Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 264 of 362
Found at i:89051406 original size:16 final size:16
Alignment explanation
Indices: 89051382--89051414 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
89051372 ATTTTTTTTG
*
89051382 AAAACACAGAAATTAA
1 AAAAAACAGAAATTAA
89051398 AAAAAACAGAAATTAA
1 AAAAAACAGAAATTAA
89051414 A
1 A
89051415 CAGAATTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.73, C:0.09, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAAAACAGAAATTAA
Found at i:89051563 original size:85 final size:86
Alignment explanation
Indices: 89051411--89051658 Score: 290
Period size: 85 Copynumber: 2.8 Consensus size: 86
89051401 AAACAGAAAT
* * *
89051411 TAAACAGAATTTGAAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAG
1 TAAACAGAAATTG-AAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAG
*
89051476 TTGATTTGAAAAG-TAGAATT-AG
64 TTGATTTGAAAAGATAG-ATTGAA
* *
89051498 TAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAG
1 TAAA-CAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAG
89051561 TTGATTTTTGAAAAGCATAGATTGAAA
64 TTGA--TTTGAAAAG-ATAGATTG-AA
* *
89051588 AAAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGAG
1 TAAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGAG
89051652 TTGATTT
64 TTGATTT
89051659 TTGAAAACAA
Statistics
Matches: 139, Mismatches: 10, Indels: 22
0.81 0.06 0.13
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
87 25 0.18
88 11 0.08
89 27 0.19
90 4 0.03
91 33 0.24
93 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (86 bp):
TAAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGTT
GATTTGAAAAGATAGATTGAA
Found at i:89051604 original size:15 final size:16
Alignment explanation
Indices: 89051571--89051604 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
89051561 TTGATTTTTG
* *
89051571 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
89051587 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
89051603 AA
1 AA
89051605 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:89051646 original size:91 final size:88
Alignment explanation
Indices: 89051412--89051665 Score: 313
Period size: 91 Copynumber: 2.9 Consensus size: 88
89051402 AACAGAAATT
* * *
89051412 AAACAGAATTTGAAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAGT
1 AAACAGAAATTG-AAAATACCTCAGC-TGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
**
89051477 TGA--TTTGAAAAGTAGAATTAGTA
64 TGATTTTTGAAAAGTAGAATTAAAA
* * *
89051500 AAGCAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCACCTCTCGCAATATAAGTT
1 AAACAGAAATTGAAAATACCTCAGCTGTGGCC-TGAGGCTCAACTCACCTCTTGCAATATGAGTT
89051563 GATTTTTGAAAAGCATAG-ATTGAAAA
65 GATTTTTGAAAAG--TAGAATT-AAAA
*
89051589 AAACATAAATTGAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAACAGAAATTGAAAATACCTCAGC-TGTG-GCCTGAGGCTCAACTCACCTCTTGCAATATGAGT
89051653 TGATTTTTGAAAA
64 TGATTTTTGAAAA
89051666 CAAAAATTAA
Statistics
Matches: 144, Mismatches: 12, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
87 21 0.15
88 13 0.09
89 28 0.19
91 43 0.30
93 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (88 bp):
AAACAGAAATTGAAAATACCTCAGCTGTGGCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTG
ATTTTTGAAAAGTAGAATTAAAA
Found at i:89051825 original size:120 final size:121
Alignment explanation
Indices: 89051588--89051920 Score: 533
Period size: 121 Copynumber: 2.7 Consensus size: 121
89051578 TAGATTGAAA
* * ** * *
89051588 AAAACATAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTTGCAATATGAGT
1 AAAACATAAACTAAAAATACCTCAGC--GTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGT
89051653 TGATTTTTGAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
64 TGATTTTTGAAAA-AAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
89051712 AAAACATAAACTAAAAATACCTC-GCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
89051776 ATTTTTGAAAAAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
66 ATTTTTGAAAAAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
*
89051832 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
1 AAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
*
89051897 ATTTTTTTAAAAAAAAATTTAAAA
66 A-TTTTTGAAAAAAAAA-TTAAAA
89051921 ATACCTCAAC
Statistics
Matches: 197, Mismatches: 9, Indels: 7
0.92 0.04 0.03
Matches are distributed among these distances:
120 68 0.35
121 86 0.44
122 14 0.07
123 8 0.04
124 21 0.11
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (121 bp):
AAAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
ATTTTTGAAAAAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
Found at i:89052098 original size:190 final size:195
Alignment explanation
Indices: 89051744--89052357 Score: 1077
Period size: 190 Copynumber: 3.2 Consensus size: 195
89051734 CGCGTGCCCC
89051744 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAA-AAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTAAAAGGCTTAACTC
89051808 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
89051873 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAAAATTTAAAAATACCTCAACGTGTCTT
*
89051938 GAGGCTCAACTCATTTCTCGCAATATGAATTGA-TTTTGAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTAAAAGGCTTAACTC
89052002 A-C-CTCGCAATATGAGTCAATTTAAAACA-AAACT-AAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
** *
89052063 ACTCACTTCTTACAATATGAGTTGATTTTTTT--AAAAAATTTTAAAAAATACCTCAACGTGTC-
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAAAATTT-AAAAATACCTCAACGTGTCT
89052125 T
195 T
*
89052126 GAGGCTCAACTTATTTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTG-AAAACAAAAATTAAAAGGCTTAACT
*
89052191 CACCTCTCGCAATATGAGTCAATTT-AAACATAAACTAAAAATACCTCGGTGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
*
89052255 AACTCACTTCTCGCAATATGAATTGATTTTTTTAAAAAAAAATTTAAAAATACCTCAACGTGTCT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAAAATTTAAAAATACCTCAACGTGTCT
89052320 T
195 T
89052321 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
89052358 CCTTAGAAAG
Statistics
Matches: 397, Mismatches: 12, Indels: 21
0.92 0.03 0.05
Matches are distributed among these distances:
188 41 0.10
189 24 0.06
190 85 0.21
191 11 0.03
192 51 0.13
193 66 0.17
194 73 0.18
195 46 0.12
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (195 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTAAAAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:89064049 original size:17 final size:17
Alignment explanation
Indices: 89064023--89064166 Score: 130
Period size: 17 Copynumber: 8.4 Consensus size: 17
89064013 CGAGATTTTT
89064023 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
*
89064041 TTTTCAAAACACCG-AAA
1 TTTTTAAAACA-CGAAAA
* **
89064058 TTTTTGAAAACAAGAGGA
1 TTTTT-AAAACACGAAAA
* *
89064076 TTTTTGAAATACGAAAAA
1 TTTTTAAAACACG-AAAA
*
89064094 TTTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
89064111 TTTTTGAAACACGGAAA
1 TTTTTAAAACACGAAAA
*
89064128 TTTTTGAAA-ACGAAAA
1 TTTTTAAAACACGAAAA
* *
89064144 TTTTTGAAACACAAAAA
1 TTTTTAAAACACGAAAA
89064161 TTTTTA
1 TTTTTA
89064167 GAAGACACTA
Statistics
Matches: 102, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
16 15 0.15
17 57 0.56
18 30 0.29
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:89064051 original size:39 final size:38
Alignment explanation
Indices: 89063938--89064062 Score: 107
Period size: 36 Copynumber: 3.3 Consensus size: 38
89063928 CGATTGAAAT
* * *
89063938 ACGAGAATTTCTTGTTTTGAAAACACGAGAATTTTAAGAC
1 ACGAG-ATTT-TTTTTTTGAAAACACGAAAATTTTAAAAC
* * *
89063978 A-TA-ATATTTTTTTT-AAAAC-C-AAAATTTATGAAAC
1 ACGAGATTTTTTTTTTGAAAACACGAAAATTT-TAAAAC
89064012 ACGAGATTTTTTTTTTGAAAACACGAAAATTTTCAAAAC
1 ACGAGATTTTTTTTTTGAAAACACGAAAATTTT-AAAAC
*
89064051 ACCGAAATTTTT
1 A-CGAGATTTTT
89064063 GAAAACAAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
33 6 0.09
34 6 0.09
35 6 0.09
36 16 0.24
37 8 0.12
38 2 0.03
39 13 0.19
40 10 0.15
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (38 bp):
ACGAGATTTTTTTTTTGAAAACACGAAAATTTTAAAAC
Found at i:89064069 original size:35 final size:35
Alignment explanation
Indices: 89064023--89064185 Score: 170
