Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 58 of 240
Found at i:19299384 original size:11 final size:10
Alignment explanation
Indices: 19299330--19299394 Score: 67
Period size: 11 Copynumber: 6.0 Consensus size: 10
19299320 GAATTGAACC
19299330 TTTTTTTTCT
1 TTTTTTTTCT
19299340 TTTTTTCCTTCT
1 TTTTTT--TTCT
*
19299352 TTTTTCCTTCT
1 TTTTT-TTTCT
*
19299363 CTTTTTCTTCT
1 -TTTTTTTTCT
19299374 TTTTCTTTTCT
1 TTTT-TTTTCT
19299385 TTTTTTTTCT
1 TTTTTTTTCT
19299395 CTGCTGGGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
10 16 0.33
11 18 0.38
12 14 0.29
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:19299389 original size:22 final size:21
Alignment explanation
Indices: 19299330--19299394 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
19299320 GAATTGAACC
19299330 TTTTTTTTCTTTTTTTCCTTCT
1 TTTTTTTTCTTTTTTT-CTTCT
* *
19299352 TTTTTCCTTCTCTTTTTCTTCT
1 TTTTT-TTTCTTTTTTTCTTCT
19299374 TTTTCTTTTCTTTTTTT-TTCT
1 TTTT-TTTTCTTTTTTTCTTCT
19299395 CTGCTGGGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 4 0.11
22 23 0.62
23 10 0.27
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTTTCTTTTTTTCTTCT
Found at i:19299463 original size:14 final size:13
Alignment explanation
Indices: 19299446--19299475 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
19299436 GCGTGCGGGC
19299446 CTGGCCTGCTAGTG
1 CTGGCCTGCTAG-G
19299460 CTGGCCTGCTAGG
1 CTGGCCTGCTAGG
19299473 CTG
1 CTG
19299476 CGCTGGGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.07, C:0.30, G:0.37, T:0.27
Consensus pattern (13 bp):
CTGGCCTGCTAGG
Found at i:19299687 original size:24 final size:24
Alignment explanation
Indices: 19299667--19299726 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
19299657 CTTTTCTTTT
*
19299667 TCTTTT-TTCTTTCTTTCTTCTTCC
1 TCTTTTCTTC-TTCCTTCTTCTTCC
19299691 TCTTTTCTTCTTCCTTCTTCTTCC
1 TCTTTTCTTCTTCCTTCTTCTTCC
*
19299715 T-TCTTCTTCTTC
1 TCTTTTCTTCTTC
19299727 AAAGTCTAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 10 0.30
24 20 0.61
25 3 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (24 bp):
TCTTTTCTTCTTCCTTCTTCTTCC
Found at i:19299689 original size:3 final size:3
Alignment explanation
Indices: 19299655--19299726 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
19299645 TTTTTATTAT
* *
19299655 TTC TT- TTC TTT TTC TT- TT- TTC TTTC TTTC TTC TTC CTC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC TTC TTC TTC TTC
19299698 TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
19299727 AAAGTCTAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 8 0.14
3 38 0.64
4 13 0.22
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:19299694 original size:13 final size:13
Alignment explanation
Indices: 19299678--19299726 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
19299668 CTTTTTTCTT
19299678 TCTTTCTTCTTCC
1 TCTTTCTTCTTCC
19299691 TCTTTTCTTCTT-C
1 TC-TTTCTTCTTCC
19299704 -C-TTCTTCTTCC
1 TCTTTCTTCTTCC
19299715 T-TCTTCTTCTTC
1 TCT-TTCTTCTTC
19299727 AAAGTCTAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
10 8 0.26
11 1 0.03
12 1 0.03
13 12 0.39
14 9 0.29
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TCTTTCTTCTTCC
Found at i:19299710 original size:10 final size:10
Alignment explanation
Indices: 19299695--19299723 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
19299685 TCTTCCTCTT
19299695 TTCTTCTTCC
1 TTCTTCTTCC
19299705 TTCTTCTTCC
1 TTCTTCTTCC
19299715 TTCTTCTTC
1 TTCTTCTTC
19299724 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:19299817 original size:10 final size:10
Alignment explanation
Indices: 19299782--19299831 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
19299772 ACGCCGGTAC
19299782 TCTT-TCTTT
1 TCTTCTCTTT
* *
19299791 TCTTCTCCTC
1 TCTTCTCTTT
19299801 T-TTCTCTTT
1 TCTTCTCTTT
19299810 TCTTCTCTTT
1 TCTTCTCTTT
*
19299820 TCTTCTTTTT
1 TCTTCTCTTT
19299830 TC
1 TC
19299832 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:19299829 original size:19 final size:19
Alignment explanation
Indices: 19299786--19299828 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
19299776 CGGTACTCTT
19299786 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
19299805 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
19299822 TTCTTTT
1 -TCTTTT
19299829 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:19300113 original size:29 final size:29
Alignment explanation
Indices: 19300080--19300196 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
19300070 TGTAATTTTT
*
19300080 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
19300109 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
19300139 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
19300168 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
19300197 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:19300135 original size:30 final size:30
Alignment explanation
Indices: 19300095--19300196 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
19300085 ATTTAGGATT
*
19300095 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
19300125 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
19300155 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
19300185 AAAATGCAATTT
1 AAAATGAAATTT
19300197 TTATTTTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:19300653 original size:54 final size:55
Alignment explanation
Indices: 19300467--19300684 Score: 324
Period size: 54 Copynumber: 4.1 Consensus size: 55
19300457 CACGTGAGCC
* *
19300467 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AA
*
19300522 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAG--A---AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAA
* *
19300573 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
19300627 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
19300682 AAG
1 AAG
19300685 TAGAAATTGA
Statistics
Matches: 150, Mismatches: 6, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
50 14 0.09
51 34 0.23
52 1 0.01
54 52 0.35
55 37 0.25
56 6 0.04
57 6 0.04
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
Found at i:19300682 original size:14 final size:14
Alignment explanation
Indices: 19300663--19300697 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
19300653 GAGTTGATTT
19300663 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
19300677 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
19300691 TTGAAAA
1 TTGAAAA
19300698 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:19300929 original size:85 final size:87
Alignment explanation
Indices: 19300785--19301032 Score: 308
Period size: 85 Copynumber: 2.8 Consensus size: 87
19300775 AACAGAAATT
* * *
19300785 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
19300850 TTGATTTGAAAAG-TAGAATT-AG
65 TTGATTTGAAAAGATAG-ATTGAA
* * * *
19300872 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
19300935 TTGATTTTTGAAAAGCATAGATTGAA
65 TTGA--TTTGAAAAG-ATAGATTGAA
*
19300961 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
19301025 GTTGATTT
64 GTTGATTT
19301033 TTGAAAAACA
Statistics
Matches: 138, Mismatches: 13, Indels: 18
0.82 0.08 0.11
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
87 32 0.23
88 3 0.02
89 31 0.22
91 33 0.24
93 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTGAAAAGATAGATTGAA
Found at i:19300978 original size:15 final size:16
Alignment explanation
Indices: 19300945--19300978 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19300935 TTGATTTTTG
* *
19300945 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
19300961 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
19300977 AA
1 AA
19300979 TACCTCAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:19301020 original size:91 final size:88
Alignment explanation
Indices: 19300785--19301039 Score: 324
Period size: 91 Copynumber: 2.9 Consensus size: 88
19300775 AACAGAAATT
* * *
19300785 AAAAACAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
19300850 TTGA--TTTGAAAAGTAGAATTAG
65 TTGATTTTTGAAAAGTAGAATTAA
* * * *
19300872 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
19300935 TTGATTTTTGAAAAGCATAG-ATTGAA
65 TTGATTTTTGAAAAG--TAGAATT-AA
*
19300961 AAAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGA
19301025 GTTGATTTTTGAAAA
64 GTTGATTTTTGAAAA
19301040 ACAAAAATTA
Statistics
Matches: 145, Mismatches: 13, Indels: 16
0.83 0.07 0.09
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
87 32 0.22
88 3 0.02
89 28 0.19
91 43 0.30
93 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (88 bp):
AAAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
TGATTTTTGAAAAGTAGAATTAA
Found at i:19301183 original size:123 final size:123
Alignment explanation
Indices: 19300962--19301297 Score: 539
Period size: 123 Copynumber: 2.7 Consensus size: 123
19300952 TAGATTGAAA
* * * ** * *
19300962 AAAACATAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAACATAAACTAAAAATACCTC-G-GTGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
19301027 TGATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
64 TGATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
19301087 AAAACATAAACTAAAAATACCTCGGTGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCGGTGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
19301152 ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
66 ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
19301210 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCGGTGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
** *
19301275 ATTTTTTTAAAA-AAAATTTAAAA
66 ATTTTTGAAAAACAAAAATTAAAA
19301298 ATACCTCAAC
Statistics
Matches: 198, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
122 10 0.05
123 166 0.84
124 1 0.01
125 21 0.11
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (123 bp):
AAAACATAAACTAAAAATACCTCGGTGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
ATTTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
Found at i:19301368 original size:72 final size:70
Alignment explanation
Indices: 19301175--19301369 Score: 214
Period size: 72 Copynumber: 2.7 Consensus size: 70
19301165 AAAAATTAAA
* * * * * * **
