGAGACATGACATTGATACCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGAAATCGAGACCGATAGATGAAAGC
* * * *
64999098 TAGTGTAAGACCTGTCTGGGACATGAAATCG-GCCTCGCTATATGAAAGC
1 CAGTGTAAGACCTGTCTGGGACATGAAATCGAGAC-CGATAGATGAAAGC
64999147 CAGTGTAAGACCATGTCTGGGACATG
1 CAGTGTAAGACC-TGTCTGGGACATG
64999173 GCGTCGGCAT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.02
49 49 0.78
50 13 0.21
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGAAATCGAGACCGATAGATGAAAGC
Found at i:65000504 original size:46 final size:46
Alignment explanation
Indices: 65000454--65000573 Score: 154
Period size: 46 Copynumber: 2.6 Consensus size: 46
65000444 ATAGTTTCAC
*
65000454 CCATAATAAACTCGGAACGCAACTCAACGAGCTCAGG-TG-TTCACAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGCTC-GGATGCTT-ACAT
* * *
65000500 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGATGCTTACAT
*
65000546 CCATAAGTGAACTCGGAATGCAACTCAA
1 CCATAA-TGAACTCGGAACGCAACTCAA
65000574 AAAGTTCGGA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
45 2 0.03
46 42 0.65
47 21 0.32
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGATGCTTACAT
Found at i:65008040 original size:47 final size:46
Alignment explanation
Indices: 65007914--65008051 Score: 159
Period size: 46 Copynumber: 3.0 Consensus size: 46
65007904 ACTATCATAA
* * ** * * *
65007914 TTTCACCCATAATGAACTCAGAATGCAACTCAAGGAGCTCAGATGT
1 TTTCATCCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGT
** * *
65007960 TCACATCCATAATGAACTCGGAATACAACTCAACGAGTTGGGATGT
1 TTTCATCCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGT
*
65008006 TTTCATCCATAAGTGAACTCGGAACACAAGTCAACGAGTTCGGATG
1 TTTCATCCATAA-TGAACTCGGAACACAACTCAACGAGTTCGGATG
65008052 CCTCATAATT
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
46 47 0.61
47 30 0.39
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (46 bp):
TTTCATCCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGT
Found at i:65017565 original size:22 final size:22
Alignment explanation
Indices: 65017540--65017604 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
65017530 CCCAAATAAG
65017540 ACAACAGCCCCATACCCCCACT
1 ACAACAGCCCCATACCCCCACT
65017562 ACAACAGCCCCATACCCCCACT
1 ACAACAGCCCCATACCCCCACT
* *
65017584 ATAGCAGCCCCATACCCCCAC
1 ACAACAGCCCCATACCCCCAC
65017605 GCGTCTGACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.31, C:0.54, G:0.06, T:0.09
Consensus pattern (22 bp):
ACAACAGCCCCATACCCCCACT
Found at i:65018643 original size:15 final size:15
Alignment explanation
Indices: 65018620--65018663 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
65018610 CTCTTATTGT
65018620 TTTTA-TATTATTAA
1 TTTTATTATTATTAA
65018634 TTTTATTATTATTAA
1 TTTTATTATTATTAA
*
65018649 TATTATTATGTATTA
1 TTTTATTAT-TATTA
65018664 GTTTATGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 5 0.19
15 17 0.63
16 5 0.19
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
TTTTATTATTATTAA
Found at i:65028885 original size:18 final size:18
Alignment explanation
Indices: 65028862--65028899 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
65028852 ATTTAATTTA
* *
65028862 TTTTCTTTTTCTTTTGAT
1 TTTTCTTTTTATTTTCAT
65028880 TTTTCTTTTTATTTTCAT
1 TTTTCTTTTTATTTTCAT
65028898 TT
1 TT
65028900 CAATTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.11, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTCTTTTTATTTTCAT
Found at i:65034908 original size:109 final size:109
Alignment explanation
Indices: 65034708--65034927 Score: 368
Period size: 109 Copynumber: 2.0 Consensus size: 109
65034698 TGTGCCTGAG
65034708 TAGAACCACACAAATCATCAATCTTTTTATTTAAGAGTTCTACCTGGTTAGATAGCATAATAATC
1 TAGAACCACACAAATCATCAATCTTTTTATTTAAGAGTTCTACCTGGTTAGATAGCATAATAATC
* *
65034773 GCAGCGAGGTTGAAAACACCAACTGCTTTCGTCGGCTTTGTCCT
66 GCAGCGAGGTTGAAAACACCAACTGCTTTCATCGACTTTGTCCT
* *
65034817 TAGAACCACTCAAATCATCAATCTTTTTATTTAAGAGTTCTACTTGGTTAGATAGCATAATAATC
1 TAGAACCACACAAATCATCAATCTTTTTATTTAAGAGTTCTACCTGGTTAGATAGCATAATAATC
* * **
65034882 GCATCGAGGTTGAAATCACCGGCTGCTTTCATCGACTTTGTCCT
66 GCAGCGAGGTTGAAAACACCAACTGCTTTCATCGACTTTGTCCT
65034926 TA
1 TA
65034928 TAACTTGCCA
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
109 103 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (109 bp):
TAGAACCACACAAATCATCAATCTTTTTATTTAAGAGTTCTACCTGGTTAGATAGCATAATAATC
GCAGCGAGGTTGAAAACACCAACTGCTTTCATCGACTTTGTCCT
Found at i:65037407 original size:46 final size:46
Alignment explanation
Indices: 65037340--65037645 Score: 160
Period size: 46 Copynumber: 6.5 Consensus size: 46
65037330 TATGTGTGCT
65037340 AGTGTAAGACATGTCTGGGACATACATCAGCCACAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATACATCAGCCACAGTATGAGAGCC
* ** * * *
65037386 AGTGTAAGACATGTCTGGGACATGCATCAG-CATTGAAACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATACATCAGCCACAG-TATGAGAGCC
* ** * * *
65037432 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCACG-ATGTACAAGCT
1 AGTGTAAGACATGTCTGGGACATACATCAGCCACA-GTATG-A-GAGCC
* * ** * * *
65037480 AGTGTAAGACCTGTCTGGGACATGGCATCAG-CTTA-T-TGTGTGTC
1 AGTGTAAGACATGTCTGGGACAT-ACATCAGCCACAGTATGAGAGCC
* * *
65037524 AGTGTAAGACCTGTCTGAGACATGACATTAACA-CCAATAG-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-ACA-T--CAGCC-ACAGTATGAGAGCC
* * ** * *
65037573 AGTGTAAGACCTGTCTAGGACATAGCATTGGCCTC-GCTATATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATA-CATCAGCCACAG---TATGAGAGCC
*
65037622 AATGTAAGACCATGTCTGGGACAT
1 AGTGTAAGA-CATGTCTGGGACAT
65037646 GGCATCAACA
Statistics
Matches: 201, Mismatches: 38, Indels: 38
0.73 0.14 0.14
Matches are distributed among these distances:
44 26 0.13
45 5 0.02
46 68 0.34
47 7 0.03
48 34 0.17
49 49 0.24
50 12 0.06
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATACATCAGCCACAGTATGAGAGCC
Found at i:65037528 original size:92 final size:91
Alignment explanation
Indices: 65037331--65037600 Score: 244
Period size: 92 Copynumber: 2.9 Consensus size: 91
65037321 AATGAGTGAT
* * *
65037331 ATGTGTGCTAGTGTAAGACATGTCTGGGACATACATCAGCCACAGTATGAGAGCCAGTGTAAGAC
1 ATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCACAGTATGAAAGCCAGTGTAAGAC
65037396 ATGTCTGGGACATGCATCAGCATTGAA
66 ATGTCTGGGACATGCATCAGCATT-AA
* * * * * *
65037423 ACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCACG-ATGTACAAGCTAGTGTAA
1 ATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCACA-GTATG-A-AAGCCAGTGTAA
*
65037487 GACCTGTCTGGGACATGGCATCAGC-TT-A
63 GACATGTCTGGGACAT-GCATCAGCATTAA
* * * * * *
65037515 TTGTGTG-TCAGTGTAAGACCTGTCTGAGACATGACATTA-ACACCAATAGATGAGAGCCAGTGT
1 ATGTGTGCT-AGTGTAAGACATGTCTGGGACATG-CATTAGCCA-CAGT--ATGAAAGCCAGTGT
* *
65037578 AAGACCTGTCTAGGACATAGCAT
61 AAGACATGTCTGGGACAT-GCAT
65037601 TGGCCTCGCT
Statistics
Matches: 144, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
91 1 0.01
92 67 0.47
93 37 0.26
94 28 0.19
95 11 0.08
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (91 bp):
ATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCACAGTATGAAAGCCAGTGTAAGAC
ATGTCTGGGACATGCATCAGCATTAA
Found at i:65037906 original size:46 final size:46
Alignment explanation
Indices: 65037839--65037931 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
65037829 GACGATGAGT
65037839 AAGTTGTACCTTCGTCTACTTATGGTATTCATGAATAAGTTATGAA
1 AAGTTGTACCTTCGTCTACTTATGGTATTCATGAATAAGTTATGAA
65037885 AAGTTGTACCTTCGTCTACTTATGGTATTCATGAATAAGTTATGAA
1 AAGTTGTACCTTCGTCTACTTATGGTATTCATGAATAAGTTATGAA
65037931 A
1 A
65037932 GGTTATGAGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (46 bp):
AAGTTGTACCTTCGTCTACTTATGGTATTCATGAATAAGTTATGAA
Found at i:65038188 original size:33 final size:33
Alignment explanation
Indices: 65038151--65038217 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
65038141 GATCTTGCTT
65038151 TTGAGTTTTGTGTCATTTTAAATTGGCCAAATG
1 TTGAGTTTTGTGTCATTTTAAATTGGCCAAATG
*
65038184 TTGAGTTTTGTGTCATTTTCAATTGGCCAAATG
1 TTGAGTTTTGTGTCATTTTAAATTGGCCAAATG
65038217 T
1 T
65038218 ATTAGCTCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.22, C:0.10, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGAGTTTTGTGTCATTTTAAATTGGCCAAATG
Found at i:65039644 original size:27 final size:27
Alignment explanation
Indices: 65039614--65039930 Score: 373
Period size: 27 Copynumber: 11.7 Consensus size: 27
65039604 TTAGTTTACC
65039614 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
65039641 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
65039668 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
65039695 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
65039722 AAATTACCAAAAAACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** ** *
65039749 AAATTACTAAAATACCTTTTATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
65039776 AAATTACCATTATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
65039803 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
65039830 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
65039857 AAATTACCAAAATACCTCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** * *
65039884 AAATTACTGAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
65039911 AAATTACTGAAATACCCCTG
1 AAATTACCAAAATACCCCTG
65039931 TAGGGTAGAA
Statistics
Matches: 245, Mismatches: 45, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 245 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:65039942 original size:27 final size:27
Alignment explanation
Indices: 65039884--65039998 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 27
65039874 CTGATTTGTG
** *
65039884 AAATTACTGAAATACCCCTG-ATTTGTG
1 AAATTACTGAAATACCCCTGTA-GGGTA
65039911 AAATTACTGAAATACCCCTGTAGGGTA
1 AAATTACTGAAATACCCCTGTAGGGTA
* * *
65039938 GAATTATTGAAATACCCTTGTAGGGTA
1 AAATTACTGAAATACCCCTGTAGGGTA
* * * *
65039965 AAATTACCGAGATACCCTTGTGGGGTA
1 AAATTACTGAAATACCCCTGTAGGGTA
65039992 AAATTAC
1 AAATTAC
65039999 CATTTTACCC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
27 75 0.99
28 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCCTGTAGGGTA
Found at i:65040519 original size:6 final size:6
Alignment explanation
Indices: 65040510--65040696 Score: 98
Period size: 6 Copynumber: 30.3 Consensus size: 6
65040500 TTGCATTCAC
* * *
65040510 ATTCTG ATTCTA ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * *
65040560 ATTCTG ATTCTG GTTCTG ATTCTG -TTACCTG ATACTG ATTTTG ATTATG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * * * * *
65040609 -TTACCTA ATTCTG ATTTTG ATTTTG ATTTTG ATTTTG -TCACCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
65040659 ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
65040697 AATATTTCTT
Statistics
Matches: 141, Mismatches: 23, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
5 10 0.07
6 112 0.79
7 12 0.09
8 7 0.05
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:65040541 original size:25 final size:25
Alignment explanation
Indices: 65040513--65040630 Score: 110
Period size: 25 Copynumber: 4.5 Consensus size: 25
65040503 CATTCACATT
*
65040513 CTGATTCTAATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTGATA
*
65040538 CTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTGTTA-C-----CTGATA
*
65040569 CTGGTTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTGATA
* * * *
65040594 CTGATTTTGATTATGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTGATA
*
65040619 CTGATTTTGATT
1 CTGATTCTGATT
65040631 TTGATTTTGA
Statistics
Matches: 78, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
25 54 0.69
26 1 0.01
30 1 0.01
31 22 0.28
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTGATA
Found at i:65040545 original size:31 final size:30
Alignment explanation
Indices: 65040510--65040605 Score: 103
Period size: 31 Copynumber: 3.3 Consensus size: 30
65040500 TTGCATTCAC
65040510 ATTCTGATTCTAATTCTGTTACCTGATACTG
1 ATTCTGATTCT-ATTCTGTTACCTGATACTG
* *
65040541 ATTCTG-----ATTCTGTTACCTAATTCTG
1 ATTCTGATTCTATTCTGTTACCTGATACTG
*
65040566 ATTCTGGTTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCT-ATTCTGTTACCTGATACTG
*
65040597 ATTTTGATT
1 ATTCTGATT
65040606 ATGTTACCTA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
25 23 0.43
31 30 0.57
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTATTCTGTTACCTGATACTG
Found at i:65040623 original size:31 final size:31
Alignment explanation
Indices: 65040532--65040623 Score: 106
Period size: 31 Copynumber: 3.2 Consensus size: 31
65040522 ATTCTGTTAC
65040532 CTGATACTGATTCTGATTCTGTTACCTAATT
1 CTGATACTGATTCTGATTCTGTTACCTAATT
* *
65040563 CTGATTCTGGTTCTGATTCTGTTA-C-----
1 CTGATACTGATTCTGATTCTGTTACCTAATT
* *
65040588 CTGATACTGATTTTGATTATGTTACCTAATT
1 CTGATACTGATTCTGATTCTGTTACCTAATT
65040619 CTGAT
1 CTGAT
65040624 TTTGATTTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
25 20 0.41
26 1 0.02
30 1 0.02
31 27 0.55
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.47
Consensus pattern (31 bp):
CTGATACTGATTCTGATTCTGTTACCTAATT
Found at i:65040636 original size:56 final size:56
Alignment explanation
Indices: 65040510--65040636 Score: 200
Period size: 56 Copynumber: 2.3 Consensus size: 56
65040500 TTGCATTCAC
* *
65040510 ATTCTGATTCTAATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTATGTTACCTAATTCTG
* *
65040566 ATTCTGGTTCTGATTCTGTTACCTGATACTGATTTTGATTATGTTACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTATGTTACCTAATTCTG
* *
65040622 ATTTTGATTTTGATT
1 ATTCTGATTCTGATT
65040637 TTGATTTTGT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (56 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTATGTTACCTAATTCTG
Found at i:65040681 original size:37 final size:37
Alignment explanation
Indices: 65040575--65040682 Score: 119
Period size: 37 Copynumber: 2.9 Consensus size: 37
65040565 GATTCTGGTT
* * *
65040575 CTGATTCTG-TTACCTGATACTGATTTTGATTATGTTAC
1 CTGATTCTGATT--CTGATTCTGATTTTGATTTTGTCAC