Period size: 35 Copynumber: 4.7 Consensus size: 35
89064013 CGAGATTTTT
**
89064023 TTTTTGAAAACACGAAAATTTTCAAAACACCGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
* ** *
89064058 TTTTTGAAAACAAGAGGATTTTTGAAATA-CGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCG-AAA
* *
89064093 ATTTTGAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
**
89064128 TTTTTG-AAA-ACGAAAATTTTTGAAACACAAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
* * *
89064161 TTTTTAGAAGACACTAAAAATTTTG
1 TTTTT-GAAAACACGAAAATTTTTG
89064186 GAAAATGGAT
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
33 27 0.26
34 6 0.06
35 60 0.57
36 12 0.11
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACCGAAA
Found at i:89064783 original size:10 final size:10
Alignment explanation
Indices: 89064768--89064841 Score: 66
Period size: 10 Copynumber: 7.7 Consensus size: 10
89064758 AATTGAACCC
89064768 CCTTTTTCTT
1 CCTTTTTCTT
89064778 CCTTTTTCTT
1 CCTTTTTCTT
** *
89064788 TTTTTTTTTT
1 CCTTTTTCTT
*
89064798 TCTTTTT-TT
1 CCTTTTTCTT
*
89064807 TC-TTTT-TT
1 CCTTTTTCTT
89064815 CCTTTTTTCTT
1 CC-TTTTTCTT
89064826 -CTTTTTCTT
1 CCTTTTTCTT
89064835 CCTTTTT
1 CCTTTTT
89064842 TTTTCTGCTG
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
8 7 0.13
9 12 0.22
10 34 0.62
11 2 0.04
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
CCTTTTTCTT
Found at i:89064792 original size:9 final size:9
Alignment explanation
Indices: 89064786--89064844 Score: 68
Period size: 9 Copynumber: 6.6 Consensus size: 9
89064776 TTCCTTTTTC
89064786 TTTTT-TTT
1 TTTTTCTTT
89064794 TTTTTCTTT
1 TTTTTCTTT
89064803 TTTTTC-TT
1 TTTTTCTTT
*
89064811 TTTTCCTTT
1 TTTTTCTTT
89064820 TTTCTTCTTT
1 TTT-TTCTTT
*
89064830 TTCTTCCTTT
1 TT-TTTCTTT
89064840 TTTTT
1 TTTTT
89064845 TCTGCTGGGC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
8 12 0.28
9 16 0.37
10 14 0.33
11 1 0.02
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:89064799 original size:24 final size:23
Alignment explanation
Indices: 89064770--89064847 Score: 102
Period size: 24 Copynumber: 3.3 Consensus size: 23
89064760 TTGAACCCCC
89064770 TTTTTCTTCCTTTTTCTTTTTTTT
1 TTTTTCTT-CTTTTTCTTTTTTTT
* *
89064794 TTTTTCTTTTTTTTCTTTTTTCCT
1 TTTTTCTTCTTTTTCTTTTTT-TT
**
89064818 TTTTTCTTCTTTTTCTTCCTTTT
1 TTTTTCTTCTTTTTCTTTTTTTT
89064841 TTTTTCT
1 TTTTTCT
89064848 GCTGGGCTGC
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 20 0.43
24 27 0.57
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTCTTCTTTTTCTTTTTTTT
Found at i:89065133 original size:3 final size:3
Alignment explanation
Indices: 89065127--89065185 Score: 73
Period size: 3 Copynumber: 18.0 Consensus size: 3
89065117 TCTTTTTTTT
89065127 TTC TTC TTTC TTC TTC TCTC TTTC TTTC TTC TTC TTC TTC TTCC TTC
1 TTC TTC -TTC TTC TTC T-TC -TTC -TTC TTC TTC TTC TTC TT-C TTC
89065174 TTC TTC TTC TTC
1 TTC TTC TTC TTC
89065186 AAAACCGAGC
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
3 37 0.71
4 14 0.27
5 1 0.02
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:89065142 original size:10 final size:10
Alignment explanation
Indices: 89065115--89065185 Score: 73
Period size: 10 Copynumber: 7.7 Consensus size: 10
89065105 TAAATTTTTT
89065115 TTTCTT-TT-
1 TTTCTTCTTC
*
89065123 TTTTTTCTTC
1 TTTCTTCTTC
89065133 TTTCTTCTTC
1 TTTCTTCTTC
*
89065143 TCTC-T-TTC
1 TTTCTTCTTC
89065151 TTTCTTCTTC
1 TTTCTTCTTC
89065161 -TTCTTCTTC
1 TTTCTTCTTC
*
89065170 CTTCTTCTTC
1 TTTCTTCTTC
89065180 -TTCTTC
1 TTTCTTC
89065186 AAAACCGAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
8 11 0.20
9 19 0.35
10 24 0.44
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTCTTCTTC
Found at i:89065573 original size:29 final size:29
Alignment explanation
Indices: 89065540--89065656 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
89065530 TATAATTTTT
*
89065540 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
89065569 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
89065599 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
89065628 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
89065657 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:89065595 original size:30 final size:30
Alignment explanation
Indices: 89065555--89065656 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
89065545 ATTTAGGATT
*
89065555 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
89065585 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
89065615 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
89065645 AAAATGCAATTT
1 AAAATGAAATTT
89065657 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:89070424 original size:6 final size:6
Alignment explanation
Indices: 89070413--89070440 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
89070403 GCGTATAATA
89070413 GCAGAT GCAGAT GCAGAT GCAGAT GCAG
1 GCAGAT GCAGAT GCAGAT GCAGAT GCAG
89070441 TGTAGTGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.36, T:0.14
Consensus pattern (6 bp):
GCAGAT
Found at i:89078945 original size:82 final size:82
Alignment explanation
Indices: 89078808--89078973 Score: 314
Period size: 82 Copynumber: 2.0 Consensus size: 82
89078798 TCAATATTAA
*
89078808 TTCGACATGGAAATGAGAAAGTATGTAAGTTTGTATGTAAATAATACATTATCTTTATTACGTTT
1 TTCGACATGAAAATGAGAAAGTATGTAAGTTTGTATGTAAATAATACATTATCTTTATTACGTTT
*
89078873 TTATATTTCAGCATATT
66 TCATATTTCAGCATATT
89078890 TTCGACATGAAAATGAGAAAGTATGTAAGTTTGTATGTAAATAATACATTATCTTTATTACGTTT
1 TTCGACATGAAAATGAGAAAGTATGTAAGTTTGTATGTAAATAATACATTATCTTTATTACGTTT
89078955 TCATATTTCAGCATATT
66 TCATATTTCAGCATATT
89078972 TT
1 TT
89078974 ATGTATTGTA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (82 bp):
TTCGACATGAAAATGAGAAAGTATGTAAGTTTGTATGTAAATAATACATTATCTTTATTACGTTT
TCATATTTCAGCATATT
Found at i:89079335 original size:66 final size:67
Alignment explanation
Indices: 89079187--89079341 Score: 186
Period size: 66 Copynumber: 2.3 Consensus size: 67
89079177 TACTATGTGT
* * ** * * *
89079187 ACACCATGTAGACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCCAGGTGAA
1 ACACCATGTAAACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCACATGAGTGGTGCCAAGTGAA
89079252 GG
66 GG
* *
89079254 ACACCATGTAAACAAGAGAGCTACGAGATA-AAGTGGCTAGGTCACATGAGTGGTGCTAAGTGAA
1 ACACCATGTAAACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCACATGAGTGGTGCCAAGTGAA
89079318 GG
66 GG
* * **
89079320 CCACTATGTGTACAAGAGAGCT
1 ACACCATGTAAACAAGAGAGCT
89079342 TCAATTTTAA
Statistics
Matches: 75, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
66 46 0.61
67 29 0.39
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (67 bp):
ACACCATGTAAACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCACATGAGTGGTGCCAAGTGAA
GG
Found at i:89081223 original size:30 final size:30
Alignment explanation
Indices: 89081187--89081277 Score: 164
Period size: 30 Copynumber: 3.0 Consensus size: 30
89081177 TAAGGAGGTA
89081187 TGATACATTTGGGACAATTCAACTAGAGAC
1 TGATACATTTGGGACAATTCAACTAGAGAC
*
89081217 TGATACATTTGGAACAATTCAACTAGAGAC
1 TGATACATTTGGGACAATTCAACTAGAGAC
*
89081247 TGATACATTTGAGACAATTCAACTAGAGAC
1 TGATACATTTGGGACAATTCAACTAGAGAC
89081277 T
1 T
89081278 TGTTACAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.27
Consensus pattern (30 bp):
TGATACATTTGGGACAATTCAACTAGAGAC
Found at i:89086425 original size:47 final size:48
Alignment explanation
Indices: 89086372--89086462 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 48
89086362 ACATAGGGCA
**
89086372 TAATGTCGATACTATGTCTTAGACAT-GTCTTACACTAGCTCTCGTCT
1 TAATGTCGATACTATGTCCCAGACATGGTCTTACACTAGCTCTCGTCT
* * *
89086419 TAATGTCGATGCTATGTCCCAGACATGGTCTTTCACTGGCTCTC
1 TAATGTCGATACTATGTCCCAGACATGGTCTTACACTAGCTCTC
89086463 ATAATGTGGC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 23 0.61
48 15 0.39
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (48 bp):
TAATGTCGATACTATGTCCCAGACATGGTCTTACACTAGCTCTCGTCT
Found at i:89092307 original size:18 final size:19
Alignment explanation
Indices: 89092263--89092307 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
89092253 ATTTAAAATT
89092263 TTAT-AAATTTTTAAAACA