19301175 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
19301239 CCCCG
66 CCCCG
*
19301244 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAA-AAAATTTAAAAATACCTCAAC
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA---TTTTAAAACAAAAATTAAAAATACCTCAAC
* **
19301308 GTGTCTTG
63 GTGCCCCG
*
19301316 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT--AAAACAAAAATTAAAA
19301370 GGCTTAACTC
Statistics
Matches: 105, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
69 30 0.29
70 2 0.02
71 4 0.04
72 62 0.59
73 7 0.07
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
CCCCG
Found at i:19301564 original size:122 final size:122
Alignment explanation
Indices: 19301438--19301664 Score: 287
Period size: 122 Copynumber: 1.9 Consensus size: 122
19301428 GCGTGCCCCG
* * * * **
19301438 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTAAA-A-AATTTAAAAATACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAG-TCA-ATTTAAAACATAAACTAAAAATACCTCAACGT
* ** * *
19301501 GTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTGATTTTGAAAAACAAAAATTAAA
64 GCCCCGAAGCTCAACTCACTTCTCGCAATATAAGTTGATTTTGAAAAACAAAAATTAAA
* **
19301560 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGC
*
19301625 CCCGAAGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
66 CCCGAAGCTCAACTCACTTCTCGCAATATAAGTTGATTTT
19301665 TTTAAAAAAT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
120 6 0.07
121 3 0.03
122 79 0.90
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.30
Consensus pattern (122 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGC
CCCGAAGCTCAACTCACTTCTCGCAATATAAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:19301796 original size:192 final size:193
Alignment explanation
Indices: 19301120--19301927 Score: 1541
Period size: 192 Copynumber: 4.2 Consensus size: 193
19301110 GGTGTGCCCC
19301120 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
19301185 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
19301250 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAAATTTAAAAATACCTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTT-AAAAAAATTTAAAAATACCTCAACGTGTCTT
19301315 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
19301380 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
19301445 ACTCACTTCTCGCAATATGAGTTGA-TTTTTT-AAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTT
*
19301506 GAGGCTCAACTCATTTCTCGCAATATAAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
*
19301571 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAAGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
19301636 ACTCACTTCTCGCAATATGAGTTGATTTTTTT-AAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTT
19301698 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
*
19301763 ACCTCTTGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
19301828 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTT
*
19301891 GAGGCTCAACTTATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
19301928 CCTTGGAAAG
Statistics
Matches: 605, Mismatches: 6, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
191 183 0.30
192 195 0.32
193 72 0.12
194 122 0.20
195 33 0.05
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.30
Consensus pattern (193 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:19301867 original size:385 final size:384
Alignment explanation
Indices: 19301120--19301927 Score: 1537
Period size: 385 Copynumber: 2.1 Consensus size: 384
19301110 GGTGTGCCCC
19301120 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
*
19301185 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAAGCTC
19301250 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAAATTTAAAAATACCTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTT-AAAAAAATTTAAAAATACCTCAACGTGTCTT
19301315 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
194 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
19301380 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
259 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
19301445 ACTCACTTCTCGCAATATGAGTTGATTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
324 ACTCACTTCTCGCAATATGAGTTGATTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
*
19301506 GAGGCTCAACTCATTTCTCGCAATATAAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
19301571 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAAGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAAGCTCA
19301636 ACTCACTTCTCGCAATATGAGTTGATTTTTTT-AAAAAATTTAAAAATACCTCAACGTGTCTTGA
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTTGA
19301700 GGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCAC
196 GGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCAC
*
19301765 CTCTTGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAAC
261 CTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAAC
19301830 TCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTT
326 TCACTTCTCGCAATATGAGTTGA-TTTTTT-AAAAAATTTAAAAATACCTCAACGTGTCTT
*
19301891 GAGGCTCAACTTATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
19301928 CCTTGGAAAG
Statistics
Matches: 415, Mismatches: 5, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
383 184 0.44
384 6 0.01
385 193 0.47
386 32 0.08
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.30
Consensus pattern (384 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAAGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTTGA
GGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCAC
CTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAAC
TCACTTCTCGCAATATGAGTTGATTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:19310075 original size:19 final size:20
Alignment explanation
Indices: 19310053--19310090 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19310043 TTTGAAGCAC
19310053 GAAA-TTTTTTTTTTAAAAT
1 GAAAGTTTTTTTTTTAAAAT
19310072 GAAAGTTTTTTTTTTAAAA
1 GAAAGTTTTTTTTTTAAAA
19310091 CACGAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (20 bp):
GAAAGTTTTTTTTTTAAAAT
Found at i:19310107 original size:16 final size:17
Alignment explanation
Indices: 19310082--19310599 Score: 171
Period size: 17 Copynumber: 29.9 Consensus size: 17
19310072 GAAAGTTTTT
19310082 TTTTTAAAACACGAGAA
1 TTTTTAAAACACGAGAA
19310099 TTTTT-AAACACG-GAA
1 TTTTTAAAACACGAGAA
* * *
19310114 ATTTCAGAAACACGAAAA
1 TTTTTA-AAACACGAGAA
**
19310132 TTTTTAAAACACGA-CT
1 TTTTTAAAACACGAGAA
*
19310148 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAGAA
* * *
19310165 TTTTTAAAACAAGACAT
1 TTTTTAAAACACGAGAA
* *
19310182 TTTTTGAAACAC-A-ATT
1 TTTTTAAAACACGAGA-A
**
19310198 TTTTTCTTAA-A--A-AA
1 TTTTT-AAAACACGAGAA
*
19310212 --TTTAAAATACGAGAA
1 TTTTTAAAACACGAGAA
*
19310227 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
*
19310244 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
**
19310261 TTTTTGGAACACG-GAAA
1 TTTTTAAAACACGAG-AA
***
19310278 TTTTTTAGAAA-ACGATTTT
1 -TTTTTA-AAACACGA-GAA
*
19310297 TTTTTAAAATCACCG-GAG
1 TTTTTAAAA-CA-CGAGAA
*
19310315 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAGAA
* *
19310333 TCTTTGAAACACCGA-AA
1 TTTTTAAAACA-CGAGAA
*
19310350 TTTTGAAAACACGA-AGA
1 TTTTTAAAACACGAGA-A
*
19310367 TTTTTGAAACACGA-AA
1 TTTTTAAAACACGAGAA
* *
19310383 TTTTTTTGAAAATACGAAGAT
1 --TTTTT-AAAACACG-AGAA
**
19310404 TTTTTTTAACACG-GAAA
1 TTTTTAAAACACGAG-AA
* *
19310421 TTTTTGAAACACG-GTCATTT
1 TTTTTAAAACACGAG--A--A
*
19310441 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAGAA
* **
19310459 TTTTTGAAAGACATGA-TT
1 TTTTT-AAA-ACACGAGAA
*
19310477 TTTTTGAAAATACG-GAAA
1 TTTTT-AAAACACGAG-AA
* *
19310495 TTTATAAAACACGAAAA
1 TTTTTAAAACACGAGAA
* *
19310512 TTTTTTCTGAAAACAAGAAAA
1 --TTTT-T-AAAACACGAGAA
* *
19310533 TTTTTGAAACACTAGAA
1 TTTTTAAAACACGAGAA
*
19310550 TTTTGAAAACACGA-AGA
1 TTTTTAAAACACGAGA-A
* *
19310567 TTTTTGAAACATGAGAA
1 TTTTTAAAACACGAGAA
19310584 TTTTTAAAAGCACGAG
1 TTTTTAAAA-CACGAG
19310600 GATTATTGAA
Statistics
Matches: 374, Mismatches: 81, Indels: 91
0.68 0.15 0.17
Matches are distributed among these distances:
11 2 0.01
12 4 0.01
14 1 0.00
15 11 0.03
16 35 0.09
17 187 0.50
18 75 0.20
19 30 0.08
20 10 0.03
21 19 0.05
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:19310173 original size:33 final size:33
Alignment explanation
Indices: 19310081--19310193 Score: 138
Period size: 33 Copynumber: 3.4 Consensus size: 33
19310071 TGAAAGTTTT
* *
19310081 TTTTTTAAAACACGAGAATTTTT-AAACACGGAA
1 TTTTTTGAAACACGAGAATTTTTAAAACAC-GAC
* ** *
19310114 ATTTCAGAAACACGAAAATTTTTAAAACACGAC
1 TTTTTTGAAACACGAGAATTTTTAAAACACGAC
*
19310147 TTTTTTGAAACACGAGAATTTTTAAAACAAGAC
1 TTTTTTGAAACACGAGAATTTTTAAAACACGAC
19310180 ATTTTTTGAAACAC
1 -TTTTTTGAAACAC
19310194 AATTTTTTTC
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
33 48 0.72
34 19 0.28
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (33 bp):
TTTTTTGAAACACGAGAATTTTTAAAACACGAC
Found at i:19310252 original size:34 final size:34
Alignment explanation
Indices: 19310082--19310598 Score: 229
Period size: 34 Copynumber: 14.9 Consensus size: 34
19310072 GAAAGTTTTT
*
19310082 TTTTTAAAACACGAGAATTTTT-AAACACGGAAA
1 TTTTTAAAACACGAGAATTTTTAAAACACGAAAA
* * **
19310115 -TTTCAGAAACACGAAAATTTTTAAAACACG-ACT
1 TTTTTA-AAACACGAGAATTTTTAAAACACGAAAA
* * * *
19310148 TTTTTGAAACACGAGAATTTTTAAAACAAGACAT
1 TTTTTAAAACACGAGAATTTTTAAAACACGAAAA
* * ***
19310182 TTTTTGAAACAC-A-ATTTTTTTCTTA-A--AAAA
1 TTTTTAAAACACGAGA-ATTTTTAAAACACGAAAA
*
19310212 --TTTAAAATACGAGAATTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAATTTTTAAAACACGAAAA
* ** *
19310244 TTTTTAAAACACGAAAATTTTTGGAACACGGAAAT
1 TTTTTAAAACACGAGAATTTTTAAAACAC-GAAAA
*** * *
19310279 TTTTTAGAAA-ACGATTTTTTTTTAAAATCACCG-GAG
1 TTTTTA-AAACACGA-GAATTTTTAAAA-CA-CGAAAA
* * *
19310315 TTTTTGAAAACACGAAAATCTTTGAAACACCG-AAA
1 TTTTT-AAAACACGAGAATTTTTAAAACA-CGAAAA
* * *
19310350 TTTTGAAAACACGA-AGATTTTTGAAACACGAAATT
1 TTTTTAAAACACGAGA-ATTTTTAAAACACGAAA-A
* * ** *
19310385 TTTTTGAAAATACGAAGATTTTTTTTAACACGGAAA
1 TTTTT-AAAACACG-AGAATTTTTAAAACACGAAAA
* *
19310421 TTTTTGAAACACG-GTCATTTTTTTTGAAAACACGAAAA
1 TTTTTAAAACACGAG--A--ATTTTT-AAAACACGAAAA
* ** * *