* * *
65040613 CTAATTCTGATTTTGATTTTGATTTTGATTTTGTCAC
1 CTGATTCTGATTCTGATTCTGATTTTGATTTTGTCAC
* *
65040650 CTGATTCTGATTCTGATTCTGATTCTCATTTTG
1 CTGATTCTGATTCTGATTCTGATTTTGATTTTG
65040683 ATTCTAGTTC
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
37 48 0.83
38 8 0.14
39 2 0.03
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.52
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGATTTTGATTTTGTCAC
Found at i:65043349 original size:37 final size:37
Alignment explanation
Indices: 65043299--65043376 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
65043289 TCTAAATGTT
65043299 CAAAAACTTTGCCCTGATTCCATGTAATTTCATATTG
1 CAAAAACTTTGCCCTGATTCCATGTAATTTCATATTG
65043336 CAAAAACTTTGCCCTGATTCCATGTAATTTCATATTG
1 CAAAAACTTTGCCCTGATTCCATGTAATTTCATATTG
65043373 CAAA
1 CAAA
65043377 CTCAACAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (37 bp):
CAAAAACTTTGCCCTGATTCCATGTAATTTCATATTG
Found at i:65046191 original size:183 final size:183
Alignment explanation
Indices: 65045826--65046366 Score: 911
Period size: 183 Copynumber: 3.0 Consensus size: 183
65045816 ATGCTTACAT
*
65045826 AGCCTAGCACACGGGCATGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGGGCTGAGACA
1 AGCCTAGCACACGGGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGGGCTGAGACA
* *
65045891 TGGCCGTGTGTCCCTATTTTCGAATACCCACATGACCGTGTGACCTCTGCAGCTTTGAAAATTTT
66 TGGCTGTGTGTCCCTA-TTTCGAATACCCACATGACCGTGTGACCTCTGCAGCTTTGAAATTTTT
* * * * *
65045956 CTACTTTTTCAGAAAAATTCTTTGAGTTTCCAATTAAGTCCTGACTGCTCACAC
130 CTACTTTTTCAGAAAAATTCTTTGAGTTTTCGATTTAGTCCCGACAGCTCACAC
* *
65046010 AGCCTAGCATACGGGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGAGCTGAGACA
1 AGCCTAGCACACGGGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGGGCTGAGACA
*
65046075 TGGCTGTGTGTCCCTATTTCGAATACCCACATGACCGTGTGACCTCTGCAGCTTTGAAATTTTTA
66 TGGCTGTGTGTCCCTATTTCGAATACCCACATGACCGTGTGACCTCTGCAGCTTTGAAATTTTTC
65046140 TACTTTTTCAGAAAAATTCTTTGAGTTTTCGATTTAGTCCCGACAGCTCACAC
131 TACTTTTTCAGAAAAATTCTTTGAGTTTTCGATTTAGTCCCGACAGCTCACAC
** *
65046193 AGCCTAGCACATAGGCGTGTAACCCAAATCAGAGAGTTACACGGGTTCGGACACGGGCTGAGACA
1 AGCCTAGCACACGGGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGGGCTGAGACA
* *
65046258 TGGCTGTGTGTCCCTATTTCGAATACCCACACGACCGTGTGACCCCTGCAGCTTTGAAATTTTTC
66 TGGCTGTGTGTCCCTATTTCGAATACCCACATGACCGTGTGACCTCTGCAGCTTTGAAATTTTTC
* *
65046323 TACTTTTTCAGAAAATTTTTTTGAGTTTTCGATTTAGTCCCGAC
131 TACTTTTTCAGAAAAATTCTTTGAGTTTTCGATTTAGTCCCGAC
65046367 TTGTTTCTAA
Statistics
Matches: 336, Mismatches: 21, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
183 259 0.77
184 77 0.23
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (183 bp):
AGCCTAGCACACGGGCGTGTAACCCAAATCAGAGAGTTACACGGGTACGGACACGGGCTGAGACA
TGGCTGTGTGTCCCTATTTCGAATACCCACATGACCGTGTGACCTCTGCAGCTTTGAAATTTTTC
TACTTTTTCAGAAAAATTCTTTGAGTTTTCGATTTAGTCCCGACAGCTCACAC
Found at i:65048512 original size:3 final size:3
Alignment explanation
Indices: 65048506--65048531 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
65048496 CTCCTTAAAC
65048506 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
65048532 ACACCAACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:65056820 original size:29 final size:29
Alignment explanation
Indices: 65056762--65056832 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
65056752 TATTATAAGG
* **
65056762 AATAGATCAAATTAGTCCCTTCACTGTTA
1 AATAGATCAAATTAATCCCTTCACCATTA
*
65056791 AATAGATCAATTTAATCCCTGT-ACCATTA
1 AATAGATCAAATTAATCCCT-TCACCATTA
*
65056820 AAAAGAATCAAAT
1 AATAG-ATCAAAT
65056833 GATACCAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 27 0.79
30 7 0.21
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.31
Consensus pattern (29 bp):
AATAGATCAAATTAATCCCTTCACCATTA
Found at i:65058887 original size:12 final size:12
Alignment explanation
Indices: 65058872--65058904 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
65058862 AGAGCCAGAT
65058872 TCATCTTCATCC
1 TCATCTTCATCC
*
65058884 TCATCTTCGTCC
1 TCATCTTCATCC
65058896 TCATCTTCA
1 TCATCTTCA
65058905 AACTTCTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.15, C:0.39, G:0.03, T:0.42
Consensus pattern (12 bp):
TCATCTTCATCC
Found at i:65060766 original size:95 final size:95
Alignment explanation
Indices: 65060663--65060849 Score: 365
Period size: 95 Copynumber: 2.0 Consensus size: 95
65060653 TCGATTAACC
65060663 AATCGATTAATTGAATTAATCGATTATTTGATTTTAATCAAAATTTGAACACTCCTATTTAAGGC
1 AATCGATTAATTGAATTAATCGATTATTTGATTTTAATCAAAATTTGAACACTCCTATTTAAGGC
65060728 GTGAATTCTCAACCGTCAACTAGGTTTATT
66 GTGAATTCTCAACCGTCAACTAGGTTTATT
*
65060758 AATCGATTATTTGAATTAATCGATTATTTGATTTTAATCAAAATTTGAACACTCCTATTTAAGGC
1 AATCGATTAATTGAATTAATCGATTATTTGATTTTAATCAAAATTTGAACACTCCTATTTAAGGC
65060823 GTGAATTCTCAACCGTCAACTAGGTTT
66 GTGAATTCTCAACCGTCAACTAGGTTT
65060850 TTTTTATGTT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (95 bp):
AATCGATTAATTGAATTAATCGATTATTTGATTTTAATCAAAATTTGAACACTCCTATTTAAGGC
GTGAATTCTCAACCGTCAACTAGGTTTATT
Found at i:65060777 original size:17 final size:17
Alignment explanation
Indices: 65060755--65060788 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
65060745 AACTAGGTTT
65060755 ATTAATCGATTATTTGA
1 ATTAATCGATTATTTGA
65060772 ATTAATCGATTATTTGA
1 ATTAATCGATTATTTGA
65060789 TTTTAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (17 bp):
ATTAATCGATTATTTGA
Found at i:65061882 original size:45 final size:46
Alignment explanation
Indices: 65061831--65061920 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
65061821 TCTCCCATCC
* * *
65061831 ATGGTCTTATTTATCTT-TGACATGATGCCATAGTGTCTTTCAACT
1 ATGGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTCAACT
* * * *
65061876 ATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 ATGGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTCAAC
65061921 CATGTCATGT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
45 14 0.38
46 23 0.62
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (46 bp):
ATGGTCTTACTCATCTTCTGACATGATGCCATAGTATCTTTCAACT
Found at i:65061927 original size:29 final size:29
Alignment explanation
Indices: 65061894--65061953 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
65061884 ACTCATTTTC
65061894 TGTCATGTTGCCATGGTATCTTTCAACCA
1 TGTCATGTTGCCATGGTATCTTTCAACCA
65061923 TGTCATGTTGCCATGGTATCTTTCAACCA
1 TGTCATGTTGCCATGGTATCTTTCAACCA
65061952 TG
1 TG
65061954 GTCTTATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (29 bp):
TGTCATGTTGCCATGGTATCTTTCAACCA
Found at i:65061955 original size:75 final size:75
Alignment explanation
Indices: 65061851--65061999 Score: 226
Period size: 75 Copynumber: 2.0 Consensus size: 75
65061841 TTATCTTTGA
* * * * *
65061851 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTATGTCACGCTGCCATGGTATCTT
65061916 TCAACCATGT
66 TCAACCATGT
* * *