1 TTATCAAATTTTTAAAACA
*
89092281 TTATTAAATTTTATAAAA-A
1 TTATCAAATTTT-TAAAACA
89092300 -TATCAAAT
1 TTATCAAAT
89092308 AAATTTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 11 0.46
19 8 0.33
20 5 0.21
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (19 bp):
TTATCAAATTTTTAAAACA
Found at i:89092338 original size:20 final size:20
Alignment explanation
Indices: 89092295--89092341 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
89092285 TAAATTTTAT
* * **
89092295 AAAAATATCAAATAAATTTC
1 AAAAATTTCAAAAAAATTAA
89092315 AAAAATTTCAAAAAAATTAA
1 AAAAATTTCAAAAAAATTAA
89092335 AAAAATT
1 AAAAATT
89092342 AATTTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAATTTCAAAAAAATTAA
Found at i:89099027 original size:45 final size:46
Alignment explanation
Indices: 89098960--89099083 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
89098950 CATATGACCT
*
89098960 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
89099003 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
89099049 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
89099084 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:89099066 original size:46 final size:45
Alignment explanation
Indices: 89098960--89099157 Score: 207
Period size: 37 Copynumber: 4.8 Consensus size: 45
89098950 CATATGACCT
*
89098960 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
89099003 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
89099049 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
89099086 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
89099123 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
89099158 CACTTATCAC
Statistics
Matches: 140, Mismatches: 7, Indels: 18
0.85 0.04 0.11
Matches are distributed among these distances:
37 64 0.46
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.06
44 6 0.04
45 21 0.15
46 34 0.24
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:89099087 original size:37 final size:37
Alignment explanation
Indices: 89099046--89099184 Score: 233
Period size: 37 Copynumber: 3.8 Consensus size: 37
89099036 GCTGAAGCTA
* *
89099046 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
89099083 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
89099120 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
89099157 CCACTTATCACTTTGTTTCTTGATCAGA
1 CCACTTATCACTTTGTCTCTTGATCAGA
89099185 AGTACTCAAA
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.39
Consensus pattern (37 bp):
CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
Found at i:89102381 original size:114 final size:114
Alignment explanation
Indices: 89102181--89102412 Score: 367
Period size: 114 Copynumber: 2.0 Consensus size: 114
89102171 AAATTAGAAT
* * * *
89102181 TGTAGACGACATAATAATCCTTCTCAGTATTTAAATCAAATGCTCACTTTGATTTTTTTGCGGGA
1 TGTAGACGACATAATAATCCTTCTCAATATTTAAATCAAATGCTCAATTTGATTCTTTTGCGAGA
* *
89102246 CTATAGACTTATTTAGATTATCTTCTA-AAGTATGTTGTCTTTATTGCAA
66 CTACAGACTTATTTAGATTATCTTC-AGAAGTATGTTGTCTTTATCGCAA
*
89102295 TGTAGACGACATAATAATCCTTCTCAATATTTGAATCAAATGCTCAATTTGATTCTTTTGCGAGA
1 TGTAGACGACATAATAATCCTTCTCAATATTTAAATCAAATGCTCAATTTGATTCTTTTGCGAGA
* *
89102360 GTACGGACTTATTTAGATTATCTTCAGAAGTATGTTGTCTTTATCGCAA
66 CTACAGACTTATTTAGATTATCTTCAGAAGTATGTTGTCTTTATCGCAA
89102409 TGTA
1 TGTA
89102413 AACGTTCCTA
Statistics
Matches: 108, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
113 1 0.01
114 107 0.99
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (114 bp):
TGTAGACGACATAATAATCCTTCTCAATATTTAAATCAAATGCTCAATTTGATTCTTTTGCGAGA
CTACAGACTTATTTAGATTATCTTCAGAAGTATGTTGTCTTTATCGCAA
Found at i:89109180 original size:21 final size:21
Alignment explanation
Indices: 89109154--89109223 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
89109144 CTATCATTGA
*
89109154 TTAATAAGTAAATCTAAAACC
1 TTAATAAGTAAATCTAGAACC
*
89109175 TTAATAA-AACAATGCT-GAA-C
1 TTAATAAGTA-AAT-CTAGAACC
**
89109195 AAAATAAGTAAATCTAGAACC
1 TTAATAAGTAAATCTAGAACC
89109216 TTAATAAG
1 TTAATAAG
89109224 ACAATGCTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
19 2 0.05
20 13 0.35
21 20 0.54
22 2 0.05
ACGTcount: A:0.53, C:0.13, G:0.09, T:0.26
Consensus pattern (21 bp):
TTAATAAGTAAATCTAGAACC
Found at i:89112624 original size:31 final size:32
Alignment explanation
Indices: 89112579--89112642 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
89112569 TATATACATG
** * *
89112579 ATATATACGTAATATGGTA-CTAAGAATATAT
1 ATATATACACAATATAGTATCTAAAAATATAT
*
89112610 ATATATACACAATATAGTATTTAAAAATATAT
1 ATATATACACAATATAGTATCTAAAAATATAT
89112642 A
1 A
89112643 CATAAGATGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (32 bp):
ATATATACACAATATAGTATCTAAAAATATAT
Found at i:89112655 original size:26 final size:24
Alignment explanation
Indices: 89112610--89112738 Score: 70
Period size: 24 Copynumber: 5.2 Consensus size: 24
89112600 AAGAATATAT
* *
89112610 ATATATACACAATATAGTATTTAAAA
1 ATATATACATAAGATAGTA--TAAAA
*
89112636 ATATATACATAAGATGGTATAAAA
1 ATATATACATAAGATAGTATAAAA
*
89112660 ATATGTACATGGAA-AT-GTATAAGAA
1 ATATATACAT--AAGATAGTATAA-AA
* *
89112685 ATATAT--ATAACTAGTAATATTAAAA
1 ATATATACATAA-GA-TAGTA-TAAAA
* *
89112710 ATATATACATAACATA-TATAGAAC
1 ATATATACATAAGATAGTATA-AAA
89112734 ATATA
1 ATATA
89112739 CAATATATAC
Statistics
Matches: 84, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
21 2 0.02
23 5 0.06
24 30 0.36
25 21 0.25
26 22 0.26
27 4 0.05
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (24 bp):
ATATATACATAAGATAGTATAAAA
Found at i:89112813 original size:2 final size:2
Alignment explanation
Indices: 89112806--89112941 Score: 73
Period size: 2 Copynumber: 73.0 Consensus size: 2
89112796 AAATACATAC
* * * *
89112806 AT AT AT AT AT AG AA AT AT AT AT A- AT AT -T AG AA AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89112845 AT A- AT AGT AT A- AT AT AT AT A- AT A- AT AT A- AT AT AT AT A-
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
89112882 AT AT AT AT AT AA AT AT ACT -T AT AT AC AT A- AC AT AT AT GAA AA
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT -AT AT
89112924 AT AT AT AT A- AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT
89112942 TAAAACATTT
Statistics
Matches: 105, Mismatches: 13, Indels: 32
0.70 0.09 0.21
Matches are distributed among these distances:
1 13 0.12
2 88 0.84
3 4 0.04
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (2 bp):
AT
Found at i:89112865 original size:17 final size:17
Alignment explanation
Indices: 89112806--89112898 Score: 95
Period size: 17 Copynumber: 5.5 Consensus size: 17
89112796 AAATACATAC
89112806 ATATATAT-ATAG-A-A
1 ATATATATAATAGTATA
* *
89112820 ATATATATAATATTAGAA
1 ATATATATAATAGTA-TA
89112838 ATATAATATAATAGTATA
1 ATAT-ATATAATAGTATA
*
89112856 ATATATATAATAATATA
1 ATATATATAATAGTATA
89112873 ATATATATAATA-TATA
1 ATATATATAATAGTATA
*
89112889 TATAAATATA
1 -ATATATATA
89112899 CTTATATACA
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
14 8 0.12
15 3 0.04
16 5 0.07
17 32 0.47
18 10 0.15
19 10 0.15
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (17 bp):
ATATATATAATAGTATA
Found at i:89112904 original size:12 final size:13
Alignment explanation
Indices: 89112806--89112968 Score: 112
Period size: 13 Copynumber: 12.8 Consensus size: 13
89112796 AAATACATAC
89112806 ATATATATATAGA-
1 ATATATATATA-AT
89112819 A-ATATATATAAT
1 ATATATATATAAT
* *
89112831 ATTAGAAATATAAT
1 A-TATATATATAAT
89112845 ATA-ATAGTATAAT
1 ATATATA-TATAAT
89112858 ATATATA-ATAAT
1 ATATATATATAAT
89112870 ATAATATATATAAT
1 AT-ATATATATAAT
89112884 ATATATATA-AAT
1 ATATATATATAAT
89112896 ATACT-TATATACAT
1 ATA-TATATATA-AT
*
89112910 A-ACATATATGAA-
1 ATATATATAT-AAT
*
89112922 AAATATATATAAT
1 ATATATATATAAT
*
89112935 ATA-ATAT-TAAA
1 ATATATATATAAT
* * *
89112946 ACATTTACATAAT
1 ATATATATATAAT
*
89112959 ATATACATAT
1 ATATATATAT
89112969 TAGAAATAAA
Statistics
Matches: 119, Mismatches: 15, Indels: 32
0.72 0.09 0.19
Matches are distributed among these distances:
11 6 0.05
12 38 0.32
13 51 0.43
14 24 0.20
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (13 bp):
ATATATATATAAT