19310459 TTTTTGAAAGACATGA-TTTTTTTGAAAATACGGAAA
1 TTTTT-AAA-ACACGAGAATTTTT-AAAACACGAAAA
* * *
19310495 TTTATAAAACACGAAAATTTTTTCTGAAAACAAGAAAA
1 TTTTTAAAACACGAGAA--TTTT-T-AAAACACGAAAA
* * * *
19310533 TTTTTGAAACACTAGAATTTTGAAAACACGAAGA
1 TTTTTAAAACACGAGAATTTTTAAAACACGAAAA
* *
19310567 TTTTTGAAACATGAGAATTTTTAAAAGCACGA
1 TTTTTAAAACACGAGAATTTTTAAAA-CACGA
19310599 GGATTATTGA
Statistics
Matches: 368, Mismatches: 78, Indels: 74
0.71 0.15 0.14
Matches are distributed among these distances:
28 8 0.02
29 7 0.02
30 4 0.01
32 10 0.03
33 49 0.13
34 106 0.29
35 43 0.12
36 63 0.17
37 32 0.09
38 40 0.11
39 2 0.01
40 4 0.01
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.33
Consensus pattern (34 bp):
TTTTTAAAACACGAGAATTTTTAAAACACGAAAA
Found at i:19310387 original size:89 final size:88
Alignment explanation
Indices: 19310227--19310395 Score: 204
Period size: 89 Copynumber: 1.9 Consensus size: 88
19310217 AATACGAGAA
* *
19310227 TTTTTAAAACACGAAAATTTTTAAAACACGAAAATTTTTGGAACACGGAAATTTTTTAGAAAACG
1 TTTTTAAAACACGAAAATCTTTAAAACACGAAAATTTTTGAAACACGGAAATTTTTTAGAAAACG
* *
19310292 ATTTTTTTTTAAAATCACCGGAG
66 AATTTTTTTGAAAATCACCGGAG
*
19310315 TTTTTGAAAACACGAAAATCTTTGAAACACCG-AAA-TTTTGAAAACAC-GAAGA-TTTTT-GAA
1 TTTTT-AAAACACGAAAATCTTTAAAACA-CGAAAATTTTTG-AAACACGGAA-ATTTTTTAGAA
19310375 ACACGAAATTTTTTTGAAAAT
62 A-ACG-AATTTTTTTGAAAAT
19310396 ACGAAGATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
87 4 0.06
88 21 0.30
89 43 0.61
90 2 0.03
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (88 bp):
TTTTTAAAACACGAAAATCTTTAAAACACGAAAATTTTTGAAACACGGAAATTTTTTAGAAAACG
AATTTTTTTGAAAATCACCGGAG
Found at i:19310425 original size:106 final size:105
Alignment explanation
Indices: 19310215--19310433 Score: 243
Period size: 106 Copynumber: 2.1 Consensus size: 105
19310205 TAAAAAATTT
* * * * *
19310215 AAAATACGAGAATTTTTAAAACACGAAAATTTTTAAAACACGAAAATTTTTGGAACACGGAAATT
1 AAAACACGAAAATCTTTAAAACACGAAAATTTTGAAAACACGAAAATTTTTGAAACACGGAAATT
* *
19310280 TTTTAGAAAACGATTTTTTTTTAAAATCACCGGAGTTTTTG
66 TTTTAGAAAACGAATTTTTTTT-AAATCACCGGAATTTTTG
* *
19310321 AAAACACGAAAATCTTTGAAACACCG-AAATTTTGAAAACACGAAGATTTTTGAAACAC-GAAAT
1 AAAACACGAAAATCTTTAAAACA-CGAAAATTTTGAAAACACGAAAATTTTTGAAACACGGAAAT
*
19310384 TTTTTTGAAAATACGAAGATTTTTTTT-AA-CA-CGGAAATTTTTG
65 TTTTTAG-AAA-ACG-A-ATTTTTTTTAAATCACCGG-AATTTTTG
19310427 -AAACACG
1 AAAACACG
19310434 GTCATTTTTT
Statistics
Matches: 97, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
105 21 0.22
106 60 0.62
107 7 0.07
108 1 0.01
109 8 0.08
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.32
Consensus pattern (105 bp):
AAAACACGAAAATCTTTAAAACACGAAAATTTTGAAAACACGAAAATTTTTGAAACACGGAAATT
TTTTAGAAAACGAATTTTTTTTAAATCACCGGAATTTTTG
Found at i:19310427 original size:54 final size:56
Alignment explanation
Indices: 19310227--19310463 Score: 148
Period size: 54 Copynumber: 4.4 Consensus size: 56
19310217 AATACGAGAA
** * *
19310227 TTTTT-AAAACACGAAAA-TTTTTAAAACACGAAAATTTTTGGAACACGG-AAATT
1 TTTTTGAAAACACGAAAATTTTTTTTAACACGAAGATTTTTGAAACACGGTAAATT
* * * *
19310280 TTTTAG-AAA-ACG--ATTTTTTTTTAAAATCACCGGAG-TTTTTGAAAACAC-G-AAA-A
1 TTTTTGAAAACACGAAAATTTTTTTT--AA-CA-CGAAGATTTTTG-AAACACGGTAAATT
* ***
19310333 TCTTTG-AAACACCG-AAA-TTTTGAAAACACGAAGATTTTTGAAACAC-G-AAATT
1 TTTTTGAAAACA-CGAAAATTTTTTTTAACACGAAGATTTTTGAAACACGGTAAATT
* * * *
19310385 TTTTTGAAAATACGAAGATTTTTTTTAACACGGAA-ATTTTTGAAACACGGTCATTT
1 TTTTTGAAAACACGAAAATTTTTTTTAACAC-GAAGATTTTTGAAACACGGTAAATT
19310441 TTTTTGAAAACACGAAAATTTTT
1 TTTTTGAAAACACGAAAATTTTT
19310464 GAAAGACATG
Statistics
Matches: 140, Mismatches: 26, Indels: 33
0.70 0.13 0.17
Matches are distributed among these distances:
50 1 0.01
51 19 0.14
52 18 0.13
53 24 0.17
54 35 0.25
55 18 0.13
56 25 0.18
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (56 bp):
TTTTTGAAAACACGAAAATTTTTTTTAACACGAAGATTTTTGAAACACGGTAAATT
Found at i:19310492 original size:74 final size:73
Alignment explanation
Indices: 19310227--19310541 Score: 199
Period size: 74 Copynumber: 4.4 Consensus size: 73
19310217 AATACGAGAA
* * * ** *
19310227 TTTTT-AAAACACGAAAATTTTTAAAACACGAA-AATTTTTGGAACACGGAAATTTTTTAGAAA-
1 TTTTTGAAAACACGAAAATTTTTGAAAGACGAAGATTTTTTTAAACACGGAAA-TTTATA-AAAC
19310289 ACG---ATTT
64 ACGAAAATTT
* * * * * * * *
19310296 TTTTTTAAAATCACCG-GAGTTTTTGAAAACACGAA-AATCTTTGAAACACCGAAATTT-TGAAA
1 TTTTTGAAAA-CA-CGAAAATTTTTG-AAAGACGAAGATTTTTTTAAACACGGAAATTTAT-AAA
*
19310358 ACACGAAGA---
62 ACACGAAAATTT
* * * * *
19310367 TTTTTG-AAACACGAAATTTTTTTGAAAATACGAAGATTTTTTTTAACACGGAAATTTTTGAAAC
1 TTTTTGAAAACACGAAA-ATTTTTG-AAAGACGAAGATTTTTTTAAACACGGAAATTTATAAAAC
***
19310431 ACGGTCATTT
64 ACGAAAATTT
* *
19310441 TTTTTGAAAACACGAAAATTTTTGAAAGAC-ATGATTTTTTTGAAAATACGGAAATTTATAAAAC
1 TTTTTGAAAACACGAAAATTTTTGAAAGACGAAGATTTTTTT--AAACACGGAAATTTATAAAAC
19310505 ACGAAAATTT
64 ACGAAAATTT
* *
19310515 TTTCTGAAAACAAGAAAATTTTTGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAA
19310542 CACTAGAATT
Statistics
Matches: 196, Mismatches: 31, Indels: 33
0.75 0.12 0.13
Matches are distributed among these distances:
68 2 0.01
69 8 0.04
70 26 0.13
71 45 0.23
72 38 0.19
73 5 0.03
74 62 0.32
75 10 0.05
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.35
Consensus pattern (73 bp):
TTTTTGAAAACACGAAAATTTTTGAAAGACGAAGATTTTTTTAAACACGGAAATTTATAAAACAC
GAAAATTT
Found at i:19310517 original size:92 final size:92
Alignment explanation
Indices: 19310215--19310516 Score: 233
Period size: 88 Copynumber: 3.4 Consensus size: 92
19310205 TAAAAAATTT
* *** *
19310215 AAAATACG-AGAATTTT-TAAAACACGAAAATTTTTAAAACAC-G--AAAATTTTTG-GAACACG
1 AAAATACGAAG-ATTTTATAAAACACGAAAATTTTTGAAACACGGTCATTTTTTTTGAAAACAC-
* * *
19310274 GAAATTTTTTAGAAA-ACG-ATTTTTTTTT
64 GAAAATTTTT-GAAACACGAAATTTTTTTG
* * * **
19310302 AAAATCACCGGAG-TTTT-TGAAAACACGAAAATCTTTGAAACACCG--A--AATTTTGAAAACA
1 AAAAT-A-CGAAGATTTTAT-AAAACACGAAAATTTTTGAAACACGGTCATTTTTTTTGAAAACA
*
19310361 CGAAGATTTTTGAAACACGAAATTTTTTTG
63 CGAAAATTTTTGAAACACGAAATTTTTTTG
* ** *
19310391 AAAATACGAAGATTTTTTTTAACACGGAAATTTTTGAAACACGGTCATTTTTTTTGAAAACACGA
1 AAAATACGAAGATTTTATAAAACACGAAAATTTTTGAAACACGGTCATTTTTTTTGAAAACACGA
* *
19310456 AAATTTTTGAAAGAC-ATGATTTTTTTG
66 AAATTTTTGAAACACGA-AATTTTTTTG
19310483 AAAATACGGAA-A-TTTATAAAACACGAAAATTTTT
1 AAAATAC-GAAGATTTTATAAAACACGAAAATTTTT
19310517 TCTGAAAACA
Statistics
Matches: 176, Mismatches: 23, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
87 13 0.07
88 49 0.28
89 43 0.24
90 5 0.03
91 19 0.11
92 44 0.25
93 3 0.02
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (92 bp):
AAAATACGAAGATTTTATAAAACACGAAAATTTTTGAAACACGGTCATTTTTTTTGAAAACACGA
AAATTTTTGAAACACGAAATTTTTTTG
Found at i:19310946 original size:9 final size:9
Alignment explanation
Indices: 19310932--19310995 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
19310922 CGAATTGAAC
19310932 CTTTTTTTT
1 CTTTTTTTT
*
19310941 CTTTTTTTC
1 CTTTTTTTT
19310950 CTTCTTTTTT
1 CTT-TTTTTT
19310960 CCTTCTCTTTTT
1 -CTT-T-TTTTT
*
19310972 CTTCTTTTT
1 CTTTTTTTT
*
19310981 CTTTTCTTT
1 CTTTTTTTT
19310990 -TTTTTT
1 CTTTTTT
19310996 CTCTGCTGGG
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
8 5 0.11
9 23 0.50
10 5 0.11
11 8 0.17
12 5 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:19310987 original size:11 final size:10
Alignment explanation
Indices: 19310933--19310997 Score: 67
Period size: 11 Copynumber: 6.0 Consensus size: 10
19310923 GAATTGAACC
19310933 TTTTTTTTCT
1 TTTTTTTTCT
19310943 TTTTTTCCTTCT
1 TTTTTT--TTCT
*
19310955 TTTTTCCTTCT
1 TTTTT-TTTCT
*
19310966 CTTTTTCTTCT
1 -TTTTTTTTCT
19310977 TTTTCTTTTCT
1 TTTT-TTTTCT
19310988 TTTTTTTTCT
1 TTTTTTTTCT
19310998 CTGCTGGGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
10 16 0.33
11 18 0.38
12 14 0.29
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:19310992 original size:22 final size:21
Alignment explanation
Indices: 19310933--19310997 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
19310923 GAATTGAACC
19310933 TTTTTTTTCTTTTTTTCCTTCT
1 TTTTTTTTCTTTTTTT-CTTCT
* *
19310955 TTTTTCCTTCTCTTTTTCTTCT
1 TTTTT-TTTCTTTTTTTCTTCT
19310977 TTTTCTTTTCTTTTTTT-TTCT
1 TTTT-TTTTCTTTTTTTCTTCT
19310998 CTGCTGGGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 4 0.11
22 23 0.62
23 10 0.27
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTTTCTTTTTTTCTTCT
Found at i:19311160 original size:24 final size:25
Alignment explanation
Indices: 19311128--19311183 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
19311118 AATGGCCTGC
19311128 TCTTCTTTTTTTT-TTTTGGCTTGTT
1 TCTTCTTTTTTTTGTTTTGG-TTGTT
*
19311153 TCTT-TTTTTTTTGTTTTTGTTGTT
1 TCTTCTTTTTTTTGTTTTGGTTGTT
*
19311177 TTTTCTT
1 TCTTCTT
19311184 GGGCTGCTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.00, C:0.09, G:0.11, T:0.80
Consensus pattern (25 bp):
TCTTCTTTTTTTTGTTTTGGTTGTT
Found at i:19311283 original size:22 final size:22
Alignment explanation
Indices: 19311256--19311317 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
19311246 TTTTTTATTA
* *
19311256 TTTCTTTTCTT-TTTCTTTTTTC
1 TTTC-TTTCTTCTTCCTCTTTTC
19311278 TTTCTTTCTTCTTCCTCTTTTC
1 TTTCTTTCTTCTTCCTCTTTTC
* *
19311300 -TTCTTCCTTCTTCTTCTT
1 TTTCTTTCTTCTTCCTCTT
19311318 CAAAGTCTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.63
22 13 0.37
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTCTTTCTTCTTCCTCTTTTC
Found at i:19311289 original size:24 final size:24
Alignment explanation
Indices: 19311269--19311315 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
19311259 CTTTTCTTTT
*
19311269 TCTTTT-TTCTTTCTTTCTTCTTCC
1 TCTTTTCTTC-TTCCTTCTTCTTCC
19311293 TCTTTTCTTCTTCCTTCTTCTTC
1 TCTTTTCTTCTTCCTTCTTCTTC
19311316 TTCAAAGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (24 bp):
TCTTTTCTTCTTCCTTCTTCTTCC
Found at i:19311291 original size:3 final size:3
Alignment explanation
Indices: 19311257--19311318 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
19311247 TTTTTATTAT
* *
19311257 TTC TT- TTC TTT TTC TT- TT- TTC TTTC TTTC TTC TTC CTC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC TTC TTC TTC TTC
19311300 TTC TTCC TTC TTC TTC TTC
1 TTC TT-C TTC TTC TTC TTC