65061926 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTATGTCACGCTGCCATGGTATCTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTATGTCACGCTGCCATGGTATCTT
65061991 TCAACCATG
66 TCAACCATG
65062000 GTCTTATTCA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.40
Consensus pattern (75 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACTCATTTTATGTCACGCTGCCATGGTATCTT
TCAACCATGT
Found at i:65061981 original size:46 final size:46
Alignment explanation
Indices: 65061922--65062051 Score: 224
Period size: 46 Copynumber: 2.8 Consensus size: 46
65061912 TCTTTCAACC
65061922 ATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTT
1 ATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTT
* *
65061968 ATGTCACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTT
1 ATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTT
**
65062014 CCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 ATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
65062052 CACATTTCAT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (46 bp):
ATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTT
Found at i:65068117 original size:27 final size:27
Alignment explanation
Indices: 65068076--65068132 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
65068066 AACCCTAATT
* *
65068076 TTTCTGTTTATTTTCTTTCTCTT-TTTC
1 TTTCTGTTTAGTTTCTTGCT-TTGTTTC
*
65068103 TTTCTGTTTCGTTTCTTGCTTTGTTTC
1 TTTCTGTTTAGTTTCTTGCTTTGTTTC
65068130 TTT
1 TTT
65068133 ATTTCTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.02, C:0.18, G:0.09, T:0.72
Consensus pattern (27 bp):
TTTCTGTTTAGTTTCTTGCTTTGTTTC
Found at i:65068187 original size:8 final size:8
Alignment explanation
Indices: 65068169--65068207 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
65068159 CTTTATATTT
65068169 TAATCATAA
1 TAAT-ATAA
65068178 TAATATAA
1 TAATATAA
*
65068186 TAATGTAA
1 TAATATAA
*
65068194 TGATATAA
1 TAATATAA
65068202 TAATAT
1 TAATAT
65068208 TTACTTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
8 22 0.85
9 4 0.15
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (8 bp):
TAATATAA
Found at i:65069009 original size:17 final size:17
Alignment explanation
Indices: 65068987--65069026 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
65068977 TCATGCAACT
*
65068987 GTGTGGGACATACAGCC
1 GTGTGGGACACACAGCC
65069004 GTGTGGGACACACAGCC
1 GTGTGGGACACACAGCC
*
65069021 ATGTGG
1 GTGTGG
65069027 CAGATCGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.38, T:0.17
Consensus pattern (17 bp):
GTGTGGGACACACAGCC
Found at i:65069623 original size:40 final size:40
Alignment explanation
Indices: 65069577--65069667 Score: 137
Period size: 40 Copynumber: 2.3 Consensus size: 40
65069567 GTGACAACCT
* *
65069577 TTTTCAACCTTTTCATTGGATATCCATTTCGGATATATCC
1 TTTTCAACCTTTTCATTGGATATCCATTTCAGATATACCC
* * *
65069617 TTTTCAACCATTTCATTTGATATCTATTTCAGATATACCC
1 TTTTCAACCTTTTCATTGGATATCCATTTCAGATATACCC
65069657 TTTTCAACCTT
1 TTTTCAACCTT
65069668 GTAACACCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.24, C:0.23, G:0.07, T:0.46
Consensus pattern (40 bp):
TTTTCAACCTTTTCATTGGATATCCATTTCAGATATACCC
Found at i:65071907 original size:11 final size:11
Alignment explanation
Indices: 65071891--65071916 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
65071881 CCATGGTGTC
65071891 TTTTAATATTA
1 TTTTAATATTA
65071902 TTTTAATATTA
1 TTTTAATATTA
65071913 TTTT
1 TTTT
65071917 TCATACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTAATATTA
Found at i:65074953 original size:6 final size:6
Alignment explanation
Indices: 65074942--65075128 Score: 181
Period size: 6 Copynumber: 30.8 Consensus size: 6
65074932 AACCAAAATG
*
65074942 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
65074990 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
65075039 AGAATC AGTAA-C AGAATC AGAATC AAAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
*
65075087 AGAATC AGAATC AGAATT ACGTAA-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
65075129 GTGAATGCAA
Statistics
Matches: 151, Mismatches: 14, Indels: 32
0.77 0.07 0.16
Matches are distributed among these distances:
5 12 0.08
6 125 0.83
7 10 0.07
8 4 0.03
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:65074957 original size:30 final size:30
Alignment explanation
Indices: 65074921--65075128 Score: 234
Period size: 30 Copynumber: 7.1 Consensus size: 30
65074911 AAGAAACATT
* *
65074921 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* *
65074951 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
65074981 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
*
65075011 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
*
65075042 ATCAG---T---AACAGAATCAGAATCAAA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* *
65075066 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
65075096 ATCAGAATTACGTAACAGAATCAGAATCAGA
1 ATCAGAATTA-GGAACAGAATCAGAATCAGA
65075127 AT
1 AT
65075129 GTGAATGCAA
Statistics
Matches: 156, Mismatches: 11, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
24 21 0.13
27 1 0.01
28 1 0.01
29 1 0.01
30 84 0.54
31 48 0.31
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:65075042 original size:85 final size:85
Alignment explanation
Indices: 65074942--65075128 Score: 338
Period size: 85 Copynumber: 2.2 Consensus size: 85
65074932 AACCAAAATG
*
65074942 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATATTAGTAACAGAATCAGAAT
* *
65075007 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTACGTAAC
*
65075027 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATATTAGTAACAGAATCAGAAT
65075092 CAGAATCAGAATTACGTAAC
66 CAGAATCAGAATTACGTAAC
65075112 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
65075129 GTGAATGCAA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 98 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTACGTAAC
Found at i:65075283 original size:27 final size:26
Alignment explanation
Indices: 65075246--65075332 Score: 102
Period size: 27 Copynumber: 3.3 Consensus size: 26
65075236 AGCATGGCTG
*
65075246 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
65075272 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
* * *
65075299 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TCGTGACAGAGCCA
65075326 CCAGAAC
1 CCAGAAC
65075333 GCTTCCTCTG
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 12 0.22
27 43 0.78
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:65075562 original size:27 final size:27
Alignment explanation
Indices: 65075532--65075726 Score: 228
Period size: 27 Copynumber: 7.2 Consensus size: 27
65075522 GGGCAAAATA
* * *
65075532 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
*
65075559 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
65075586 GTATTTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
65075613 ATAATTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCG
* * *