Found at i:89112946 original size:22 final size:23
Alignment explanation
Indices: 89112838--89112946 Score: 88
Period size: 22 Copynumber: 4.9 Consensus size: 23
89112828 AATATTAGAA
*
89112838 ATATAATATAATAGTATAATATAT
1 ATATAATATAATA-TATAAAATAT
*
89112862 ATAATAATATAATATATATAATAT
1 AT-ATAATATAATATATAAAATAT
*
89112886 ATAT-ATA-AATATACT--TATAT
1 ATATAATATAATATA-TAAAATAT
* *
89112906 ACATAACAT-ATATGA-AAAATAT
1 ATATAATATAATAT-ATAAAATAT
89112928 ATATAATATAATAT-TAAAA
1 ATATAATATAATATATAAAA
89112947 CATTTACATA
Statistics
Matches: 68, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
20 7 0.10
21 12 0.18
22 20 0.29
23 6 0.09
24 12 0.18
25 11 0.16
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.39
Consensus pattern (23 bp):
ATATAATATAATATATAAAATAT
Found at i:89113064 original size:16 final size:15
Alignment explanation
Indices: 89113017--89113073 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
89113007 ATAATAATGA
*
89113017 AATATATAAA-AAAGA
1 AATATA-AAATAAAGT
*
89113032 AATATAATATAATAGT
1 AATATAAAATAA-AGT
89113048 AATATTAAAATAAAGT
1 AATA-TAAAATAAAGT
89113064 AAT-TAAAATA
1 AATATAAAATA
89113074 GTACTATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
14 9 0.25
15 8 0.22
16 12 0.33
17 7 0.19
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
AATATAAAATAAAGT
Found at i:89113124 original size:16 final size:16
Alignment explanation
Indices: 89113087--89113117 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
89113077 CTATATATAA
89113087 ATATATATACATACAT
1 ATATATATACATACAT
89113103 ATATATATACATACA
1 ATATATATACATACA
89113118 CTAATATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (16 bp):
ATATATATACATACAT
Found at i:89113133 original size:3 final size:3
Alignment explanation
Indices: 89113119--89113281 Score: 70
Period size: 3 Copynumber: 53.7 Consensus size: 3
89113109 ATACATACAC
* * *
89113119 TAA TAT TAA TAA TAA TAA TAA -AA CTAGA -AA TAA TAA TCAT TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TA-A TAA TAA TAA T-AA TAA TAA
* * ** * *
89113165 TAA TAA TACGT TAA AAA TAA TTAA T-A TGT TAA TAA AAA TAA TAG TAA
1 TAA TAA TA--A TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
89113212 TGAA -AA TAA TAC TAA CAG TAA TAA TAA -AGA TAA TAA TAGA -AA TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA
* *
89113257 -AA TAA TAG TAA TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
89113282 TGTAAAAAAA
Statistics
Matches: 118, Mismatches: 26, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
2 11 0.09
3 94 0.80
4 10 0.08
5 3 0.03
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:89118531 original size:19 final size:20
Alignment explanation
Indices: 89118503--89118541 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
89118493 TTCCATTATT
89118503 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
89118522 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
89118542 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:89118559 original size:25 final size:23
Alignment explanation
Indices: 89118522--89118567 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
89118512 TTTGTTTTAA
*
89118522 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
89118545 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
89118568 ATTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:89124960 original size:21 final size:21
Alignment explanation
Indices: 89124936--89124975 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
89124926 TGCAGATGTA
89124936 ATATATA-ATTAAAATTATATT
1 ATATATATATT-AAATTATATT
*
89124957 ATATTTATATTAAATTATA
1 ATATATATATTAAATTATA
89124976 AAAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATATATATTAAATTATATT
Found at i:89129922 original size:49 final size:49
Alignment explanation
Indices: 89129861--89129966 Score: 126
Period size: 49 Copynumber: 2.2 Consensus size: 49
89129851 CCATACAACG
* * * * *
89129861 GGAAGCTTATCCGGGCTGTATAATGGGAAGCTTAT-AAGAGCCA-TATTCA
1 GGAAGCTCATCCGAGCT-AATAACGGGAAGCTT-TGAAGAGCCATTAATCA
*
89129910 GGAAGCTCATCCGAGCTAATAACGGGTAGCTTTGAAGAGCCATTAATCA
1 GGAAGCTCATCCGAGCTAATAACGGGAAGCTTTGAAGAGCCATTAATCA
89129959 GGAAGCTC
1 GGAAGCTC
89129967 CATCTAGCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
47 1 0.02
48 20 0.41
49 28 0.57
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (49 bp):
GGAAGCTCATCCGAGCTAATAACGGGAAGCTTTGAAGAGCCATTAATCA
Found at i:89134709 original size:30 final size:30
Alignment explanation
Indices: 89134675--89134740 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
89134665 TACTCATACA
**
89134675 AGTCCACAG-ATTTCATTTATTTCACATTTT
1 AGTCCACAGAATTT-ATAAATTTCACATTTT
*
89134705 AGTCC-CTGAATTTATAAATTTCACATTTT
1 AGTCCACAGAATTTATAAATTTCACATTTT
*
89134734 AGCCCAC
1 AGTCCAC
89134741 TTTACTCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.41
Consensus pattern (30 bp):
AGTCCACAGAATTTATAAATTTCACATTTT
Found at i:89137786 original size:12 final size:10
Alignment explanation
Indices: 89137757--89137785 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
89137747 CCATATAGAT
89137757 AATCATATAG
1 AATCATATAG
89137767 AATCATATAG
1 AATCATATAG
89137777 AATCATATA
1 AATCATATA
89137786 TATATACTTA
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:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (10 bp):
AATCATATAG
Found at i:89140351 original size:378 final size:377
Alignment explanation
Indices: 89139657--89140415 Score: 1322
Period size: 378 Copynumber: 2.0 Consensus size: 377
89139647 AGAGAAAAAG
89139657 TACCAATAATAACACCAGGTGCAGTAGCATCCTCACATGCACGAATAGCATATGTTCTGACTGGT
1 TACCAATAATAACACCAGGTGCAGTAGCATCCTCACATGCACGAATAGCATATGTTCTGACTGGT
*
89139722 GCCCGTGCTTCAGATCTAATAGTTGAATCTGTTGTCGTACCCCAGCTACCATCACATTTCCGGGA
66 GCCCGTGCTTCAGATCTAATAGTTGAATCTGTTGTCATACCCCAGCTACCATCACATTTCCGGGA
*
89139787 TTACGAGGTGGTCTACCTTTCGTGGTAGGATTGCTTGGCCTTGAAGTTTGAACAGTTTCTTTCTC
131 TTACGAGGTGGTCTACCTTTCATGGTAGGATTGCTTGGCCTTGAAGTTTGAACAGTTTCTTTCTC
*
89139852 AAGCTTTTCTGGGCAATCTCTCAAATAGTGGTCAAAGGAACCACATCTAAAGCAAGCTCTACTTT
196 AAGCTTTTCTGGGCAATATCTCAAATAGTGGTCAAAGGAACCACATCTAAAGCAAGCTCTACTTT
89139917 TCATGCCACACTCTCCAAAATGAAGTTTATTACAGTGCTTGCATATGGGTTTGGTATTTCTAACA
261 TCATGCCACACTCTCCAAAATGAAGTTTATTACAGTGCTTGCATATGGGTTTGGTATTTCTAACA
*
89139982 CTGTTCGCACTTACTACAGATGTAGCCTGAGATCTTAAACTGGAACGTTGAA
326 CTGTCCGCACTTACTACAGATGTAGCCTGAGATCTTAAACTGGAACGTTGAA
* * *
89140034 TACCAATAATAACACCAGGTGCAGTAGCATTCTCACGTGCATGAATAGCATATGTTCT-AGCTGG
1 TACCAATAATAACACCAGGTGCAGTAGCATCCTCACATGCACGAATAGCATATGTTCTGA-CTGG
* * * * *
89140098 TGCTCGTGCTTTAGATCTAATAGTTGAATCTTTTGTCATACCCCGGCTACCACTCACATTTTCGG
65 TGCCCGTGCTTCAGATCTAATAGTTGAATCTGTTGTCATACCCCAGCTACCA-TCACATTTCCGG
* *
89140163 GATTACGAGGTGGTCTACCTTTCATGGTGGGATTGCTTGGCCTTGAAGTTTGAACAGTTTTTTTC
129 GATTACGAGGTGGTCTACCTTTCATGGTAGGATTGCTTGGCCTTGAAGTTTGAACAGTTTCTTTC
*
89140228 TCAAGCTTTTCTGGGCAATATCTCAAATAGTGGTCAAAGGAACCACATCTAAAGCAAGCTCTTCT
194 TCAAGCTTTTCTGGGCAATATCTCAAATAGTGGTCAAAGGAACCACATCTAAAGCAAGCTCTACT
**
89140293 TTTCATGCGGCACTCTCCAAAATGAAGTTTATTACAGTGCTTGCATATGGGTTTGGTATTTCTAA
259 TTTCATGCCACACTCTCCAAAATGAAGTTTATTACAGTGCTTGCATATGGGTTTGGTATTTCTAA
* *
89140358 CACTGTCCGCACTTACTACAGATGTAGCCTGAGATCTTGAACTGGAATGTTGAA
324 CACTGTCCGCACTTACTACAGATGTAGCCTGAGATCTTAAACTGGAACGTTGAA
89140412 TACC
1 TACC
89140416 TCTAAGTCTC
Statistics
Matches: 361, Mismatches: 19, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
376 1 0.00
377 106 0.29
378 254 0.70
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (377 bp):
TACCAATAATAACACCAGGTGCAGTAGCATCCTCACATGCACGAATAGCATATGTTCTGACTGGT
GCCCGTGCTTCAGATCTAATAGTTGAATCTGTTGTCATACCCCAGCTACCATCACATTTCCGGGA
TTACGAGGTGGTCTACCTTTCATGGTAGGATTGCTTGGCCTTGAAGTTTGAACAGTTTCTTTCTC
AAGCTTTTCTGGGCAATATCTCAAATAGTGGTCAAAGGAACCACATCTAAAGCAAGCTCTACTTT
TCATGCCACACTCTCCAAAATGAAGTTTATTACAGTGCTTGCATATGGGTTTGGTATTTCTAACA
CTGTCCGCACTTACTACAGATGTAGCCTGAGATCTTAAACTGGAACGTTGAA
Found at i:89141190 original size:27 final size:28
Alignment explanation
Indices: 89141160--89141216 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