19311319 AAAGTCTAGC
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
2 8 0.16
3 32 0.64
4 10 0.20
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:19311301 original size:14 final size:13
Alignment explanation
Indices: 19311256--19311318 Score: 58
Period size: 14 Copynumber: 4.8 Consensus size: 13
19311246 TTTTTTATTA
19311256 TTTCTT-TT-CTT
1 TTTCTTCTTCCTT
* *
19311267 TTTCTTTTTTCTTT
1 TTTC-TTCTTCCTT
19311281 CTTTCTTCTTCCTCT
1 -TTTCTTCTTCCT-T
19311296 TTTCTTCTTCCTT
1 TTTCTTCTTCCTT
*
19311309 CTTCTTCTTC
1 TTTCTTCTTC
19311319 AAAGTCTAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
11 4 0.09
12 2 0.05
13 12 0.28
14 20 0.47
15 5 0.12
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTCTTCTTCCTT
Found at i:19311409 original size:10 final size:10
Alignment explanation
Indices: 19311374--19311423 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
19311364 ACGCCGGTAC
19311374 TCTT-TCTTT
1 TCTTCTCTTT
* *
19311383 TCTTCTCCTC
1 TCTTCTCTTT
19311393 T-TTCTCTTT
1 TCTTCTCTTT
19311402 TCTTCTCTTT
1 TCTTCTCTTT
*
19311412 TCTTCTTTTT
1 TCTTCTCTTT
19311422 TC
1 TC
19311424 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:19311421 original size:19 final size:19
Alignment explanation
Indices: 19311378--19311420 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
19311368 CGGTACTCTT
19311378 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
19311397 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
19311414 TTCTTTT
1 -TCTTTT
19311421 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:19311727 original size:30 final size:29
Alignment explanation
Indices: 19311687--19311788 Score: 123
Period size: 30 Copynumber: 3.4 Consensus size: 29
19311677 ATTTAGGATT
19311687 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAA-GAAAGTTTAGGGGTC
* * *
19311717 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTT-AAGAAAGTTTAGGGGTC
* *
19311747 AAAATGAAATTTAGAAAAAATTTAGGGGTC
1 AAAATGAAATTTA-AGAAAGTTTAGGGGTC
*
19311777 AAAATGCAATTT
1 AAAATGAAATTT
19311789 TTATTTTTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
29 1 0.02
30 58 0.95
31 2 0.03
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.29
Consensus pattern (29 bp):
AAAATGAAATTTAAGAAAGTTTAGGGGTC
Found at i:19311806 original size:17 final size:17
Alignment explanation
Indices: 19311784--19311816 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19311774 GTCAAAATGC
19311784 AATTTTTATTTTTAAAA
1 AATTTTTATTTTTAAAA
*
19311801 AATTTTTTTTTTTAAA
1 AATTTTTATTTTTAAA
19311817 TTTTGAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTTTTATTTTTAAAA
Found at i:19317071 original size:26 final size:27
Alignment explanation
Indices: 19317042--19317100 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
19317032 TGATATAAAC
19317042 ATTTTAAATTTAAA-ATTTAAAATTAT
1 ATTTTAAATTTAAATATTTAAAATTAT
* *
19317068 ATTTT-ATTTTAAATTTTTAAAATTAT
1 ATTTTAAATTTAAATATTTAAAATTAT
19317094 -TTTTAAA
1 ATTTTAAA
19317101 AATAAAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
ATTTTAAATTTAAATATTTAAAATTAT
Found at i:19317080 original size:25 final size:25
Alignment explanation
Indices: 19317050--19317098 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
19317040 ACATTTTAAA
19317050 TTTAAA-ATTTAAAATTATATTTTAT
1 TTTAAATATTTAAAATTAT-TTTTAT
*
19317075 TTTAAATTTTTAAAATTATTTTTA
1 TTTAAATATTTAAAATTATTTTTA
19317099 AAAATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTAAATATTTAAAATTATTTTTAT
Found at i:19336494 original size:6 final size:6
Alignment explanation
Indices: 19336477--19336518 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
19336467 TTGGGCATGT
*
19336477 TACATA TGCATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA
19336519 GGGTCATTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (6 bp):
TACATA
Found at i:19339388 original size:3 final size:3
Alignment explanation
Indices: 19339380--19339411 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
19339370 AATAACCAAA
19339380 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
19339412 TAATAATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:19348535 original size:27 final size:27
Alignment explanation
Indices: 19348456--19348535 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
19348446 TACTGTCCCA
* * *
19348456 ACAGACTATCTCTTATTTACTATCCAG
1 ACAGACTATCTCGTGTTTACTATCCTG
* * *
19348483 ACGGACTAT-TATGTGTTTATTATCCTG
1 ACAGACTATCT-CGTGTTTACTATCCTG
*
19348510 ACAGACTATCTCGTGTTTACTGTCCT
1 ACAGACTATCTCGTGTTTACTATCCT
19348536 AGTGGACAAC
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.40
Consensus pattern (27 bp):
ACAGACTATCTCGTGTTTACTATCCTG
Found at i:19348552 original size:27 final size:27
Alignment explanation
Indices: 19348522--19348596 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
19348512 AGACTATCTC
* * *
19348522 GTGTTTACTGTCCTAGTGGACAACCTT
1 GTGTTTACTGTCCCAATGGACAACCCT
*
19348549 GTGTTTACTGTCCCAATGGACTACCCT
1 GTGTTTACTGTCCCAATGGACAACCCT
* *
19348576 GTGTTTATTGTCCCAACGGAC
1 GTGTTTACTGTCCCAATGGAC
19348597 CATATTGGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
GTGTTTACTGTCCCAATGGACAACCCT
Found at i:19357889 original size:29 final size:27
Alignment explanation
Indices: 19357841--19357899 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 27
19357831 GACAAAATGT
19357841 TATATTTGAAATATTATTTGGAATAAATA
1 TATATTTGAAATATTATTT-GAA-AAATA
*
19357870 TATATTTGAAAT-TTCGTTTGAAAAATA
1 TATATTTGAAATATT-ATTTGAAAAATA
19357897 TAT
1 TAT
19357900 TAGATAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 8 0.29
28 5 0.18
29 15 0.54
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (27 bp):
TATATTTGAAATATTATTTGAAAAATA
Found at i:19360400 original size:17 final size:17
Alignment explanation
Indices: 19360378--19360411 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19360368 GGTGAAGTTG
19360378 CTCACATTCACTAACTT
1 CTCACATTCACTAACTT
19360395 CTCACATTCACTAACTT
1 CTCACATTCACTAACTT
19360412 AAAAAGTGTA
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:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (17 bp):
CTCACATTCACTAACTT
Found at i:19365949 original size:18 final size:18
Alignment explanation
Indices: 19365911--19365949 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
19365901 TGGTAGTGGT
*
19365911 AGCGGGAGTGGAAGCGGG
1 AGCGGGAGTGGAAGCGAG
* *
19365929 AGCGGGAGTGGGAGTGAG
1 AGCGGGAGTGGAAGCGAG
19365947 AGC
1 AGC
19365950 AGTAGTGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.10, G:0.59, T:0.08
Consensus pattern (18 bp):
AGCGGGAGTGGAAGCGAG
Found at i:19370299 original size:6 final size:6
Alignment explanation
Indices: 19370288--19370325 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
19370278 TTTATCAAAC
19370288 GGATTG GGATTG GGATTG GGATTG GGATTG GGATTG GG
1 GGATTG GGATTG GGATTG GGATTG GGATTG GGATTG GG
19370326 GAAAGATAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.16, C:0.00, G:0.53, T:0.32
Consensus pattern (6 bp):
GGATTG
Found at i:19370348 original size:6 final size:6
Alignment explanation
Indices: 19370337--19370363 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
19370327 AAAGATAGTA
19370337 TATGTG TATGTG TATGTG TATGTG TAT
1 TATGTG TATGTG TATGTG TATGTG TAT
19370364 ACAGTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.52
Consensus pattern (6 bp):
TATGTG
Found at i:19373174 original size:42 final size:42
Alignment explanation
Indices: 19373109--19373264 Score: 169
Period size: 42 Copynumber: 3.7 Consensus size: 42
19373099 AAATCGTACA
*
19373109 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
*
19373151 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATC-AATATCG
* * *
19373193 ATGCCGATGTCCCAGACATGGTCTTATACAT-AAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTC-T-TACATGAAA--TCAATATCG
19373237 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
19373265 CGATAACATA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 51 0.53
43 14 0.15
44 27 0.28
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAATATCG
Found at i:19375835 original size:2 final size:2
Alignment explanation
Indices: 19375828--19375858 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19375818 CGTCACCAAA
19375828 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
19375859 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:19376309 original size:12 final size:12
Alignment explanation
Indices: 19376292--19376319 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19376282 CATTTTGAAT
19376292 ATCACATTTTCA
1 ATCACATTTTCA
19376304 ATCACATTTTCA
1 ATCACATTTTCA
19376316 ATCA
1 ATCA
19376320 ATGGATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (12 bp):
ATCACATTTTCA
Found at i:19384526 original size:6 final size:6
Alignment explanation
Indices: 19384515--19384553 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
19384505 GCTTTACGTT
19384515 CTTTTG CTTTTG CTTTTG CTTTTG CTTTTG CTTTTG CTT
1 CTTTTG CTTTTG CTTTTG CTTTTG CTTTTG CTTTTG CTT
19384554 CAAACTTCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.18, G:0.15, T:0.67
Consensus pattern (6 bp):
CTTTTG
Found at i:19384911 original size:15 final size:16
Alignment explanation
Indices: 19384884--19384913 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19384874 TCAGTCATAA
19384884 TAATTTAAATATAAAG
1 TAATTTAAATATAAAG
19384900 TAATTT-AATATAAA
1 TAATTTAAATATAAA
19384914 ATTAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
TAATTTAAATATAAAG
Found at i:19387208 original size:31 final size:31
Alignment explanation
Indices: 19387170--19387233 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
19387160 AACAAGAATG
19387170 ATAGTCTGCTGCAAGATATATTCCCATTATT
1 ATAGTCTGCTGCAAGATATATTCCCATTATT
19387201 ATAGTCTGCTGCAAGATATATTCCCATTATT
1 ATAGTCTGCTGCAAGATATATTCCCATTATT
19387232 AT
1 AT
19387234 GATTAAGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (31 bp):
ATAGTCTGCTGCAAGATATATTCCCATTATT
Found at i:19391500 original size:95 final size:97
Alignment explanation
Indices: 19391301--19391501 Score: 255
Period size: 95 Copynumber: 2.1 Consensus size: 97
19391291 TCTTCCTCGG