65075640 GTAATTCTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
65075667 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
** * * *
65075694 AAAACTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
65075721 GTAATT
1 GTAATT
65075727 TCACAATCAA
Statistics
Matches: 143, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCG
Found at i:65075761 original size:27 final size:27
Alignment explanation
Indices: 65075731--65076346 Score: 497
Period size: 27 Copynumber: 22.8 Consensus size: 27
65075721 GTAATTTCAC
* * *
65075731 AATCAAGGGTAAAAAGATAATTCTGTA
1 AATCGAGGGTAAAAAGGTAATTCTATA
* * * *
65075758 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAAAGGTAATTCTATA
*
65075785 AA-CTGAGGGTAAACCA-GTAATTCTATA
1 AATC-GAGGGTAAA-AAGGTAATTCTATA
* * *
65075812 AATCAAGGGTAAAACA-GTAATTTTACA
1 AATCGAGGGTAAAA-AGGTAATTCTATA
* * * * *
65075839 AATCGATGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAAAGGTAATTCTATA
* *
65075866 AA-CTGAGGGTAAACCA-GTAATTCTGTA
1 AATC-GAGGGTAAA-AAGGTAATTCTATA
** * * *
65075893 AATTAAGGGTAAAACA-TTAATTTTACA
1 AATCGAGGGTAAAA-AGGTAATTCTATA
* *
65075920 AATTGAGGGTAAAACA-GTAATTCTGTA
1 AATCGAGGGTAAAA-AGGTAATTCTATA
*
65075947 AATCGAGGGTAAAACA-GTAATTCTGTA
1 AATCGAGGGTAAAA-AGGTAATTCTATA
* *
65075974 AA-CTGATGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAAAGGTAATTCTATA
* *
65076001 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAAAGGTAATTCTATA
* * *
65076028 AA-CTGAGGATAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAAAGGTAATTCTATA
* * *
65076055 AA-CTAAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAAAGGTAATTCTATA
* * * *
65076082 AATCGAAGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAAAGGTAATTCTATA
*
65076109 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAAAGGTAATTCTATA
*
65076136 AATCAAGGGTAAAACA-GTAATTCTATA
1 AATCGAGGGTAAAA-AGGTAATTCTATA
* *
65076163 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAAAGGTAATTCTATA
* *
65076190 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAAAGGTAATTCTATA
* * *
65076217 AATTGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAAAGGTAATTCTATA
* *
65076244 AATCGAGGGTAAAATGGAAATTCTATA
1 AATCGAGGGTAAAAAGGTAATTCTATA
* * *
65076271 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAAAGGTAATTCTATA
*
65076298 AATCGAGGGTAAAACA-ATAATTCTATA
1 AATCGAGGGTAAAA-AGGTAATTCTATA
65076325 AATCGAGGGTAAAACA-GTAATT
1 AATCGAGGGTAAAA-AGGTAATT
65076347 GGTAAACTAA
Statistics
Matches: 493, Mismatches: 77, Indels: 38
0.81 0.13 0.06
Matches are distributed among these distances:
26 5 0.01
27 484 0.98
28 4 0.01
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAAAGGTAATTCTATA
Found at i:65075806 original size:54 final size:54
Alignment explanation
Indices: 65075731--65076346 Score: 588
Period size: 54 Copynumber: 11.4 Consensus size: 54
65075721 GTAATTTCAC
* * * * *
65075731 AATCAAGGGTAAAAAGATAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
* * * * * *
65075785 AA-CTGAGGGTAAACCAGTAATTCTATAAATCAAGGGTAAAAC-AGTAATTTTACA
1 AATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTATA
* * * * *
65075839 AATCGATGGTAAAACGATAATTTTGTAAA-CTGAGGGT-AAACCAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACGA-TAATTCTATA
** ** * ** * *
65075893 AATTAAGGGTAAAACATTAATTTTACAAATTGAGGGTAAAAC-AGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTATA
* * *
65075947 AATCGAGGGTAAAACAGTAATTCTGTAAA-CTGATGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACGATAATTCTATA
* * * * *
65076001 AATCGAGGGTAAAATGGTAATTCTGTAAA-CTGAGGATAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACGATAATTCTATA
* * * * * *
65076055 AA-CTAAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAATGGTAATTTTACA
1 AATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
* *
65076109 AATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAAC-AGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTATA
* *
65076163 AA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
* * * *
65076217 AATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGA-AATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA-CGATAATTCTATA
* ** *
65076271 AATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
*
65076325 AATCGAGGGTAAAACAGTAATT
1 AATCGAGGGTAAAACGGTAATT
65076347 GGTAAACTAA
Statistics
Matches: 471, Mismatches: 73, Indels: 36
0.81 0.13 0.06
Matches are distributed among these distances:
53 10 0.02
54 453 0.96
55 8 0.02
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
Found at i:65075842 original size:81 final size:81
Alignment explanation
Indices: 65075731--65076339 Score: 669
Period size: 81 Copynumber: 7.5 Consensus size: 81
65075721 GTAATTTCAC
* *
65075731 AATCAAGGGTAAAA-AGATAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGG
1 AATCAAGGGTAAAACAG-TAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATC-GAGGG
* * *
65075794 TAAACCAGTAATTCTATA
64 TAAAACGGTAATTCTGTA
* * * *
65075812 AATCAAGGGTAAAACAGTAATTTTACAAATCGATGGTAAAACGATAATTTTGTAAA-CTGAGGGT
1 AATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATC-GAGGGT
* *
65075876 AAACCAGTAATTCTGTA
65 AAAACGGTAATTCTGTA
* * * * *
65075893 AATTAAGGGTAAAACATTAATTTTACAAATTGAGGGTAAAAC-AGTAATTCTGTAAATCGAGGGT
1 AATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGAGGGT
*
65075957 AAAACAGTAATTCTGTA
65 AAAACGGTAATTCTGTA
* * * * * *
65075974 AA-CTGATGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAA-CTGAGGA
1 AATC-AAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATC-GAGGG
*
65076037 TAAAATGGTAATTCTGTA
64 TAAAACGGTAATTCTGTA
* * * * * * **
65076055 AA-CTAAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAATGGTAATTTTACAAATCGAGGGT
1 AATC-AAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGT
*
65076119 AAAACGGTAATTCTATA
65 AAAACGGTAATTCTGTA
*
65076136 AATCAAGGGTAAAACAGTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGT
1 AATCAAGGGTAAAACAGTAATTCTATAAATC-GAGGGTAAAACGATAATTCTGTAAATCGAGGGT
65076200 AAAACGGTAATTCTGTA
65 AAAACGGTAATTCTGTA
** * * * *
65076217 AATTGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGA-AATTCTATAAATCGAGGGT
1 AATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA-CGATAATTCTGTAAATCGAGGGT
* **
65076281 AAAACGGTAATTTTACA
65 AAAACGGTAATTCTGTA
* *
65076298 AATCGAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAAC
1 AATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAC
65076340 AGTAATTGGT
Statistics
Matches: 460, Mismatches: 57, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
80 3 0.01
81 450 0.98
82 7 0.02
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.28
Consensus pattern (81 bp):
AATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
AAACGGTAATTCTGTA
Found at i:65077532 original size:6 final size:6
Alignment explanation
Indices: 65077521--65077719 Score: 187
Period size: 6 Copynumber: 32.8 Consensus size: 6
65077511 AACCAAAATG