89141150 ATTTTTGATG
89141160 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
89141187 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
89141216 A
1 A
89141217 TTTAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:89142321 original size:12 final size:13
Alignment explanation
Indices: 89142304--89142335 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
89142294 GCAAATGTTG
89142304 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
89142316 AGTTTTGATGCAT
1 AGTTTTGATGCAT
89142329 -GTTTTGA
1 AGTTTTGA
89142336 AATGTGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:89145176 original size:29 final size:29
Alignment explanation
Indices: 89145113--89145180 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
89145103 TAATCAACCG
89145113 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
89145142 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
89145171 CGCACACTTA
1 CGCACACTTA
89145181 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:89145293 original size:174 final size:174
Alignment explanation
Indices: 89145002--89145329 Score: 575
Period size: 174 Copynumber: 1.9 Consensus size: 174
89144992 AACTCAAGGT
* *
89145002 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
89145067 GAAAATATATATTGGGTTCACACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTAGGTTCACACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
89145132 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
89145176 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
89145241 GAAAATATATATTAGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTAGGTTCACACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
**
89145306 ACTTTAAACTCGTACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
89145330 TGTACAATTT
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTAGGTTCACACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:89145324 original size:29 final size:30
Alignment explanation
Indices: 89145282--89145360 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
89145272 CTTAATAATC
89145282 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
* *
89145312 AACTCGTACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
89145341 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
89145361 ATCTCATGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 31 0.76
30 4 0.10
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:89151745 original size:93 final size:93
Alignment explanation
Indices: 89151636--89151806 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
89151626 ACCCCTAAGT
* *
89151636 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
89151701 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
89151729 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
89151794 CGAGTTCGGATGC
66 CGAGTTCGGATGC
89151807 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:89151803 original size:46 final size:46
Alignment explanation
Indices: 89151631--89151803 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
89151621 AACCCACCCC
* * *
89151631 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
89151677 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
89151725 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
89151770 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
89151804 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:89153981 original size:22 final size:20
Alignment explanation
Indices: 89153946--89153989 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
89153936 CAATTTTTGT
89153946 AAATAACAATTAC-ACAATTC
1 AAATAACAATTACAAC-ATTC
89153966 AAATATACAACTTACAACATTC
1 AAATA-ACAA-TTACAACATTC
89153988 AA
1 AA
89153990 TTCAAACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 4 0.19
22 10 0.48
23 2 0.10
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (20 bp):
AAATAACAATTACAACATTC
Found at i:89158227 original size:41 final size:41
Alignment explanation
Indices: 89158170--89158354 Score: 271
Period size: 41 Copynumber: 4.5 Consensus size: 41
89158160 GGCTTTACCG
**
89158170 GCGTTTTTATAAAAGCGCCGCTAATGCTCTGGTCTTTAGCA
1 GCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCA
* *
89158211 GCGTTTTTGGAGAAGCGCCGCTAATGCTCTGGTCTTTAGCG
1 GCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCA
* * * * *
89158252 GCATTTCTGGAAAAGTGCCGCTAAAGCTCAGGTCTTTAGCA
1 GCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCA
*
89158293 GCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCG
1 GCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCA
*
89158334 GCGTTTTTTGAAAAGCGCCGC
1 GCGTTTTTGGAAAAGCGCCGC
89158355 AAAAACATTT
Statistics
Matches: 126, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 126 1.00
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (41 bp):
GCGTTTTTGGAAAAGCGCCGCTAATGCTCTGGTCTTTAGCA
Found at i:89158747 original size:22 final size:23
Alignment explanation
Indices: 89158697--89158747 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
89158687 ATATGATTTA
89158697 GAGTTTAAGGTTTAGGAGTTACT
1 GAGTTTAAGGTTTAGGAGTTACT
*
89158720 -ATTTTAAGGTTTATGGA-TTA-T
1 GAGTTTAAGGTTTA-GGAGTTACT
89158741 GAGTTTA
1 GAGTTTA
89158748 GGGGTTATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 1 0.04
22 20 0.83
23 3 0.12
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.45
Consensus pattern (23 bp):
GAGTTTAAGGTTTAGGAGTTACT
Found at i:89159015 original size:16 final size:17
Alignment explanation
Indices: 89158996--89159037 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
89158986 AAATTCTTTA
89158996 TAAATAATTT-ATATAT
1 TAAATAATTTAATATAT
89159012 TAAATAATTTAATATAT
1 TAAATAATTTAATATAT
89159029 TAAAATAAT
1 T-AAATAAT
89159038 GATTATAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 10 0.42
17 7 0.29
18 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATAATTTAATATAT
Found at i:89159254 original size:21 final size:22
Alignment explanation
Indices: 89159230--89159270 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
89159220 ATGGTTTATT
89159230 GTTTAAGGGTT-GGGATTTAAA
1 GTTTAAGGGTTAGGGATTTAAA
*
89159251 GTTTAGGGGTTAGGGATTTA
1 GTTTAAGGGTTAGGGATTTA
89159271 GGGTTTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (22 bp):
GTTTAAGGGTTAGGGATTTAAA
Found at i:89159643 original size:23 final size:23
Alignment explanation
Indices: 89159615--89159661 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
89159605 AACTAATAAT
89159615 TTTTAACAAATAAAATAAA-AAAA
1 TTTTAACAAAT-AAATAAATAAAA
89159638 TTTTAACAAATAAATAAATAAAA
1 TTTTAACAAATAAATAAATAAAA
89159661 T
1 T
89159662 CACTAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (23 bp):
TTTTAACAAATAAATAAATAAAA
Found at i:89159747 original size:38 final size:39
Alignment explanation
Indices: 89159664--89159748 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
89159654 AATAAAATCA
*
89159664 CTAAAAATAAGCATTAGCGGCGCTTTTCGGAAAACGCCG
1 CTAAAAATAAGCATTAGCGGCGCTTTTCAGAAAACGCCG
* * *
89159703 CTAAAAATGAGCATTAGTGGCG-TTTTTAGAAAAGCGCCG
1 CTAAAAATAAGCATTAGCGGCGCTTTTCAGAAAA-CGCCG
*
89159742 CAAAAAA
1 CTAAAAA
89159749 ACTAGGCCCA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 9 0.22
39 31 0.77
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (39 bp):
CTAAAAATAAGCATTAGCGGCGCTTTTCAGAAAACGCCG
Found at i:89160607 original size:38 final size:38
Alignment explanation
Indices: 89160527--89160608 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
89160517 GGTTACAAAC
* * * *
89160527 TTTATCTGTTTTTTATATGTTTATCTCACAAATTTTCT
1 TTTATCTGCTTTTTACATGTTTATCTCACAAAGTTTCG
*
89160565 TTTATCTGCTTTTTACATGTTTATCTCACAAAGTTTGG
1 TTTATCTGCTTTTTACATGTTTATCTCACAAAGTTTCG
89160603 TTTATC
1 TTTATC
89160609 AATTGTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.56
Consensus pattern (38 bp):
TTTATCTGCTTTTTACATGTTTATCTCACAAAGTTTCG
Found at i:89164618 original size:43 final size:43
Alignment explanation
Indices: 89164571--89164755 Score: 241
Period size: 43 Copynumber: 4.3 Consensus size: 43
89164561 TTTATTTTTT
* *
89164571 AAGCGTCGCTAAAGGTTGTGGTCTTTAGCGGCGTTTTTGGGAA
1 AAGCGTCGCTAAAGGTTATGGTCTTTAGCGGCGTTTGTGGGAA