19391301 TGGTTTTTGCCAACAATCGCTAAATCCCCTTGGGACTACTTATCCATACACATTGCAGCAGTAAC
1 TGGTTTTTGCCAACAATCGCTAAATCCCCTTGGGAC-AC---TCCATACACATTGCAGCAGTAAC
* *
19391366 CCAAAACCCGGTACTGAAGAACCACTGAAAAAAGGA
62 CCAAAACCAGGTACTGAAGAACCACTGAAAAAAAGA
* * *
19391402 TGGTTTTTGCCAACAATCGCTAAATCCCCTTGGGAC-C-CCATGCATATTGCAGGAGTAACCCAA
1 TGGTTTTTGCCAACAATCGCTAAATCCCCTTGGGACACTCCATACACATTGCAGCAGTAACCC-A
* * * *
19391465 AAACCAGTTA-TGCAGAACCATTGAAAAAAATA
65 AAACCAGGTACTGAAGAACCACTGAAAAAAAGA
19391497 TGGTT
1 TGGTT
19391502 ACAACTCAGC
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
95 44 0.49
96 9 0.10
99 1 0.01
101 36 0.40
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.23
Consensus pattern (97 bp):
TGGTTTTTGCCAACAATCGCTAAATCCCCTTGGGACACTCCATACACATTGCAGCAGTAACCCAA
AACCAGGTACTGAAGAACCACTGAAAAAAAGA
Found at i:19404115 original size:15 final size:15
Alignment explanation
Indices: 19404095--19404130 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
19404085 TTTTTTAAAG
19404095 AAAAATGAATATTAT
1 AAAAATGAATATTAT
*
19404110 AAAAATGAATGTTAT
1 AAAAATGAATATTAT
19404125 AAAAAT
1 AAAAAT
19404131 ATTAATTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (15 bp):
AAAAATGAATATTAT
Found at i:19405044 original size:31 final size:32
Alignment explanation
Indices: 19405003--19405069 Score: 93
Period size: 31 Copynumber: 2.1 Consensus size: 32
19404993 TTACTTTCCT
* *
19405003 CCCAATACTTTTACTCCC-TCCTACTCCC-CCC
1 CCCAAAACTTTTACTCCCATCCCA-TCCCACCC
19405034 CCCAAAACTTTTACTCCCATCCCATCCCACCC
1 CCCAAAACTTTTACTCCCATCCCATCCCACCC
19405066 CCCA
1 CCCA
19405070 TCTACCCCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 21 0.66
32 11 0.34
ACGTcount: A:0.21, C:0.55, G:0.00, T:0.24
Consensus pattern (32 bp):
CCCAAAACTTTTACTCCCATCCCATCCCACCC
Found at i:19410434 original size:14 final size:14
Alignment explanation
Indices: 19410415--19410442 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19410405 GATAAAATTC
19410415 TTTTATTTTATTTA
1 TTTTATTTTATTTA
19410429 TTTTATTTTATTTA
1 TTTTATTTTATTTA
19410443 AATAAATACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:19413993 original size:41 final size:41
Alignment explanation
Indices: 19413930--19414125 Score: 313
Period size: 41 Copynumber: 4.8 Consensus size: 41
19413920 TTTGGGGAGC
*
19413930 TTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGA
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
*
19413971 TTTAGCGGCGTTTTGT-TTTAAGCGCCACTAATGTTCTGGGA
1 TTTAGCGGCGTTTT-TATTTAAGCGCCGCTAATGTTCTGGGA
19414012 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
* * *
19414053 TTTAGTGGCGTTTTTAATTAAGCGCCGCTAATGTTCTGGGC
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
* *
19414094 TTTAGCGGCGTTTTTATTGATGCGCCGCTAAT
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAAT
19414126 TCGCAAGCCT
Statistics
Matches: 143, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.01
41 141 0.99
42 1 0.01
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.39
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
Found at i:19414179 original size:123 final size:123
Alignment explanation
Indices: 19413930--19414190 Score: 271
Period size: 123 Copynumber: 2.1 Consensus size: 123
19413920 TTTGGGGAGC
* *
19413930 TTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGATTTAGCGGCGTTTTGTTTTAAGCG
1 TTTAGTGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGATTTAGCGGCGTTTTGTTTGAAGCG
* ** * ** * * ** *
19413995 CCACTAATGTTCTGGGATTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
66 CCACTAATGTGCAAGCATTTAGCGGCGTTTTTATAAAAACACCGCTAATACTCTGGCA
* *
19414053 TTTAGTGGCGTTTTTAAT-TAAGCGCCGCTAATGTTCTGGGCTTTAGCGGCGTTTT-TATTGATG
1 TTTAGTGGCGTTTTT-ATGTAAGCGCCGCTAATGTTCTGGGATTTAGCGGCGTTTTGT-TTGAAG
* * *
19414116 CGCCGCTAAT-TCGCAAGCCTTTAGCGGCGCTTTTT-TAAAAAACACCGCTAATACTCT-TCA
64 CGCCACTAATGT-GCAAGCATTTAGCGGCG-TTTTTAT-AAAAACACCGCTAATACTCTGGCA
*
19414176 TTTAGTGGCATTTTT
1 TTTAGTGGCGTTTTT
19414191 GGAAAGAGCC
Statistics
Matches: 114, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
122 2 0.02
123 91 0.80
124 21 0.18
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (123 bp):
TTTAGTGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGATTTAGCGGCGTTTTGTTTGAAGCG
CCACTAATGTGCAAGCATTTAGCGGCGTTTTTATAAAAACACCGCTAATACTCTGGCA
Found at i:19414586 original size:16 final size:16
Alignment explanation
Indices: 19414565--19414634 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
19414555 CTATAGTATG
19414565 TAGTTTAAGGGTTTTA
1 TAGTTTAAGGGTTTTA
*
19414581 TAGTTTAA-GGTTTAA
1 TAGTTTAAGGGTTTTA
** * *
19414596 T-GTTTACTATAG-TATG
1 TAGTTTA--AGGGTTTTA
19414612 TAGTTTAAGGGTTTTA
1 TAGTTTAAGGGTTTTA
19414628 TAGTTTA
1 TAGTTTA
19414635 TGGTTTAGGG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
14 5 0.12
15 9 0.22
16 20 0.50
17 6 0.15
ACGTcount: A:0.27, C:0.01, G:0.21, T:0.50
Consensus pattern (16 bp):
TAGTTTAAGGGTTTTA
Found at i:19414593 original size:23 final size:23
Alignment explanation
Indices: 19414567--19414647 Score: 80
Period size: 23 Copynumber: 3.5 Consensus size: 23
19414557 ATAGTATGTA
19414567 GTTTAAGGGTTTTATAGTTTAAG
1 GTTTAAGGGTTTTATAGTTTAAG
*
19414590 GTTTAA-TGTTTACTATAGTATGT-A-
1 GTTTAAGGGTTT--TATAGT-T-TAAG
*
19414614 GTTTAAGGGTTTTATAGTTTATG
1 GTTTAAGGGTTTTATAGTTTAAG
19414637 GTTT-AGGGTTT
1 GTTTAAGGGTTT
19414648 GTTATATTGG
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
21 1 0.02
22 12 0.25
23 16 0.33
24 12 0.25
25 6 0.12
26 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.51
Consensus pattern (23 bp):
GTTTAAGGGTTTTATAGTTTAAG
Found at i:19414683 original size:22 final size:21
Alignment explanation
Indices: 19414658--19414698 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
19414648 GTTATATTGG
19414658 GTTTGTGA-TTTAGTGTTTTAAA
1 GTTTG-GAGTTTAGT-TTTTAAA
19414680 GTTTGGAGTTTAGTTTTTA
1 GTTTGGAGTTTAGTTTTTA
19414699 TAGTCAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (21 bp):
GTTTGGAGTTTAGTTTTTAAA
Found at i:19418107 original size:66 final size:66
Alignment explanation
Indices: 19418037--19418172 Score: 227
Period size: 66 Copynumber: 2.1 Consensus size: 66
19418027 GACCACAGTT
* * *
19418037 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAGAGCAGATGCGGCAGCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
19418102 A
66 A
* *
19418103 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCTGATGCGGCATCCAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
19418168 A
66 A
19418169 GAGG
1 GAGG
19418173 CTGCAGCGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.14
Consensus pattern (66 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
A
Found at i:19418525 original size:43 final size:43
Alignment explanation
Indices: 19418472--19418609 Score: 163
Period size: 43 Copynumber: 3.2 Consensus size: 43
19418462 AACCCCAAAA
* *
19418472 TTAGTGGCGTTTGTGAAAAAAGCGCCACTAAAGAACAT-TAGCT
1 TTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGAACATGT-GCT
** * *
19418515 TTAGCGGCGTTTGTGTTAGAAGCGCCGCTAAAGAACATGTTCT
1 TTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGAACATGTGCT
* *
19418558 TTAGCGGCGTTTGT-ATAAAATGCGCCGCTAAAGAACATGTTCT
1 TTAGCGGCGTTTGTGA-AAAAAGCGCCGCTAAAGAACATGTGCT
*
19418601 TTAGTGGCG
1 TTAGCGGCG
19418610 CTTTTAAAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
43 81 0.99
44 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGAACATGTGCT
Found at i:19419155 original size:30 final size:29
Alignment explanation
Indices: 19419121--19419188 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
19419111 GTTAAGAAAA
* *
19419121 CAATTTAACTTTTTTTGAAAGATTGATGGT
1 CAATTTAAC-TTTTTTAAAAGATTGAAGGT
*
19419151 CAATTCAACTTTTTTAAAAGATTGAAGGT
1 CAATTTAACTTTTTTAAAAGATTGAAGGT
19419180 CAAATTTAA
1 C-AATTTAA
19419189 TTAAGAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.58
30 14 0.42
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (29 bp):
CAATTTAACTTTTTTAAAAGATTGAAGGT
Found at i:19419666 original size:6 final size:7
Alignment explanation
Indices: 19419648--19419672 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
19419638 CTAAATTTTT
19419648 TAAAAAA
1 TAAAAAA
19419655 TAAAAAA
1 TAAAAAA
19419662 TAAAAAA
1 TAAAAAA
19419669 TAAA
1 TAAA
19419673 TTTTAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAAAAA
Found at i:19421044 original size:18 final size:19
Alignment explanation
Indices: 19421023--19421060 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
19421013 TTAATATATA
*
19421023 TTATAAATTTA-ATTAAAT
1 TTATAAAATTATATTAAAT
19421041 TTATAAAATTATATTAAAT
1 TTATAAAATTATATTAAAT
19421060 T
1 T
19421061 ATGTCAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTATAAAATTATATTAAAT
Found at i:19421254 original size:15 final size:16
Alignment explanation
Indices: 19421234--19421267 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
19421224 ACGTGTTTCT
*
19421234 TATTTTTCATATA-TA
1 TATTTTTAATATACTA
19421249 TATTTTTAATATACTA
1 TATTTTTAATATACTA
19421265 TAT
1 TAT
19421268 AGGGCACTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTTTTAATATACTA
Found at i:19433004 original size:34 final size:35
Alignment explanation
Indices: 19432960--19433026 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
19432950 CAGTAAAATA
*
19432960 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
19432994 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
19433027 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:19446918 original size:15 final size:14
Alignment explanation
Indices: 19446898--19446995 Score: 58
Period size: 15 Copynumber: 6.7 Consensus size: 14
19446888 GGTTTTAAAG
19446898 TTAAGGTTTCAAGGT
1 TTAAGGTTT-AAGGT
19446913 TTAAGGTTTTTAA-GT
1 TTAAGG--TTTAAGGT
*
19446928 TTAGGGTTTAAGGTTT
1 TTAAGGTTTAAGG--T
*
19446944 TTAA-GTTTAGGGT
1 TTAAGGTTTAAGGT
**
19446957 TTGTGGTTTTTAA-GT
1 TTAAGG--TTTAAGGT
*
19446972 TTAGGGTTTAAGGT
1 TTAAGGTTTAAGGT
*
19446986 TTTAGGTTTA
1 TTAAGGTTTA
19446996 CGATTTTTAG
Statistics
Matches: 64, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
13 13 0.20
14 12 0.19
15 26 0.41
16 10 0.16
17 3 0.05
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.50
Consensus pattern (14 bp):