*
65077521 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
65077569 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
65077618 AGAATC A-ATAAC AGAATC AGAATC AGAATC TGTATT AGTAA-C AGAATC
1 AGAATC AGA-ATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
65077666 AGAATC AGAATC AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
65077715 AGAAT
1 AGAAT
65077720 GTGAATGCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 32
0.76 0.09 0.15
Matches are distributed among these distances:
5 10 0.06
6 137 0.86
7 9 0.06
8 3 0.02
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:65077536 original size:30 final size:30
Alignment explanation
Indices: 65077500--65077682 Score: 202
Period size: 30 Copynumber: 6.3 Consensus size: 30
65077490 AAGAAACATT
* *
65077500 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* *
65077530 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
65077560 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
*
65077590 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
65077621 ATC--AA-T---AACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* * *
65077645 ATCTGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
65077675 ATCAGAAT
1 ATCAGAAT
65077683 CAGAATCAGA
Statistics
Matches: 132, Mismatches: 11, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
24 20 0.15
26 1 0.01
27 1 0.01
28 1 0.01
29 3 0.02
30 82 0.62
31 24 0.18
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:65077631 original size:85 final size:85
Alignment explanation
Indices: 65077521--65077682 Score: 297
Period size: 85 Copynumber: 1.9 Consensus size: 85
65077511 AACCAAAATG
*
65077521 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
65077586 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
**
65077606 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCTGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
65077671 CAGAATCAGAAT
66 CAGAATCAGAAT
65077683 CAGAATCAGA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 74 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAATAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGAC
Found at i:65077873 original size:25 final size:26
Alignment explanation
Indices: 65077837--65077921 Score: 84
Period size: 27 Copynumber: 3.3 Consensus size: 26
65077827 AGCATGGCTG
* * *
65077837 CCAGAATAGATATCGT-G-ATAGTCA
1 CCAGAACAGATATCGTGGCAGAGCCA
*
65077861 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGGCAGAGCCA
* *
65077888 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TCGTGGCAGAGCCA
65077915 CCAGAAC
1 CCAGAAC
65077922 GCTTCCTCCG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.10
25 9 0.17
26 8 0.15
27 30 0.58
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATCGTGGCAGAGCCA
Found at i:65077899 original size:26 final size:27
Alignment explanation
Indices: 65077859--65077921 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 27
65077849 TCGTGATAGT
65077859 CACCAGATACAGATA-TTGTGGCAGAGC
1 CACCAGA-ACAGATATTTGTGGCAGAGC
*
65077886 CACCAGAACAGATATTTGTGGCATAGC
1 CACCAGAACAGATATTTGTGGCAGAGC
65077913 CACCAGAAC
1 CACCAGAAC
65077922 GCTTCCTCCG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 7 0.21
27 27 0.79
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.17
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGAGC
Found at i:65078150 original size:27 final size:27
Alignment explanation
Indices: 65078120--65078315 Score: 221
Period size: 27 Copynumber: 7.3 Consensus size: 27
65078110 GGGACAAAAT
* * *
65078120 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
65078147 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
65078174 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
65078201 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
65078228 GGTAATTCTATCCTATAAGGATATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
65078255 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
65078282 AGAAACTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
65078309 AGTAATT
1 GGTAATT
65078316 TCACAATCAA
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:65078350 original size:27 final size:27
Alignment explanation
Indices: 65078320--65078989 Score: 744
Period size: 27 Copynumber: 24.8 Consensus size: 27
65078310 GTAATTTCAC
* *
65078320 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
65078347 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
65078374 AA-CTGAGGGTAAACCAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * * *
65078401 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
65078428 AATCAAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
65078455 AA-CTGAGGGTAAAGCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * * *
65078482 AATCAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
65078509 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
** *
65078536 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
65078563 AA-CTGAGGGTAAAACAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
*
65078590 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
65078617 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
*
65078644 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * * *
65078671 AATCGAAGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
65078698 AATTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
**
65078725 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
65078752 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
*
65078779 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
65078806 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
65078833 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
65078860 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
65078887 AATCGTGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
65078914 AATTGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
65078941 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
65078968 AATCGAGGGTAAAACAGTAATT
1 AATCGAGGGTAAAACGGTAATT
65078990 GGTAAACTAA
Statistics
Matches: 552, Mismatches: 77, Indels: 28
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.01
27 538 0.97
28 7 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:65081072 original size:40 final size:40
Alignment explanation
Indices: 65081014--65081108 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
65081004 ACTGCATTTG
*
65081014 GCACTAAGTGTGCGATTCAAAATAGCTTCGGCTATAAACA
1 GCACTAAGTGTGCAATTCAAAATAGCTTCGGCTATAAACA
* *
65081054 GCACTAAGTTTGCAATTCAAAATAGCTTCGGCTATAAATA
1 GCACTAAGTGTGCAATTCAAAATAGCTTCGGCTATAAACA
65081094 GCACTAAGTGTGCAA
1 GCACTAAGTGTGCAA
65081109 AATGGTATAG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (40 bp):
GCACTAAGTGTGCAATTCAAAATAGCTTCGGCTATAAACA
Found at i:65088376 original size:40 final size:39
Alignment explanation