* *
89164614 AAGCGTCGCTAAAGGTCA-GAGTCTTTAGCGGCGTTTGTCGGAA
1 AAGCGTCGCTAAAGGTTATG-GTCTTTAGCGGCGTTTGTGGGAA
*
89164657 AAGCGTCGCTAAA-GTTCATCGTCTTTAGCGGCGTTTGTGGGAA
1 AAGCGTCGCTAAAGGTT-ATGGTCTTTAGCGGCGTTTGTGGGAA
* * **
89164700 AAGCGCCGCTAAAGGTCATGACCTTTAGCGGCGTTTGTGGG-A
1 AAGCGTCGCTAAAGGTTATGGTCTTTAGCGGCGTTTGTGGGAA
*
89164742 AAGCGCCGCTAAAG
1 AAGCGTCGCTAAAG
89164756 TTAGAGACGC
Statistics
Matches: 126, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
42 18 0.14
43 106 0.84
44 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.26
Consensus pattern (43 bp):
AAGCGTCGCTAAAGGTTATGGTCTTTAGCGGCGTTTGTGGGAA
Found at i:89164663 original size:86 final size:86
Alignment explanation
Indices: 89164571--89164755 Score: 268
Period size: 86 Copynumber: 2.2 Consensus size: 86
89164561 TTTATTTTTT
* * * *
89164571 AAGCGTCGCTAAAGGTT-GTGGTCTTTAGCGGCGTTTTTGGGAAAAGCGTCGCTAAAGGTCA-GA
1 AAGCGTCGCTAAAGGTTCATCGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
*
89164634 GTCTTTAGCGGCGTTTGTCGGAA
66 -CCTTTAGCGGCGTTTGT-GGAA
89164657 AAGCGTCGCTAAA-GTTCATCGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
1 AAGCGTCGCTAAAGGTTCATCGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
*
89164721 CCTTTAGCGGCGTTTGTGGGA
66 CCTTTAGCGGCGTTTGTGGAA
*
89164742 AAGCGCCGCTAAAG
1 AAGCGTCGCTAAAG
89164756 TTAGAGACGC
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
85 18 0.20
86 69 0.78
87 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.26
Consensus pattern (86 bp):
AAGCGTCGCTAAAGGTTCATCGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
CCTTTAGCGGCGTTTGTGGAA
Found at i:89166388 original size:5 final size:5
Alignment explanation
Indices: 89166378--89166470 Score: 75
Period size: 5 Copynumber: 17.6 Consensus size: 5
89166368 ATTGATATCC
*
89166378 AAATA AAATA AAATA AAATAA TAAATA ATAA-A TAATA AAATA AAATA
1 AAATA AAATA AAATA AAAT-A -AAATA A-AATA AAATA AAATA AAATA
*
89166425 AAATA ATAA-A TAATGA ATAATA AAATAA AAATA AAGA-A AAATA AAA
1 AAATA A-AATA AAAT-A A-AATA AAAT-A AAATA AA-ATA AAATA AAA
89166471 ATTGGGTTGC
Statistics
Matches: 73, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
4 5 0.07
5 46 0.63
6 15 0.21
7 7 0.10
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:89166405 original size:7 final size:7
Alignment explanation
Indices: 89166393--89166458 Score: 71
Period size: 7 Copynumber: 8.9 Consensus size: 7
89166383 AAATAAAATA
89166393 AAATAAT
1 AAATAAT
89166400 AAATAAT
1 AAATAAT
89166407 AAATAAT
1 AAATAAT
89166414 AAAATAAAAT
1 -AAAT--AAT
89166424 AAAATAAT
1 -AAATAAT
89166432 AAATAAT
1 AAATAAT
*
89166439 GAATAAT
1 AAATAAT
89166446 AAAATAA-
1 -AAATAAT
89166453 AAATAA
1 AAATAA
89166459 AGAAAAATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
6 6 0.11
7 27 0.51
8 12 0.23
10 8 0.15
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (7 bp):
AAATAAT
Found at i:89166416 original size:32 final size:32
Alignment explanation
Indices: 89166379--89166459 Score: 144
Period size: 32 Copynumber: 2.5 Consensus size: 32
89166369 TTGATATCCA
89166379 AATAAAATAAAATAAAATAATAAATAATAAAT
1 AATAAAATAAAATAAAATAATAAATAATAAAT
*
89166411 AATAAAATAAAATAAAATAATAAATAATGAAT
1 AATAAAATAAAATAAAATAATAAATAATAAAT
89166443 AATAAAATAAAAATAAA
1 AATAAAAT-AAAATAAA
89166460 GAAAAATAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 39 0.83
33 8 0.17
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.23
Consensus pattern (32 bp):
AATAAAATAAAATAAAATAATAAATAATAAAT
Found at i:89166472 original size:22 final size:20
Alignment explanation
Indices: 89166378--89166470 Score: 82
Period size: 22 Copynumber: 4.4 Consensus size: 20
89166368 ATTGATATCC
89166378 AAATAAAAT-AAAATAAAATA
1 AAATAAAATAAAAATAAAA-A
*
89166398 ATAA-ATAATAAATAATAAAATA
1 A-AATAAAATAAA-AATAAAA-A
*
89166420 AAATAAAATAATAAATAATGAA
1 AAATAAAATAA-AAATAA-AAA
*
89166442 TAATAAAATAAAAATAAAGAA
1 AAATAAAATAAAAATAAA-AA
89166463 AAATAAAA
1 AAATAAAA
89166471 ATTGGGTTGC
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
20 5 0.08
21 21 0.35
22 32 0.53
23 2 0.03
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (20 bp):
AAATAAAATAAAAATAAAAA
Found at i:89170090 original size:10 final size:10
Alignment explanation
Indices: 89170063--89170111 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
89170053 TTAAATTCTA
89170063 AAAGATAAAT
1 AAAGATAAAT
89170073 ATAA-ATAAAT
1 A-AAGATAAAT
*
89170083 AAAGATAATT
1 AAAGATAAAT
89170093 AAAGATAAAT
1 AAAGATAAAT
*
89170103 GAAGATAAA
1 AAAGATAAA
89170112 AGCTAAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:89189943 original size:21 final size:22
Alignment explanation
Indices: 89189912--89189953 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
89189902 TTCAATAACA
89189912 CTTAACATGGTC-TAATTATACT
1 CTTAACATGGTCTTAA-TATACT
89189934 CTTAA-ATGGTCTTAATATAC
1 CTTAACATGGTCTTAATATAC
89189954 CTCATTGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (22 bp):
CTTAACATGGTCTTAATATACT
Found at i:89194552 original size:39 final size:39
Alignment explanation
Indices: 89194496--89194658 Score: 195
Period size: 39 Copynumber: 4.2 Consensus size: 39
89194486 GTATGAGATT
* * *
89194496 GAAAATATATCCAGACATGAGGTCTGCAGGCTATATGCTG
1 GAAAA-ATATCCGGACATGAGGTCCGCAGGCTATATGCTA
89194536 GAAAAATATCCGGACATGA--TCCGCAGGCTATATGCTA
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTA
* * *
89194573 GAAATATATCTGGACATGAGATCCGCAGGCTATATGCTA
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTA
* * * ** *
89194612 GAAATATATCCGGACTTGAGGTTCGCAGGCTACGTGCTG
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTA
89194651 GAAAAATA
1 GAAAAATA
89194659 CTTGGGTTAA
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
37 33 0.31
39 70 0.65
40 5 0.05
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (39 bp):
GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTA
Found at i:89194881 original size:2 final size:2
Alignment explanation
Indices: 89194876--89194933 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
89194866 ACGATATATA
*
89194876 TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
89194918 TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG
89194934 AATGAATTCG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:89198023 original size:28 final size:26
Alignment explanation
Indices: 89197983--89198041 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
89197973 GTAAGCATTT
*
89197983 AATTTATAGATTTTATACTTTTTAAATA
1 AATTTATAGATTTT-TAATTTTTAAA-A
89198011 AATTTA-ATGATTTTTAATTTTTAAAA
1 AATTTATA-GATTTTTAATTTTTAAAA
89198037 AATTT
1 AATTT
89198042 TATATATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 6 0.21
27 11 0.38
28 12 0.41
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (26 bp):
AATTTATAGATTTTTAATTTTTAAAA
Found at i:89198052 original size:29 final size:28
Alignment explanation
Indices: 89197987--89198066 Score: 83
Period size: 27 Copynumber: 2.8 Consensus size: 28
89197977 GCATTTAATT
*
89197987 TATAGATTTTATACTTTTTAAATAAATTTA
1 TATAGATTTT-TAATTTTTAAA-AAATTTA
89198017 -AT-GATTTTTAATTTTTAAAAAATTTTA
1 TATAGATTTTTAATTTTTAAAAAA-TTTA
* *
89198044 TATATATTTTTAAAATTTTAAAA
1 TATAGATTTTT-AATTTTTAAAA
89198067 TTTTAAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
26 3 0.07
27 14 0.33
28 8 0.19
29 8 0.19
30 10 0.23
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (28 bp):
TATAGATTTTTAATTTTTAAAAAATTTA
Found at i:89198064 original size:8 final size:8
Alignment explanation
Indices: 89198051--89198080 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
89198041 TTATATATAT
89198051 TTTTAAAA
1 TTTTAAAA
89198059 TTTTAAAA
1 TTTTAAAA
89198067 TTTTAAAA
1 TTTTAAAA
89198075 TTTTAA
1 TTTTAA
89198081 TTAAATATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TTTTAAAA
Found at i:89199837 original size:15 final size:14
Alignment explanation
Indices: 89199817--89199859 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
89199807 GAAAATTACG
*
89199817 TATTTAATATATATA
1 TATTTAATAAATA-A
89199832 TATTTAA-AAATAA
1 TATTTAATAAATAA
89199845 TATTTAATAAATAA
1 TATTTAATAAATAA
89199859 T
1 T