TTAAGGTTTAAGGT
Found at i:19446920 original size:7 final size:7
Alignment explanation
Indices: 19446898--19446995 Score: 58
Period size: 7 Copynumber: 13.4 Consensus size: 7
19446888 GGTTTTAAAG
19446898 TTAAGGT
1 TTAAGGT
19446905 TTCAAGGT
1 TT-AAGGT
19446913 TTAAGGTTT
1 TTAAGG--T
19446922 TTAA-GT
1 TTAAGGT
*
19446928 TTAGGGT
1 TTAAGGT
19446935 TTAAGGTTT
1 TTAAGG--T
19446944 TTAA-GT
1 TTAAGGT
*
19446950 TTAGGGT
1 TTAAGGT
**
19446957 TTGTGGTTT
1 TTAAGG--T
19446966 TTAA-GT
1 TTAAGGT
*
19446972 TTAGGGT
1 TTAAGGT
19446979 TTAAGGT
1 TTAAGGT
*
19446986 TTTAGGT
1 TTAAGGT
19446993 TTA
1 TTA
19446996 CGATTTTTAG
Statistics
Matches: 70, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
6 12 0.17
7 35 0.50
8 10 0.14
9 13 0.19
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.50
Consensus pattern (7 bp):
TTAAGGT
Found at i:19446920 original size:29 final size:29
Alignment explanation
Indices: 19446877--19446943 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
19446867 TATATTTAAC
* *
19446877 TTAAGGGTTAGGGTTTTAAAG-TTAAGGT
1 TTAAGGTTTAAGGTTTTAAAGTTTAAGGT
* *
19446905 TTCAAGGTTTAAGGTTTTTAAGTTTAGGGT
1 TT-AAGGTTTAAGGTTTTAAAGTTTAAGGT
19446935 TTAAGGTTT
1 TTAAGGTTT
19446944 TTAAGTTTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 2 0.06
29 23 0.70
30 8 0.24
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.45
Consensus pattern (29 bp):
TTAAGGTTTAAGGTTTTAAAGTTTAAGGT
Found at i:19446932 original size:44 final size:43
Alignment explanation
Indices: 19446884--19447149 Score: 115
Period size: 44 Copynumber: 6.2 Consensus size: 43
19446874 AACTTAAGGG
19446884 TTAGGGTTTTAAAG-TTAAGGTTTCAAGGTTTAAGGTTTTTAAGT
1 TTAGGGTTTTAAAGTTTAA-GTTT-AAGGTTTAAGGTTTTTAAGT
* * **
19446928 TTAGGG-TTTAAGGTTTTTAAGTTTAGGGTTTGTGGTTTTTAAGT
1 TTAGGGTTTTAAAG--TTTAAGTTTAAGGTTTAAGGTTTTTAAGT
* * * *
19446972 TTAGGG-TTT-AAG-----GTTTTAGGTTTACGATTTTTAGGT
1 TTAGGGTTTTAAAGTTTAAGTTTAAGGTTTAAGGTTTTTAAGT
* * ** *
19447008 TTATGGTTTGTGATTTTTAAGTTTAGGGTTTAAGGTTTTT-AGAT
1 TTAGGGTTT-TAAAGTTTAAGTTTAAGGTTTAAGGTTTTTAAG-T
**** * * *
19447052 TTAGGGTTTGTGTTTTTTAAG-TTAACAGTTTAGGGTTTTTAGGT
1 TTAGGGTTT-TAAAGTTTAAGTTTAA-GGTTTAAGGTTTTTAAGT
* **** * *
19447096 TTAGTGTTTGTGGTTTTTAAGTTTAGGGTTTATA-ATTTTTAAGT
1 TTAGGGTTT-TAAAGTTTAAGTTTAAGGTTTA-AGGTTTTTAAGT
19447140 TTAGGGTTTT
1 TTAGGGTTTT
19447150 GTGTTTTTTA
Statistics
Matches: 173, Mismatches: 33, Indels: 33
0.72 0.14 0.14
Matches are distributed among these distances:
36 23 0.13
37 2 0.01
38 1 0.01
39 1 0.01
43 13 0.08
44 121 0.70
45 8 0.05
46 4 0.02
ACGTcount: A:0.20, C:0.01, G:0.26, T:0.52
Consensus pattern (43 bp):
TTAGGGTTTTAAAGTTTAAGTTTAAGGTTTAAGGTTTTTAAGT
Found at i:19446935 original size:22 final size:22
Alignment explanation
Indices: 19446910--19446988 Score: 140
Period size: 22 Copynumber: 3.6 Consensus size: 22
19446900 AAGGTTTCAA
19446910 GGTTTAAGGTTTTTAAGTTTAG
1 GGTTTAAGGTTTTTAAGTTTAG
19446932 GGTTTAAGGTTTTTAAGTTTAG
1 GGTTTAAGGTTTTTAAGTTTAG
**
19446954 GGTTTGTGGTTTTTAAGTTTAG
1 GGTTTAAGGTTTTTAAGTTTAG
19446976 GGTTTAAGGTTTT
1 GGTTTAAGGTTTT
19446989 AGGTTTACGA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (22 bp):
GGTTTAAGGTTTTTAAGTTTAG
Found at i:19446980 original size:66 final size:66
Alignment explanation
Indices: 19446910--19447181 Score: 255
Period size: 66 Copynumber: 4.2 Consensus size: 66
19446900 AAGGTTTCAA
*
19446910 GGTTTAAGGTTTTTAAGTTTAGGGTTTAAGGTTTTTAAGTTTAGGGTTTGTGGTTTTTAAGTTTA
1 GGTTTAAGGTTTTTAAGTTTAGGGTTTAAGATTTTTAAGTTTAGGGTTTGTGGTTTTTAAGTTTA
19446975 G
66 G
* * * *
19446976 GGTTTAAGG----T---TTTA-GGTTTACGATTTTTAGGTTTATGGTTTGTGATTTTTAAGTTTA
1 GGTTTAAGGTTTTTAAGTTTAGGGTTTAAGATTTTTAAGTTTAGGGTTTGTGGTTTTTAAGTTTA
19447033 G
66 G
** * * ** *
19447034 GGTTTAAGGTTTTT-AGATTTAGGGTTTGTGTTTTTTAAGTTAACAGTTTAG-GGTTTTTAGGTT
1 GGTTTAAGGTTTTTAAG-TTTAGGGTTTAAGATTTTTAAGTTTAGGGTTT-GTGGTTTTTAAGTT
19447097 TAG
64 TAG
* ** *
19447100 TGTTTGTGGTTTTTAAGTTTAGGGTTTATA-ATTTTTAAGTTTAGGGTTTTGTGTTTTTTAA-TT
1 GGTTTAAGGTTTTTAAGTTTAGGGTTTA-AGATTTTTAAGTTTAGGG-TTTGTGGTTTTTAAGTT
19447163 TAAG
64 T-AG
19447167 GGTTT-AGGATTTTTA
1 GGTTTAAGG-TTTTTA
19447182 TTTTTAGGAT
Statistics
Matches: 164, Mismatches: 27, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
58 48 0.29
59 4 0.02
62 2 0.01
65 4 0.02
66 81 0.49
67 25 0.15
ACGTcount: A:0.19, C:0.01, G:0.26, T:0.54
Consensus pattern (66 bp):
GGTTTAAGGTTTTTAAGTTTAGGGTTTAAGATTTTTAAGTTTAGGGTTTGTGGTTTTTAAGTTTA
G
Found at i:19446993 original size:51 final size:51
Alignment explanation
Indices: 19446921--19447164 Score: 148
Period size: 51 Copynumber: 5.1 Consensus size: 51
19446911 GTTTAAGGTT
*
19446921 TTTA-AGTTTAGGGTTTAAGGTTTTTAAGTTTAGGGTTTGTGGTTTTTAAG
1 TTTAGAGTTTAAGGTTTAAGGTTTTTAAGTTTAGGGTTTGTGGTTTTTAAG
* * ** ** * * **
19446971 TTTAGGGTTTAAGGTTTTAGGTTTACGATTTTTA-GGTTTATGGTTTGTGATT
1 TTTAGAGTTTAAGGTTTAAGGTTT-TTAAGTTTAGGGTTTGTGGTTT-TTAAG
* *
19447023 TTTA-AGTTTAGGGTTTAAGGTTTTT-AGATTTAGGGTTTGTGTTTTTTAAG
1 TTTAGAGTTTAAGGTTTAAGGTTTTTAAG-TTTAGGGTTTGTGGTTTTTAAG
* * * *
19447073 -TTA-A----CA-GTTTAGGGTTTTTAGGTTTAGTGTTTGTGGTTTTTAAG
1 TTTAGAGTTTAAGGTTTAAGGTTTTTAAGTTTAGGGTTTGTGGTTTTTAAG
* *
19447117 TTTAGGGTTT-A----TAA--TTTTTAAGTTTAGGGTTTTGTGTTTTTTAA-
1 TTTAGAGTTTAAGGTTTAAGGTTTTTAAGTTTAGGG-TTTGTGGTTTTTAAG
19447161 TTTA
1 TTTA
19447165 AGGGTTTAGG
Statistics
Matches: 147, Mismatches: 34, Indels: 32
0.69 0.16 0.15
Matches are distributed among these distances:
44 49 0.33
45 17 0.12
46 2 0.01
49 5 0.03
50 10 0.07
51 53 0.36
52 11 0.07
ACGTcount: A:0.19, C:0.01, G:0.25, T:0.55
Consensus pattern (51 bp):
TTTAGAGTTTAAGGTTTAAGGTTTTTAAGTTTAGGGTTTGTGGTTTTTAAG
Found at i:19447016 original size:58 final size:59
Alignment explanation
Indices: 19446927--19447046 Score: 188
Period size: 58 Copynumber: 2.1 Consensus size: 59
19446917 GGTTTTTAAG
* *
19446927 TTTAGGGTTTAAGGTTTTTAAGTTTAGGGTTTGTGGTTTTTAAGTTTAGGGTTTAAGGT
1 TTTAGGGTTTAAGATTTTTAAGTTTAGGGTTTGTGATTTTTAAGTTTAGGGTTTAAGGT
* * *
19446986 TTTA-GGTTTACGATTTTTAGGTTTATGGTTTGTGATTTTTAAGTTTAGGGTTTAAGGT
1 TTTAGGGTTTAAGATTTTTAAGTTTAGGGTTTGTGATTTTTAAGTTTAGGGTTTAAGGT
19447044 TTT
1 TTT
19447047 TAGATTTAGG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 52 0.93
59 4 0.07
ACGTcount: A:0.18, C:0.01, G:0.28, T:0.53
Consensus pattern (59 bp):
TTTAGGGTTTAAGATTTTTAAGTTTAGGGTTTGTGATTTTTAAGTTTAGGGTTTAAGGT
Found at i:19447156 original size:22 final size:22
Alignment explanation
Indices: 19446999--19447171 Score: 117
Period size: 22 Copynumber: 7.8 Consensus size: 22
19446989 AGGTTTACGA
* *
19446999 TTTTTAGGTTTATGG-TTTGTG
1 TTTTTAAGTTTAGGGTTTTGTG
*
19447020 ATTTTTAAGTTTAGGGTTTAAG-G
1 -TTTTTAAGTTTAGGGTTT-TGTG
19447043 TTTTT-AGATTTAGGG-TTTGTG
1 TTTTTAAG-TTTAGGGTTTTGTG
* ** * *
19447064 TTTTTTAAGTTAACAGTTTAGGG
1 -TTTTTAAGTTTAGGGTTTTGTG
* *
19447087 TTTTTAGGTTTAGTG-TTTGTGG
1 TTTTTAAGTTTAGGGTTTTGT-G
**
19447109 TTTTTAAGTTTAGGGTTTAT-AA
1 TTTTTAAGTTTAGGGTTT-TGTG
19447131 TTTTTAAGTTTAGGGTTTTGTG
1 TTTTTAAGTTTAGGGTTTTGTG
19447153 TTTTTTAA-TTTAAGGGTTT
1 -TTTTTAAGTTT-AGGGTTT
19447172 AGGATTTTTA
Statistics
Matches: 117, Mismatches: 21, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
20 1 0.01
21 9 0.08
22 80 0.68
23 25 0.21
24 2 0.02
ACGTcount: A:0.18, C:0.01, G:0.25, T:0.56
Consensus pattern (22 bp):
TTTTTAAGTTTAGGGTTTTGTG
Found at i:19447156 original size:44 final size:44
Alignment explanation
Indices: 19446986--19447181 Score: 186
Period size: 44 Copynumber: 4.5 Consensus size: 44
19446976 GGTTTAAGGT
* * *
19446986 TTTA-GGTTTACG-ATTTTTAGGTTTATGGTTTGTGATTTTTAAG
1 TTTAGGGTTTA-GAATTTTTAAGTTTAGGGTTTGTGTTTTTTAAG
*
19447029 TTTAGGGTTTA-AGGTTTTT-AGATTTAGGGTTTGTGTTTTTTAAG
1 TTTAGGGTTTAGA-ATTTTTAAG-TTTAGGGTTTGTGTTTTTTAAG
* ** ** * * *
19447073 TTAACAGTTTAGGGTTTTTAGGTTTAGTGTTTGTGGTTTTTAAG
1 TTTAGGGTTTAGAATTTTTAAGTTTAGGGTTTGTGTTTTTTAAG
*
19447117 TTTAGGGTTTATAATTTTTAAGTTTAGGGTTTTGTGTTTTTTAA-
1 TTTAGGGTTTAGAATTTTTAAGTTTAGGG-TTTGTGTTTTTTAAG
*
19447161 TTTAAGGGTTTAGGATTTTTA
1 TTT-AGGGTTTAGAATTTTTA
19447182 TTTTTAGGAT
Statistics
Matches: 123, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
43 5 0.04
44 89 0.72
45 29 0.24
ACGTcount: A:0.19, C:0.01, G:0.24, T:0.55
Consensus pattern (44 bp):
TTTAGGGTTTAGAATTTTTAAGTTTAGGGTTTGTGTTTTTTAAG
Found at i:19447179 original size:23 final size:23
Alignment explanation
Indices: 19446986--19447180 Score: 105
Period size: 22 Copynumber: 8.8 Consensus size: 23
19446976 GGTTTAAGGT
* *
19446986 TTTA-GGTTTACGA-TTTTTAGG
1 TTTAGGGTTTAGGATTTTTTAAG
*
19447007 TTTATGGTTT-GTGA-TTTTTAAG
1 TTTAGGGTTTAG-GATTTTTTAAG
19447029 TTTAGGGTTTAAGG--TTTTT-AG
1 TTTAGGGTTT-AGGATTTTTTAAG
19447050 ATTTAGGGTTT-GTG-TTTTTTAAG
1 -TTTAGGGTTTAG-GATTTTTTAAG
* ** * *
19447073 TTAACAGTTTAGG-GTTTTTAGG
1 TTTAGGGTTTAGGATTTTTTAAG
* *
19447095 TTTAGTGTTT-GTG-GTTTTTAAG
1 TTTAGGGTTTAG-GATTTTTTAAG
* *
19447117 TTTAGGGTTTA-TAATTTTTAAG
1 TTTAGGGTTTAGGATTTTTTAAG
*
19447139 TTTAGGGTTTTGTG-TTTTTTAA-
1 TTTAGGGTTTAG-GATTTTTTAAG
19447161 TTTAAGGGTTTAGGATTTTT
1 TTT-AGGGTTTAGGATTTTT
19447181 ATTTTTAGGA
Statistics
Matches: 139, Mismatches: 19, Indels: 30
0.74 0.10 0.16
Matches are distributed among these distances:
20 1 0.01
21 8 0.06
22 105 0.76
23 24 0.17
24 1 0.01
ACGTcount: A:0.19, C:0.01, G:0.25, T:0.55
Consensus pattern (23 bp):
TTTAGGGTTTAGGATTTTTTAAG
Found at i:19447813 original size:18 final size:18
Alignment explanation
Indices: 19447790--19447827 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
19447780 ACTCGAAAAT
* *
19447790 GATACATATAAGGGTTAG
1 GATACATAAAAGGGCTAG
19447808 GATACATAAAAGGGCTAG
1 GATACATAAAAGGGCTAG
19447826 GA
1 GA
19447828 AACGCACCTG
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:0.42, C:0.08, G:0.29, T:0.21
Consensus pattern (18 bp):
GATACATAAAAGGGCTAG
Found at i:19449598 original size:11 final size:12
Alignment explanation
Indices: 19449582--19449625 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
19449572 ATTAAATATG
19449582 AATTTGAGA-GA
1 AATTTGAGAGGA
19449593 AATTTG-GAAGGA
1 AATTTGAG-AGGA
19449605 AA-TTGAGAGGA
1 AATTTGAGAGGA
19449616 AATTTGAGAG
1 AATTTGAGAG
19449626 AGGATTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 16 0.55