Indices: 65088321--65088456 Score: 102
Period size: 40 Copynumber: 3.5 Consensus size: 39
65088311 GCGCTCAGAG
* *
65088321 CTAGTGGGATTAACCGACAGTATTGAATGTGAGCCCAGCT
1 CTAGTTGGATGAACCGACAGTA-TGAATGTGAGCCCAGCT
* ** *
65088361 CTAGTTGGATGAACCGACA--ATG--TTTGCTCCCAGCG
1 CTAGTTGGATGAACCGACAGTATGAATGTGAGCCCAGCT
* * *
65088396 CTAGTCGGAT-ATACCGACAATAATAAATGTGAGCCCAGCT
1 CTAGTTGGATGA-ACCGACAGT-ATGAATGTGAGCCCAGCT
* * *
65088436 TTAGTTGAATGAACCAACAGT
1 CTAGTTGGATGAACCGACAGT
65088457 GTTTGCACCC
Statistics
Matches: 72, Mismatches: 17, Indels: 14
0.70 0.17 0.14
Matches are distributed among these distances:
34 1 0.01
35 25 0.35
37 2 0.03
38 3 0.04
40 40 0.56
41 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (39 bp):
CTAGTTGGATGAACCGACAGTATGAATGTGAGCCCAGCT
Found at i:65088448 original size:75 final size:75
Alignment explanation
Indices: 65088320--65088467 Score: 199
Period size: 75 Copynumber: 2.0 Consensus size: 75
65088310 TGCGCTCAGA
* * * * * *
65088320 GCTAGTGGGATTAACCGACAGTATTGAATGTGAGCCCAGCTCTAGTTGGATGAACCGACAATGTT
1 GCTAGTCGGATTAACCGACAATAATAAATGTGAGCCCAGCTCTAGTTGAATGAACCAACAATGTT
*
65088385 TGCTCCCAGC
66 TGCACCCAGC
* *
65088395 GCTAGTCGGA-TATACCGACAATAATAAATGTGAGCCCAGCTTTAGTTGAATGAACCAACAGTGT
1 GCTAGTCGGATTA-ACCGACAATAATAAATGTGAGCCCAGCTCTAGTTGAATGAACCAACAATGT
65088459 TTGCACCCA
65 TTGCACCCA
65088468 ATGTTAATCG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 2 0.03
75 61 0.97
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (75 bp):
GCTAGTCGGATTAACCGACAATAATAAATGTGAGCCCAGCTCTAGTTGAATGAACCAACAATGTT
TGCACCCAGC
Found at i:65095885 original size:6 final size:6
Alignment explanation
Indices: 65095876--65095909 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
65095866 CAGAGCCAGA
* *
65095876 TTCATC TTCATC CTCATC TTCATC CTCATC TTCA
1 TTCATC TTCATC TTCATC TTCATC TTCATC TTCA
65095910 AACTTCTCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.18, C:0.38, G:0.00, T:0.44
Consensus pattern (6 bp):
TTCATC
Found at i:65095894 original size:12 final size:12
Alignment explanation
Indices: 65095877--65095909 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
65095867 AGAGCCAGAT
65095877 TCATCTTCATCC
1 TCATCTTCATCC
65095889 TCATCTTCATCC
1 TCATCTTCATCC
65095901 TCATCTTCA
1 TCATCTTCA
65095910 AACTTCTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.39, G:0.00, T:0.42
Consensus pattern (12 bp):
TCATCTTCATCC
Found at i:65103912 original size:106 final size:106
Alignment explanation
Indices: 65103771--65103985 Score: 412
Period size: 106 Copynumber: 2.0 Consensus size: 106
65103761 TCAGAAGCTA
*
65103771 TGCACTTGTACAGTTACCTACATGATCTACAAACCAAGCTTGAAACTATAACACAGCTATACAAT
1 TGCACTTGTACAGTTACCTACATGATCTACAAACCAAGATTGAAACTATAACACAGCTATACAAT
65103836 AAAAAAGCATTCTCAAAAATTCAAAGAGAACTTGTTACAGG
66 AAAAAAGCATTCTCAAAAATTCAAAGAGAACTTGTTACAGG
*
65103877 TGCACTTGTACAGTTACCTACATGATCTGCAAACCAAGATTGAAACTATAACACAGCTATACAAT
1 TGCACTTGTACAGTTACCTACATGATCTACAAACCAAGATTGAAACTATAACACAGCTATACAAT
65103942 AAAAAAGCATTCTCAAAAATTCAAAGAGAACTTGTTACAGG
66 AAAAAAGCATTCTCAAAAATTCAAAGAGAACTTGTTACAGG
65103983 TGC
1 TGC
65103986 CTTTGTGGGC
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 107 1.00
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (106 bp):
TGCACTTGTACAGTTACCTACATGATCTACAAACCAAGATTGAAACTATAACACAGCTATACAAT
AAAAAAGCATTCTCAAAAATTCAAAGAGAACTTGTTACAGG
Found at i:65109045 original size:24 final size:24
Alignment explanation
Indices: 65109013--65109063 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
65109003 CGAAGCATCC
65109013 TAATTTTTCCACCTTTGTCAAAGA
1 TAATTTTTCCACCTTTGTCAAAGA
* *
65109037 TAATTTTTCTACTTTTGTCAAAGA
1 TAATTTTTCCACCTTTGTCAAAGA
65109061 TAA
1 TAA
65109064 GTGGAGTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.45
Consensus pattern (24 bp):
TAATTTTTCCACCTTTGTCAAAGA
Found at i:65124193 original size:21 final size:21
Alignment explanation
Indices: 65124167--65124207 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65124157 AGACGAGCAA
* *
65124167 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
65124188 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
65124208 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:65134191 original size:21 final size:21
Alignment explanation
Indices: 65134165--65134215 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
65134155 CGCTGTTTCT
*
65134165 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
65134186 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
65134207 AATCTCACC
1 AATCTCACC
65134216 CCACCACTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.37, G:0.08, T:0.24
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:65144163 original size:14 final size:15
Alignment explanation
Indices: 65144132--65144165 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
65144122 CATAAATGTA
65144132 TTTTTTTTTCACTTCT
1 TTTTTTTTTCAC-TCT
65144148 TTTTTTTTTCAC-CT
1 TTTTTTTTTCACTCT
65144162 TTTT
1 TTTT
65144166 ATTCATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
16 12 0.67
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTTTTCACTCT
Found at i:65145297 original size:17 final size:17
Alignment explanation
Indices: 65145258--65145319 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 17
65145248 TAGAAATAGC
65145258 AAAA-TAAAAT-TA-AA
1 AAAATTAAAATATATAA
65145272 AATAATTAAAATATATAA
1 AA-AATTAAAATATATAA
65145290 AAAATT-AAA-ATATAA
1 AAAATTAAAATATATAA
65145305 AAAATTAAAACTATA
1 AAAATTAAAA-TATA
65145320 AGTATAAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
14 2 0.05
15 14 0.34
16 12 0.29
17 6 0.15
18 7 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATTAAAATATATAA
Found at i:65145311 original size:32 final size:33
Alignment explanation
Indices: 65145258--65145319 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
65145248 TAGAAATAGC
65145258 AAAATAAAATTAAAAATAATTAAAA-TATATAA
1 AAAATAAAATTAAAAATAATTAAAACTATATAA
65145290 AAAATTAAAA-TATAAAA-AATTAAAACTATA
1 AAAA-TAAAATTA-AAAATAATTAAAACTATA
65145320 AGTATAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (33 bp):
AAAATAAAATTAAAAATAATTAAAACTATATAA
Found at i:65145391 original size:5 final size:5
Alignment explanation
Indices: 65145350--65145412 Score: 67
Period size: 5 Copynumber: 12.2 Consensus size: 5
65145340 AATTAATTAG
*
65145350 TAAAA TAAAA -ATAAA TAATA TAATAA TTAATAA -AAAA TAAAA TAAAA
1 TAAAA TAAAA TA-AAA TAAAA TAA-AA -TAA-AA TAAAA TAAAA TAAAA
65145397 TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA T
65145413 TGGGGTGATT
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
4 3 0.06
5 40 0.78
6 2 0.04
7 6 0.12
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (5 bp):
TAAAA
Found at i:65148637 original size:22 final size:22
Alignment explanation
Indices: 65148612--65148656 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
65148602 AGAAAAAGTT