89199860 GAAACATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 8 0.31
14 11 0.42
15 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTTAATAAATAA
Found at i:89200702 original size:31 final size:29
Alignment explanation
Indices: 89200667--89200735 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
89200657 CATAGTGAGT
* * *
89200667 AAAATATTACAAATTAATAATGTTAGTGACC
1 AAAATATAACAAATTAA-AAT-TGAATGACC
*
89200698 AAAATATAATAAATTAAAATTGAATGACC
1 AAAATATAACAAATTAAAATTGAATGACC
*
89200727 AAAACATAA
1 AAAATATAA
89200736 TTTAAACCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 15 0.45
30 3 0.09
31 15 0.45
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.28
Consensus pattern (29 bp):
AAAATATAACAAATTAAAATTGAATGACC
Found at i:89211570 original size:46 final size:46
Alignment explanation
Indices: 89211520--89211692 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
89211510 TGGTTGAGCA
*
89211520 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
89211566 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
89211613 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
89211659 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
89211693 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:89211676 original size:93 final size:93
Alignment explanation
Indices: 89211517--89211687 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
89211507 GGATGGTTGA
* *
89211517 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
89211582 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
89211610 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
89211675 TGAGTTCGAGTTC
66 TGAGTCCGAGTTC
89211688 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:89218283 original size:13 final size:13
Alignment explanation
Indices: 89218265--89218290 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89218255 AATTGTTGCG
89218265 TGCAAATATGCAA
1 TGCAAATATGCAA
89218278 TGCAAATATGCAA
1 TGCAAATATGCAA
89218291 GTGTACACGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
TGCAAATATGCAA
Found at i:89229945 original size:30 final size:30
Alignment explanation
Indices: 89229890--89229951 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
89229880 CACTAAGCAA
89229890 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
89229919 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
89229950 GT
1 GT
89229952 ATTTCCATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:89229971 original size:9 final size:10
Alignment explanation
Indices: 89229942--89229974 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
89229932 ATGTAATATC
89229942 ATTTCCATGT
1 ATTTCCATGT
89229952 ATTTCCATGT
1 ATTTCCATGT
89229962 ATTT-CATGT
1 ATTTCCATGT
89229971 ATTT
1 ATTT
89229975 ACCTGTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.55
Consensus pattern (10 bp):
ATTTCCATGT
Found at i:89230199 original size:24 final size:26
Alignment explanation
Indices: 89230163--89230227 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 26
89230153 GAATTGGTAA
* *
89230163 AAGCTCATTCGAGCTGA-GAATC-GT
1 AAGCTCATACGAGCTGACAAATCTGT
89230187 AAGCTC-TCACGAGCT-ACAAATCTGT
1 AAGCTCAT-ACGAGCTGACAAATCTGT
89230212 AAGCTCATACGAGCTG
1 AAGCTCATACGAGCTG
89230228 TGGTGTGTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
23 2 0.06
24 16 0.47
25 15 0.44
26 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.23
Consensus pattern (26 bp):
AAGCTCATACGAGCTGACAAATCTGT
Found at i:89234152 original size:4 final size:4
Alignment explanation
Indices: 89234143--89234254 Score: 50
Period size: 4 Copynumber: 28.2 Consensus size: 4
89234133 TTGATTCTGA
* * * **
89234143 TATT TATT TATT CATT TACT TGTT TATT TA-T TCCT TATT CTATT TACTT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT -TATT TA-TT
* * * * * * * * * *
89234192 TATT CATT TATC TGTT CATT TACT CA-T TATT TCTA T-TT TAGT CATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
89234238 TATT TATT TATT TATT T
1 TATT TATT TATT TATT T
89234255 TTGTTTCAAT
Statistics
Matches: 76, Mismatches: 27, Indels: 10
0.67 0.24 0.09
Matches are distributed among these distances:
3 6 0.08
4 62 0.82
5 8 0.11
ACGTcount: A:0.21, C:0.12, G:0.03, T:0.64
Consensus pattern (4 bp):
TATT
Found at i:89234196 original size:41 final size:41
Alignment explanation
Indices: 89234143--89234229 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 41
89234133 TTGATTCTGA
* * *
89234143 TATTTATTTATTCATTTA-CTTGTTTATTTATTCCTTA-TTC
1 TATTTATTTATTCATTTATC-TGTTCATTTACTCATTATTTC
89234183 TATTTACTTTATTCATTTATCTGTTCATTTACTCATTATTTC
1 TATTTA-TTTATTCATTTATCTGTTCATTTACTCATTATTTC
89234225 TATTT
1 TATTT
89234230 TAGTCATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
40 6 0.15
41 26 0.63
42 9 0.22
ACGTcount: A:0.21, C:0.14, G:0.02, T:0.63
Consensus pattern (41 bp):
TATTTATTTATTCATTTATCTGTTCATTTACTCATTATTTC
Found at i:89234577 original size:6 final size:6
Alignment explanation
Indices: 89234566--89234599 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
89234556 GGCATCTAGC
89234566 ATTTTT ATTTTT ACTTTTT ATTTTTT ATTTTT AT
1 ATTTTT ATTTTT A-TTTTT A-TTTTT ATTTTT AT
89234600 CACTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 14 0.54
7 12 0.46
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:89234585 original size:13 final size:12
Alignment explanation
Indices: 89234566--89234599 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
89234556 GGCATCTAGC
89234566 ATTTTTATTTTT
1 ATTTTTATTTTT
89234578 ACTTTTTATTTTTT
1 A-TTTTTA-TTTTT
89234592 ATTTTTAT
1 ATTTTTAT
89234600 CACTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.10
13 12 0.60
14 6 0.30
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:89235943 original size:7 final size:7
Alignment explanation
Indices: 89235931--89235970 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
89235921 ATATGTGCTC
89235931 TATTTAT
1 TATTTAT
89235938 TATTTAT
1 TATTTAT
89235945 TATTTAT
1 TATTTAT
89235952 TATTTAT
1 TATTTAT
89235959 TATTTAT
1 TATTTAT
89235966 TATTT
1 TATTT
89235971 GCTTCAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTAT
Found at i:89242554 original size:19 final size:19
Alignment explanation
Indices: 89242530--89242566 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
89242520 AAATCAATTG
*
89242530 GGAATATAAATTTGTCAAA
1 GGAATATAAATTTATCAAA
89242549 GGAATATAAATTTATCAA
1 GGAATATAAATTTATCAA
89242567 TTTTGACAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.32
Consensus pattern (19 bp):
GGAATATAAATTTATCAAA
Found at i:89249778 original size:43 final size:42
Alignment explanation
Indices: 89249701--89249819 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
89249691 CACATAGTAC
* * * *
89249701 CATACCAATGCCATATCCTAGATATGGTCGTACAT-AGGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACATGA-AATCT
* *
89249743 CATATCAATGCCAATAGCCCAGCTATGGTCTTACATGAAATCT
1 CATATCAATGCC-ATATCCCAGATATGGTCTTACATGAAATCT
* *
89249786 CATATCGATGCCATATCTCAGATATGGTCTTACA
1 CATATCAATGCCATATCCCAGATATGGTCTTACA
89249820 CAAAAATAGG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 30 0.46
43 34 0.52
44 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACATGAAATCT
Found at i:89259125 original size:40 final size:40
Alignment explanation
Indices: 89259047--89259270 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
89259037 ACCCAAGTAT
* *
89259047 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
89259086 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
89259126 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
89259166 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCTCAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
89259209 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
89259249 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
89259271 CATCCGAATA
Statistics
Matches: 162, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 12 0.07
40 114 0.70
41 1 0.01
43 35 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:89259243 original size:83 final size:80
Alignment explanation
Indices: 89259047--89259270 Score: 301