12 12 0.41
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (12 bp):
AATTTGAGAGGA
Found at i:19450592 original size:16 final size:18
Alignment explanation
Indices: 19450566--19450600 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
19450556 TTTAAATAAA
19450566 TAAAATATTAAA-TTATT
1 TAAAATATTAAATTTATT
19450583 TAAAAT-TTAAATTTATT
1 TAAAATATTAAATTTATT
19450600 T
1 T
19450601 TGTAGAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAAATATTAAATTTATT
Found at i:19458744 original size:23 final size:23
Alignment explanation
Indices: 19458714--19458770 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
19458704 ATTTTTGTAC
*
19458714 ATATTTACATATC-TATATATAT
1 ATATTTACATATCATAAATATAT
* *
19458736 GTATTTTAC-TTTCATAAATATAT
1 ATA-TTTACATATCATAAATATAT
19458759 ATATTTACATAT
1 ATATTTACATAT
19458771 TCTTCATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTACATATCATAAATATAT
Found at i:19458807 original size:13 final size:13
Alignment explanation
Indices: 19458786--19458815 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19458776 ATTTTTTAAA
*
19458786 ATATTTATTTTAT
1 ATATGTATTTTAT
19458799 ATATGTATTTTAT
1 ATATGTATTTTAT
19458812 ATAT
1 ATAT
19458816 TATGATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (13 bp):
ATATGTATTTTAT
Found at i:19459473 original size:110 final size:110
Alignment explanation
Indices: 19459270--19459674 Score: 627
Period size: 110 Copynumber: 3.7 Consensus size: 110
19459260 TCAAAAAAGG
*
19459270 AAAATATTTCTAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAA-ATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
19459335 GGGTGTCGATTTTTCTCGTTCAATCAAATGGCTTAATATCCTTCTT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
*
19459381 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTA
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
19459446 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
* * *
19459491 AAAAATTTCAAAATAAGGCAATGTTTTGCATTTGGAAATTTGAGAAAACATGCTCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * * *
19459556 GGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATA-CC-ACTT
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
* * * * *
19459599 CAAAAATTTCAAAATAAGACAATGTTTTGCGTTTGGAAATTTGAG-GAACGTGCCCCAAGGTGCT
1 -AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
*
19459663 GGGTTTCGATTT
65 GGGTGTCGATTT
19459675 CTCGTTTATC
Statistics
Matches: 275, Mismatches: 18, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
108 29 0.11
109 44 0.16
110 198 0.72
111 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (110 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTCTT
Found at i:19460245 original size:12 final size:12
Alignment explanation
Indices: 19460210--19460247 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19460200 AAACAATTCT
19460210 AATTCAACTTCA
1 AATTCAACTTCA
*
19460222 ACTTCAACTTCA
1 AATTCAACTTCA
19460234 AATTCCAA-TTCA
1 AATT-CAACTTCA
19460246 AA
1 AA
19460248 CTATATTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 20 0.87
13 3 0.13
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (12 bp):
AATTCAACTTCA
Found at i:19462551 original size:19 final size:19
Alignment explanation
Indices: 19462499--19462552 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
19462489 ATGATTAAAC
19462499 AATTCAATAATAT--ATAT
1 AATTCAATAATATAAATAT
* * *
19462516 AATACAA-AATGTGAAATTT
1 AATTCAATAATAT-AAATAT
19462535 AATTCAATAATATAAATA
1 AATTCAATAATATAAATA
19462553 GTAGACATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
16 4 0.15
17 6 0.22
19 13 0.48
20 4 0.15
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (19 bp):
AATTCAATAATATAAATAT
Found at i:19462727 original size:73 final size:71
Alignment explanation
Indices: 19462589--19462744 Score: 226
Period size: 71 Copynumber: 2.2 Consensus size: 71
19462579 GAGGTTTGCA
*
19462589 GAAAATAAAAGTTTTTGGGGAAAGTAAAAGGAAAAAATTTGGGGGTTTGAGGGGAGTAAATTTTT
1 GAAAGTAAAAGTTTTTGGGGAAAGTAAAAGGAAAAAATTTGGGGGTTTGAGGGGAGTAAATTTTT
19462654 TTAGGG
66 TTAGGG
*
19462660 G-AAGTAAAAG-TTTTGGAGGAAAAGTAAAAGGAAAAAAGTTTTGGGGGTTTGGGGGGAAGTAAA
1 GAAAGTAAAAGTTTTTGG-GG-AAAGTAAAAGGAAAAAA--TTTGGGGGTTTGAGGGG-AGTAAA
*
19462723 TTTTTTTGGGG
61 TTTTTTTAGGG
19462734 GAAAGTAAAAG
1 GAAAGTAAAAG
19462745 GGTTTGAGGA
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
69 6 0.08
70 10 0.13
71 18 0.24
73 16 0.21
74 17 0.22
75 9 0.12
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (71 bp):
GAAAGTAAAAGTTTTTGGGGAAAGTAAAAGGAAAAAATTTGGGGGTTTGAGGGGAGTAAATTTTT
TTAGGG
Found at i:19472314 original size:42 final size:41
Alignment explanation
Indices: 19472246--19472414 Score: 151
Period size: 42 Copynumber: 4.0 Consensus size: 41
19472236 TCTCATGAGC
* * * *
19472246 TTCAGTT-AACTCATATGAGTTTTAGTTAAACCCTTCTGGGT
1 TTCAGTTCAGCTCTTATGAGCTTTAGTT-AACCCTTATGGGT
* * *
19472287 TTCAGTTCACCTCTTTTGAGCTTTAGTTTAACCCTAATGGGT
1 TTCAGTTCAGCTCTTATGAGCTTTAG-TTAACCCTTATGGGT
* * * *
19472329 TTCAGTTTAGCTCTTCTAAGCTTCAGATTAACCCTTATGGGT
1 TTCAGTTCAGCTCTTATGAGCTTTAG-TTAACCCTTATGGGT
* * ** *
19472371 TTCCGTTCAGCTCCTATGAGCTTCCGTTCAACCCTTACGGGT
1 TTCAGTTCAGCTCTTATGAGCTTTAGTT-AACCCTTATGGGT
19472413 TT
1 TT
19472415 TCGTTTAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
41 9 0.09
42 94 0.90
43 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (41 bp):
TTCAGTTCAGCTCTTATGAGCTTTAGTTAACCCTTATGGGT
Found at i:19472438 original size:84 final size:84
Alignment explanation
Indices: 19472274--19472429 Score: 188
Period size: 84 Copynumber: 1.9 Consensus size: 84
19472264 GTTTTAGTTA
* * * * * *
19472274 AACCCTTCTGGGTTTCAGTTCACCTCTTTTGAGCTTTAGTTTAACCCTAATGGGTTTCAGTTTAG
1 AACCCTTATGGGTTTCAGTTCACCTCCTATGAGCTTCAGTTCAACCCTAACGGGTTTCAGTTTAG
* *
19472339 CTCTTCTAAGCTTCAGATT
66 CACTTATAAGCTTCAGATT
* * * *
19472358 AACCCTTATGGGTTTCCGTTCAGCTCCTATGAGCTTCCGTTCAACCCTTACGGGTTTTC-GTTTA
1 AACCCTTATGGGTTTCAGTTCACCTCCTATGAGCTTCAGTTCAACCCTAACGGG-TTTCAGTTTA
19472422 GCACTTAT
65 GCACTTAT
19472430 GTACTTCAGT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
84 55 0.93
85 4 0.07
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (84 bp):
AACCCTTATGGGTTTCAGTTCACCTCCTATGAGCTTCAGTTCAACCCTAACGGGTTTCAGTTTAG
CACTTATAAGCTTCAGATT
Found at i:19474258 original size:36 final size:38
Alignment explanation
Indices: 19474166--19474301 Score: 132
Period size: 38 Copynumber: 3.6 Consensus size: 38
19474156 ATACACCAGT
* *
19474166 TTGGCACCCAGTGCCTCATCAGATAATTCGAAGTAATA
1 TTGGCACCCAGTGCCTCATCGGATAATCCGAAGTAATA
* * * *
19474204 ATGTCACCCAGTGTCTCATCGGCTAA-CCGAAGTAA-A
1 TTGGCACCCAGTGCCTCATCGGATAATCCGAAGTAATA
* * *
19474240 TTGGCACCCAATGCCTCATCGAATATATTCGAAGTAATAAA
1 TTGGCACCCAGTGCCTCATCGGATA-ATCCGAAGTAAT--A
* *
19474281 TTGACACCCAGTGTCTCATCG
1 TTGGCACCCAGTGCCTCATCG
19474302 ACTCGAAGTC
Statistics
Matches: 77, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
36 20 0.26
37 9 0.12
38 29 0.38
41 19 0.25
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (38 bp):
TTGGCACCCAGTGCCTCATCGGATAATCCGAAGTAATA
Found at i:19474309 original size:74 final size:72
Alignment explanation
Indices: 19474166--19474310 Score: 195
Period size: 74 Copynumber: 2.0 Consensus size: 72
19474156 ATACACCAGT
* * *
19474166 TTGGCACCCAGTGCCTCATCAGATAATTCGAAGTAATAATGTCACCCAGTGTCTCATCGGCTAAC
1 TTGGCACCCAATGCCTCATCAGATAATTCGAAGTAATAATGACACCCAGTGTCTCATCGACT-A-
19474231 CGAAGTAAA
64 CGAAGTAAA
19474240 TTGGCACCCAATGCCTCATC-GAATATATTCGAAGTAATAAATTGACACCCAGTGTCTCATCGAC
1 TTGGCACCCAATGCCTCATCAG-ATA-ATTCGAAGTAAT-AA-TGACACCCAGTGTCTCATCGAC
19474304 T-CGAAGT
62 TACGAAGT
19474311 CGAAGAAATC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
73 1 0.02
74 28 0.44
75 12 0.19
76 2 0.03
77 21 0.33
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (72 bp):
TTGGCACCCAATGCCTCATCAGATAATTCGAAGTAATAATGACACCCAGTGTCTCATCGACTACG
AAGTAAA
Found at i:19477380 original size:21 final size:21
Alignment explanation
Indices: 19477356--19477438 Score: 130
Period size: 21 Copynumber: 4.0 Consensus size: 21
19477346 CGAACATGCC
* *
19477356 AACAGAAGCTCGTGAGAGCTG
1 AACAGAAGCTCATGAGAGCTA
19477377 AACAGAAGCTCATGAGAGCTA
1 AACAGAAGCTCATGAGAGCTA
*
19477398 AACAGAAGCTCATGATAGCTA
1 AACAGAAGCTCATGAGAGCTA
*
19477419 AACAGAAGCTCGTGAGAGCT
1 AACAGAAGCTCATGAGAGCT
19477439 GATGCACCCA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.39, C:0.19, G:0.27, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCATGAGAGCTA
Found at i:19485397 original size:21 final size:21
Alignment explanation
Indices: 19485360--19485433 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
19485350 ACAGAAACCC
* *
19485360 GTAAGAGCT-AAGCAGAAGCTA
1 GTAAGAGCTGAA-TAGAAGCTT
19485381 GTAAGAGCTGAATAGAAGCTT
1 GTAAGAGCTGAATAGAAGCTT
* *
19485402 GTGAGAGTTGAATAGAAGCTT
1 GTAAGAGCTGAATAGAAGCTT
*
19485423 GTGAGAGCTGA
1 GTAAGAGCTGA
19485434 TCCACCCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 45 0.96
22 2 0.04
ACGTcount: A:0.36, C:0.09, G:0.32, T:0.22
Consensus pattern (21 bp):
GTAAGAGCTGAATAGAAGCTT
Found at i:19486801 original size:48 final size:48
Alignment explanation
Indices: 19486743--19486835 Score: 170
Period size: 48 Copynumber: 1.9 Consensus size: 48
19486733 CTTAACTATA
19486743 AAAACGTTAAAATTTTCTAACT-AAACTTTAATACTAACTTAATAAATC
1 AAAACGTTAAAATTTTCTAA-TGAAACTTTAATACTAACTTAATAAATC
19486791 AAAACGTTAAAATTTTCTAATGAAACTTTAATACTAACTTAATAA
1 AAAACGTTAAAATTTTCTAATGAAACTTTAATACTAACTTAATAA
19486836 CACTCCGTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 1 0.02
48 43 0.98
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.35
Consensus pattern (48 bp):
AAAACGTTAAAATTTTCTAATGAAACTTTAATACTAACTTAATAAATC
Found at i:19491255 original size:23 final size:24
Alignment explanation
Indices: 19491229--19491278 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
19491219 TGATTTTTAA
19491229 ATTTTA-AATTATTTAGAGATAAT
1 ATTTTAGAATTATTTAGAGATAAT
* *
19491252 A-TTTAGATTTATTTAGTGATAAT
1 ATTTTAGAATTATTTAGAGATAAT
19491275 ATTT
1 ATTT
19491279 AGGAAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
23 17 0.74
24 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTTAGAATTATTTAGAGATAAT
Found at i:19491279 original size:23 final size:23
Alignment explanation
Indices: 19491237--19491280 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
19491227 AAATTTTAAA
19491237 TTATTTAGAGATAATATTTAGAT
1 TTATTTAGAGATAATATTTAGAT
*
19491260 TTATTTAGTGATAATATTTAG
1 TTATTTAGAGATAATATTTAG
19491281 GAAAAATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (23 bp):
TTATTTAGAGATAATATTTAGAT
Found at i:19493580 original size:43 final size:43
Alignment explanation
Indices: 19493516--19493642 Score: 166
Period size: 43 Copynumber: 2.9 Consensus size: 43
19493506 AGGATTTCCG
19493516 ATATGTGTTATCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
1 ATATGT-TTA-CGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* **
19493561 TTATGTTTACGTGTAAGACC-CTGTCTGGGACAATGGCATCGAT
1 ATATGTTTACGTGTAAGACCAC-GTCTGGGACGTTGGCATCGAT
* * *
19493604 ATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATATGTTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
19493643 TGGACGAGTT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.01
43 61 0.86
44 4 0.06
45 5 0.07
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
ATATGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:19497190 original size:45 final size:45
Alignment explanation
Indices: 19497141--19497263 Score: 194
Period size: 45 Copynumber: 2.7 Consensus size: 45
19497131 ATGCCAGAAA
*
19497141 CGAGTAAGACCATGACTGAAAGACGTTATGGCATCA-ATATTCTAT
1 CGAGTAAGACCATGACTGAAAGACATTATGGCATCACA-ATTCTAT
19497186 CGAGTAAGACCATGACTGAAAGACATTATGGCATCACAATTCTAT
1 CGAGTAAGACCATGACTGAAAGACATTATGGCATCACAATTCTAT
** *
19497231 CGAGTAAGACCATGGTTGAAAGACACTATGGCA
1 CGAGTAAGACCATGACTGAAAGACATTATGGCA
19497264 ACTCGACGAA
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 72 0.99
46 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (45 bp):
CGAGTAAGACCATGACTGAAAGACATTATGGCATCACAATTCTAT
Found at i:19497345 original size:45 final size:47
Alignment explanation
Indices: 19497235--19497357 Score: 169
Period size: 45 Copynumber: 2.6 Consensus size: 47
19497225 TTCTATCGAG
* *
19497235 TAAGACCATGGTTGAAAGACACTATGGCAACTCGACGAAAAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGC-ACTCGAAGAAAAAAATAAA
** *
19497283 TAAGACCATGGTTGAAAGACACTATGGCA-TC-AAGACGAGAATAAA
1 TAAGACCATGGTTGAAAGACACTATGGCACTCGAAGAAAAAAATAAA
*
19497328 TAAGACCATGGTTGAAAGACAATATGGCAC
1 TAAGACCATGGTTGAAAGACACTATGGCAC
19497358 ACTCCGATCA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 37 0.54
46 2 0.03
47 1 0.01
48 28 0.41
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (47 bp):
TAAGACCATGGTTGAAAGACACTATGGCACTCGAAGAAAAAAATAAA
Found at i:19505585 original size:199 final size:200
Alignment explanation
Indices: 19505220--19505686 Score: 785
Period size: 199 Copynumber: 2.3 Consensus size: 200
19505210 CAATTTTATC
* * * *
19505220 TATTTTGAAGGGTACAAATTAAAAATAAAATCACCGTTGCCGGGGATCGAACCCGGGTCACCCGC
1 TATTTTGAAAGGTA-TAA-TAAAATTAAAATCGCCGTTGCCGGGGATCGAACCCGGGTCACCCGC
19505285 GTGACAGGCGGGAATACTTACCACTATACTACAACGACCTCGTTGCAAACTTGCAACAACTAATA
64 GTGACAGGCGGGAATACTTACCACTATACTACAACGACCTCGTTGCAAACTTGCAACAACTAATA
**
19505350 TTTTAAAACAATATAAATATGCATAAGTTTATTACATTTCCGGGAACAAAAATAAGTTGGCTGTC
129 TTTTAAAACAATATAAATATGCATAAGTTTATTACATTTCAAGGAACAAAAATAAGTTGGCTGTC
19505415 TTTTCCA
194 TTTTCCA
19505422 TATTTTGAAAGGT-TAATAAAATTAAAATCGCCGTTGCCGGGGATCGAACCCGGGTCACCCGCGT
1 TATTTTGAAAGGTATAATAAAATTAAAATCGCCGTTGCCGGGGATCGAACCCGGGTCACCCGCGT
* *
19505486 GACAGGCGGGAATACTTACCACTATACTACAACGACCTCGTTGCAAACTTGTAACAACTAATGTT
66 GACAGGCGGGAATACTTACCACTATACTACAACGACCTCGTTGCAAACTTGCAACAACTAATATT
*
19505551 TTAAAACAATATAAATATGCATAAGTTTATTACATTTCAAGGAACAAAAATAAGTTGGCTGTTTT
131 TTAAAACAATATAAATATGCATAAGTTTATTACATTTCAAGGAACAAAAATAAGTTGGCTGTCTT
*
19505616 TTCCC
196 TTCCA
* * *
19505621 TATTTTGAAAGGTATAATAAGATTAAAATCGCCGTT-CAGGGGATCCAACCCGGGTCACCCGCGT
1 TATTTTGAAAGGTATAATAAAATTAAAATCGCCGTTGCCGGGGATCGAACCCGGGTCACCCGCGT
19505685 GA
66 GA
19505687 ACCCGGATCA
Statistics
Matches: 251, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
199 216 0.86
200 23 0.09
202 12 0.05
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (200 bp):
TATTTTGAAAGGTATAATAAAATTAAAATCGCCGTTGCCGGGGATCGAACCCGGGTCACCCGCGT
GACAGGCGGGAATACTTACCACTATACTACAACGACCTCGTTGCAAACTTGCAACAACTAATATT
TTAAAACAATATAAATATGCATAAGTTTATTACATTTCAAGGAACAAAAATAAGTTGGCTGTCTT
TTCCA
Found at i:19510047 original size:15 final size:15
Alignment explanation
Indices: 19510027--19510056 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
19510017 AATCGGCTAA
19510027 AAAGAGTTTACCTAT
1 AAAGAGTTTACCTAT
19510042 AAAGAGTTTACCTAT
1 AAAGAGTTTACCTAT
19510057 TAAGTGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (15 bp):
AAAGAGTTTACCTAT
Found at i:19510347 original size:19 final size:20
Alignment explanation
Indices: 19510307--19510354 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
19510297 ATTACAAAAT
19510307 AATTCAAAATAAATTTCAAA
1 AATTCAAAATAAATTTCAAA
**
19510327 AATTCAAAAT-AATTTTTAA
1 AATTCAAAATAAATTTCAAA
19510346 AATTCAAAA
1 AATTCAAAA
19510355 CATTTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTCAAAATAAATTTCAAA
Found at i:19510366 original size:19 final size:19
Alignment explanation
Indices: 19510307--19510376 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 19
19510297 ATTACAAAAT
*
19510307 AATTCAAAATAAATTTCAAA
1 AATTCAAAAT-AATTTTAAA
*
19510327 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTTAAA
*
19510346 AATTCAAAA-CATTTATAAAAA
1 AATTCAAAATAATTT-T--AAA
19510367 AATTCAAAAT
1 AATTCAAAAT
19510377 TTATATTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
18 4 0.10
19 17 0.40
20 10 0.24
21 11 0.26
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTCAAAATAATTTTAAA
Found at i:19510402 original size:27 final size:25
Alignment explanation
Indices: 19510356--19510405 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
19510346 AATTCAAAAC
*
19510356 ATTTATAAAAAAATTCAAAATTTAT
1 ATTTATAAAAAAATTAAAAATTTAT
*
19510381 ATTTTTAAAAAAATGATAAAAATTT
1 ATTTATAAAAAAAT--TAAAAATTT
19510406 CAAAAACATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 13 0.62
27 8 0.38
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
ATTTATAAAAAAATTAAAAATTTAT
Found at i:19511842 original size:20 final size:19
Alignment explanation
Indices: 19511793--19511842 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 19
19511783 TATTTATAGT
*
19511793 TTAATTTAATTAAGTTTTA
1 TTAATTTAATTAATTTTTA
*
19511812 --ATTTTAA-TAATTCTTTA
1 TTAATTTAATTAATT-TTTA
19511829 TTAATTTAATTAAT
1 TTAATTTAATTAAT
19511843 GAAACTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 7
0.71 0.09 0.21
Matches are distributed among these distances:
16 4 0.17
17 10 0.42
19 6 0.25
20 4 0.17
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
TTAATTTAATTAATTTTTA
Found at i:19516496 original size:16 final size:15
Alignment explanation
Indices: 19516469--19516498 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
19516459 AAGAAGAGTG
19516469 AGAGAAAAGAGAGAA
1 AGAGAAAAGAGAGAA
19516484 AGAGAAAACGAGAGA
1 AGAGAAAA-GAGAGA
19516499 TATGTGTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.63, C:0.03, G:0.33, T:0.00
Consensus pattern (15 bp):
AGAGAAAAGAGAGAA
Found at i:19520103 original size:18 final size:18
Alignment explanation
Indices: 19520082--19520116 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
19520072 CAAGTATCCA
19520082 ACCCAACCCAACCCAATT
1 ACCCAACCCAACCCAATT
19520100 ACCCAACCCAACCCAAT
1 ACCCAACCCAACCCAAT
19520117 CATAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.51, G:0.00, T:0.09
Consensus pattern (18 bp):
ACCCAACCCAACCCAATT
Found at i:19520105 original size:23 final size:23
Alignment explanation
Indices: 19520056--19520115 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
19520046 TTAACTTCAA
* *
19520056 CAACCCAATCCAAACCCAAGTATC
1 CAACCCAA-CCCAACCCAAGTACC
*
19520080 CAACCCAACCCAACCCAATTACC
1 CAACCCAACCCAACCCAAGTACC
19520103 CAACCCAACCCAA
1 CAACCCAACCCAA
19520116 TCATAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 25 0.76
24 8 0.24
ACGTcount: A:0.42, C:0.48, G:0.02, T:0.08
Consensus pattern (23 bp):
CAACCCAACCCAACCCAAGTACC
Found at i:19522698 original size:9 final size:9
Alignment explanation
Indices: 19522686--19522752 Score: 89
Period size: 9 Copynumber: 7.4 Consensus size: 9
19522676 AAATTAATCA
19522686 AATTAACCG
1 AATTAACCG
* *
19522695 AATTACCCA
1 AATTAACCG
19522704 AATTAACCG
1 AATTAACCG
*
19522713 AATTACCCG
1 AATTAACCG
19522722 AATTAACCG
1 AATTAACCG
*
19522731 AATTACCCG
1 AATTAACCG
*
19522740 AATTAACCA
1 AATTAACCG
19522749 AATT
1 AATT
19522753 GAATCACTAC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 49 1.00
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:19522698 original size:18 final size:18
Alignment explanation
Indices: 19522684--19522752 Score: 111
Period size: 18 Copynumber: 3.8 Consensus size: 18
19522674 AAAAATTAAT
19522684 CAAATTAACCGAATTACC
1 CAAATTAACCGAATTACC
19522702 CAAATTAACCGAATTACC
1 CAAATTAACCGAATTACC
*
19522720 CGAATTAACCGAATTACC
1 CAAATTAACCGAATTACC
* *
19522738 CGAATTAACCAAATT
1 CAAATTAACCGAATT
19522753 GAATCACTAC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.23
Consensus pattern (18 bp):
CAAATTAACCGAATTACC
Found at i:19522706 original size:27 final size:27
Alignment explanation
Indices: 19522676--19522752 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 27
19522666 TTTTGGTTAA
* *
19522676 AAATTAATCAAATTAACCGAATTACCC
1 AAATTAACCAAATTAACCGAATTAACC
* *
19522703 AAATTAACCGAATTACCCGAATTAACC
1 AAATTAACCAAATTAACCGAATTAACC
* * * *
19522730 GAATTACCCGAATTAACCAAATT
1 AAATTAACCAAATTAACCGAATT
19522753 GAATCACTAC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.25
Consensus pattern (27 bp):
AAATTAACCAAATTAACCGAATTAACC
Found at i:19524709 original size:20 final size:20
Alignment explanation
Indices: 19524684--19524721 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
19524674 AAAAATTCAA
19524684 AAAAATATAAAAAT-ATTTTT
1 AAAAAT-TAAAAATCATTTTT
19524704 AAAAATTAAAAATCATTT
1 AAAAATTAAAAATCATTT
19524722 AAATTATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAATTAAAAATCATTTTT
Done.