65148612 AGTAAATTAAAATAAAAACAAA
1 AGTAAATTAAAATAAAAACAAA
** *
65148634 AGTAAATTGCAATAAAAATAAA
1 AGTAAATTAAAATAAAAACAAA
65148656 A
1 A
65148657 ATGGCTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.69, C:0.04, G:0.07, T:0.20
Consensus pattern (22 bp):
AGTAAATTAAAATAAAAACAAA
Found at i:65170920 original size:28 final size:29
Alignment explanation
Indices: 65170870--65170955 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 29
65170860 TCACCCACCC
* * *
65170870 TATTTTTATAATTAATTAATTTTCAATAT
1 TATTTTTATAATAAAATAATTTTCAAAAT
* *
65170899 TATTTTTATAA-AAAATCATTTTTAAAAT
1 TATTTTTATAATAAAATAATTTTCAAAAT
* * * *
65170927 TATTTTAAAAAATAATATAATTTTAAAAA
1 TATTTT-TATAATAAAATAATTTTCAAAA
65170956 ATAAAAATTA
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
28 18 0.40
29 14 0.31
30 13 0.29
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (29 bp):
TATTTTTATAATAAAATAATTTTCAAAAT
Found at i:65170921 original size:29 final size:28
Alignment explanation
Indices: 65170870--65170954 Score: 73
Period size: 29 Copynumber: 3.0 Consensus size: 28
65170860 TCACCCACCC
** * *
65170870 TATTTTTATAATTAATTAATTTTCAATAT
1 TATTTTTATAAAAAATCAATTTT-AAAAT
*
65170899 TATTTTTATAAAAAATCATTTTTAAAAT
1 TATTTTTATAAAAAATCAATTTTAAAAT
* *
65170927 TA-TTTTAAAAAATAATATAATTTTAAAA
1 TATTTTTATAAAA-AAT-CAATTTTAAAA
65170955 AATAAAAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 9 0.20
28 9 0.20
29 28 0.61
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
TATTTTTATAAAAAATCAATTTTAAAAT
Found at i:65171479 original size:21 final size:20
Alignment explanation
Indices: 65171443--65171487 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
65171433 ATGGAGGTTT
*
65171443 TTTTAAAAAATATTCCTGGG
1 TTTTAAAAAATATTCCTGGC
65171463 TTTTAAAAGAA-AGTTCCTGGC
1 TTTTAAAA-AATA-TTCCTGGC
65171484 TTTT
1 TTTT
65171488 CTTGTTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (20 bp):
TTTTAAAAAATATTCCTGGC
Found at i:65173875 original size:66 final size:67
Alignment explanation
Indices: 65173800--65173934 Score: 236
Period size: 68 Copynumber: 2.0 Consensus size: 67
65173790 AGAAATCACC
*
65173800 ATACCCACAATATAGATGGAAAATTTG-ACATATATATATATTATATAAAGAAAAATATATAAAA
1 ATACCCACAATATAGATGGAAAATTTGAACACATATATATATTATATAAAGAAAAATATATAAAA
65173864 AA
66 AA
*
65173866 ATACCCACAATATAGATGGAGAATTTGACACACATATATATATTATATAAAGAAAAATATATAAA
1 ATACCCACAATATAGATGGAAAATTTGA-ACACATATATATATTATATAAAGAAAAATATATAAA
65173931 AAA
65 AAA
65173934 A
1 A
65173935 ATTTAGTTGA
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
66 26 0.40
68 39 0.60
ACGTcount: A:0.56, C:0.09, G:0.08, T:0.27
Consensus pattern (67 bp):
ATACCCACAATATAGATGGAAAATTTGAACACATATATATATTATATAAAGAAAAATATATAAAA
AA
Found at i:65178650 original size:14 final size:15
Alignment explanation
Indices: 65178615--65178657 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
65178605 GTTGTAGTTG
*
65178615 ATAAATTATTTAAAT
1 ATAATTTATTTAAAT
*
65178630 ATAATTTTTTTAAAT
1 ATAATTTATTTAAAT
*
65178645 GT-ATTTATTTAAA
1 ATAATTTATTTAAA
65178658 AATTTAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATAATTTATTTAAAT
Found at i:65180716 original size:15 final size:16
Alignment explanation
Indices: 65180696--65180733 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
65180686 TTTTTATTAT
*
65180696 TTTTTAATTTT-CATA
1 TTTTTAATTTTAAATA
*
65180711 TTTTTATTTTTAAATA
1 TTTTTAATTTTAAATA
65180727 TTTTTAA
1 TTTTTAA
65180734 AACAGAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTAATTTTAAATA
Found at i:65181319 original size:10 final size:10
Alignment explanation
Indices: 65181304--65181358 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
65181294 ATTCCTAGTT
65181304 AAAAATTATA
1 AAAAATTATA
65181314 AAAAATT-T-
1 AAAAATTATA
*
65181322 AAAAATTATT
1 AAAAATTATA
*
65181332 AAGAATTA-A
1 AAAAATTATA
65181341 AAAAA-TATTA
1 AAAAATTA-TA
65181351 AAAAATTA
1 AAAAATTA
65181359 AAATTTAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
8 9 0.24
9 6 0.16
10 20 0.54
11 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAAATTATA
Found at i:65181325 original size:18 final size:18
Alignment explanation
Indices: 65181302--65181361 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
65181292 TTATTCCTAG
65181302 TTAAAAATTATAAAAAAT
1 TTAAAAATTATAAAAAAT
* *
65181320 TTAAAAATTATTAAGAAT
1 TTAAAAATTATAAAAAAT
* *
65181338 TAAAAAAATATTAAAAAA-
1 TTAAAAATTA-TAAAAAAT
65181356 TTAAAA
1 TTAAAA
65181362 TTTAACAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 29 0.85
19 5 0.15
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
TTAAAAATTATAAAAAAT
Found at i:65181333 original size:28 final size:26
Alignment explanation
Indices: 65181302--65181373 Score: 83
Period size: 28 Copynumber: 2.7 Consensus size: 26
65181292 TTATTCCTAG
65181302 TTAAAAATTATAAAAAAT-TTAAAAATTA
1 TTAAAAATTA-AAAAAATATTAAAAA--A
*
65181330 TTAAGAATTAAAAAAATATTAAAAAA
1 TTAAAAATTAAAAAAATATTAAAAAA
*
65181356 TTAAAATTTAACAAAAAT
1 TTAAAAATTAA-AAAAAT
65181374 CAAGTTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.26
27 13 0.33
28 16 0.41
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (26 bp):
TTAAAAATTAAAAAAATATTAAAAAA
Found at i:65186141 original size:43 final size:43
Alignment explanation
Indices: 65186091--65186194 Score: 154
Period size: 43 Copynumber: 2.4 Consensus size: 43
65186081 AAAAACACTA
* ** *
65186091 CTAAAAGTCACGGCTTTTAGAGGTGTTTGTGGGAAAAGCGCCG
1 CTAAAAGTCACGTCTTTTAGAGGCATTTGTGAGAAAAGCGCCG
* *
65186134 CTAAAAGTCATGTCTTTTAGCGGCATTTGTGAGAAAAGCGCCG
1 CTAAAAGTCACGTCTTTTAGAGGCATTTGTGAGAAAAGCGCCG
65186177 CTAAAAGTCACGTCTTTT
1 CTAAAAGTCACGTCTTTT
65186195 TAGCGGCGCT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
CTAAAAGTCACGTCTTTTAGAGGCATTTGTGAGAAAAGCGCCG
Found at i:65187085 original size:13 final size:14
Alignment explanation
Indices: 65187061--65187089 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
65187051 TGATGAATTG
65187061 AATTAAACAATTAT
1 AATTAAACAATTAT
65187075 AATTAAA-AATTAT
1 AATTAAACAATTAT
65187088 AA
1 AA
65187090 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:65192096 original size:9 final size:9
Alignment explanation
Indices: 65192082--65192200 Score: 103
Period size: 9 Copynumber: 12.6 Consensus size: 9
65192072 ATGTATTAGT
65192082 TAAGTTATG
1 TAAGTTATG
65192091 TAAGTTGTTATG
1 TAA---GTTATG
*
65192103 TACGTTATG
1 TAAGTTATG
*
65192112 TGAGTTATG
1 TAAGTTATG
*
65192121 TAAATTATG
1 TAAGTTATG
65192130 TAAGTTATG
1 TAAGTTATG
*
65192139 TGAGTTATG
1 TAAGTTATG
65192148 TAAGTTGTTATG
1 TAA---GTTATG
*
65192160 TAAATTATG
1 TAAGTTATG
*
65192169 TAAGTTATA
1 TAAGTTATG
*
65192178 TGAGTTATG
1 TAAGTTATG
* *
65192187 TAATTTATT
1 TAAGTTATG
65192196 TAAGT
1 TAAGT
65192201 AATGATCAAT
Statistics
Matches: 87, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
9 70 0.80
12 17 0.20
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Done.