Period size: 83 Copynumber: 2.8 Consensus size: 80
89259037 ACCCAAGTAT
* * * *
89259047 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
89259111 CACTAGCATGAATGC
66 CACTAGCATAAATGC
* * *
89259126 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
89259190 CAACTACTCGC-TCAAATGC
66 C-ACTA---GCAT-AAATGC
*
89259209 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
89259271 CATCCGAATA
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
79 12 0.09
80 49 0.39
82 1 0.01
83 65 0.51
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCATAAATGC
Found at i:89261827 original size:13 final size:13
Alignment explanation
Indices: 89261809--89261833 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89261799 TAATGGTATA
89261809 TTGAATCCATGAT
1 TTGAATCCATGAT
89261822 TTGAATCCATGA
1 TTGAATCCATGA
89261834 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:89263276 original size:47 final size:47
Alignment explanation
Indices: 89263215--89263648 Score: 659
Period size: 47 Copynumber: 9.4 Consensus size: 47
89263205 CAGCCAAGAC
89263215 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
89263262 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
89263309 AGTG----TA--T-ATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
89263349 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
89263396 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTG-A
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
89263442 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
89263489 AGTGTATATATGTAATAAGGTCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
89263536 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
89263583 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
89263630 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
89263649 TCCCGAAGGG
Statistics
Matches: 356, Mismatches: 23, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
40 37 0.10
41 1 0.00
43 1 0.00
44 2 0.01
46 46 0.13
47 269 0.76
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:89263380 original size:87 final size:90
Alignment explanation
Indices: 89263229--89263586 Score: 553
Period size: 93 Copynumber: 3.9 Consensus size: 90
89263219 TATATATGTG
* *
89263229 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGA
1 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
89263294 TGTGATGAATGTGAAAGTG-TA-T-
66 TGTGATGAATGTGAAAGTGATAGTA
*
89263316 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
1 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
*
89263381 TGTGATGAATGTGAAAGTGTATATGTGTG
66 TGTGATGAATGTGAAAGTG-ATA---GTA
89263410 ATAAGGCCTAATAGCCGATGTGATGAATGTG-AAGTGTATATATGTGATAAGGCCTAATAGCCGA
1 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
89263474 TGTGATGAATGTGAAAGTGTATATATGTA
66 TGTGATGAATGTGAAAGTG---ATA-GTA
* * *
89263503 ATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
1 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
89263568 TGTGATGAATGTGAAAGTG
66 TGTGATGAATGTGAAAGTG
89263587 TATATATGTG
Statistics
Matches: 253, Mismatches: 8, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
87 81 0.32
89 2 0.01
93 84 0.33
94 82 0.32
95 4 0.02
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (90 bp):
ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGA
TGTGATGAATGTGAAAGTGATAGTA
Found at i:89263552 original size:140 final size:141
Alignment explanation
Indices: 89263215--89263648 Score: 686
Period size: 140 Copynumber: 3.1 Consensus size: 141
89263205 CAGCCAAGAC
89263215 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
89263280 GGCCTAATAGCCGATGTGATGAATGTGAAAGTG----TA--T-ATAAGGCCTAATAGCCGATGTG
66 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
89263338 ATGAATGTGAA
131 ATGAATGTGAA
89263349 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
89263414 GGCCTAATAGCCGATGTGATGAATGTG-AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
66 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
89263478 ATGAATGTGAA
131 ATGAATGTGAA
* * *
89263489 AGTGTATATATGTAATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
* * * * * * * *
89263554 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
66 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
*
89263619 ATGGATGTGAA
131 ATGAATGTGAA
* *
89263630 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
89263649 TCCCGAAGGG
Statistics
Matches: 277, Mismatches: 15, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
133 5 0.02
134 92 0.33
137 2 0.01
139 1 0.00
140 121 0.44
141 56 0.20
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
ATGAATGTGAA
Found at i:89263821 original size:36 final size:36
Alignment explanation
Indices: 89263766--89263842 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
89263756 CCGAGCTCTA
* *
89263766 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGT
*
89263802 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGT
89263838 AAGAC
1 AAGAC
89263843 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 36 0.97
37 1 0.03
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (36 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGT
Found at i:89266541 original size:78 final size:78
Alignment explanation
Indices: 89266409--89266563 Score: 256
Period size: 78 Copynumber: 2.0 Consensus size: 78
89266399 GAATGAACAA
* *
89266409 GGAGGAGAGATGTTAAGTGTTGCGGCATCAACAAAGTATTTTGGATCTCCGAAACACATATCAAG
1 GGAGGAGAGATGCTAAGTCTTGCGGCATCAACAAAGTATTTTGGATCTCCGAAACACATATCAAG
89266474 TTCAAAAGGGTCC
66 TTCAAAAGGGTCC
* * * *
89266487 GGAGGAGAGATGCTACGTCTTGGGGTATCAACAAAGTATTTTGGATCTCTGAAACACATATCAAG
1 GGAGGAGAGATGCTAAGTCTTGCGGCATCAACAAAGTATTTTGGATCTCCGAAACACATATCAAG
89266552 TTCAAAAGGGTC
66 TTCAAAAGGGTC
89266564 TTCGAGAAGT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (78 bp):
GGAGGAGAGATGCTAAGTCTTGCGGCATCAACAAAGTATTTTGGATCTCCGAAACACATATCAAG
TTCAAAAGGGTCC
Found at i:89267300 original size:44 final size:44
Alignment explanation
Indices: 89267237--89267999 Score: 439
Period size: 44 Copynumber: 16.9 Consensus size: 44
89267227 TATAATAGTG
* *
89267237 AATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * ** * * * *** *
89267281 AATCTCATATCTCTGAAGTTTTAGTAGAGTAGATTTAATATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-GCCACT
* * *
89267326 AATCTTAT-TCCCCTAAAGTTGCAGTGG-GACAGGTTGAAGCTATCAT
1 AATCTTATCT-CCCTGAAGTTGCAGTGGAG-CAGATTGAAGCCA-C-T
* *
89267372 GGCAGATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGCCACT
1 ---A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * *
89267420 AATCTCATTTCCCTGAAGTTGCAGT-GAGACAGGTTGAAGCTATCATGGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGC---CA---CT
* * *
89267470 GATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* *
89267514 AA-CATTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGCCACT
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * * * * **
89267558 AATCTTATCTCCCTAAAGTTGTAATGGAACAGGTTAAAGTTAC-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* **
89267601 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCCAAA
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * ** *
89267646 AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CT
* *
89267691 AATCTTAT-TCTCCTGAAGTTGCAATGG-GACA-AGTTGAAGCTATCAT
1 AATCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGA-TTGAAGCCA-C-T
*
89267737 GGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACT
1 ---A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * * * ** *
89267785 AACCTCATCTCCTTAAAGTTGTAGTGGAGCA-AGTTGAAGTTA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGCCACT
* ** *
89267828 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * ** * * ** *
89267873 GAATATTATCTCCCCGAAGTTATAGTGGAGTAGATTAAAGTAACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * ** * *** *
89267918 AATCTTATTTCTCTGAAGTTACAGTGGAATATATTGAAATTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * *
89267962 AATCTTATCTCCCTGAAGTTGTAGTGGGGTAGATTGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
89268000 ACAACAAATT
Statistics
Matches: 554, Mismatches: 125, Indels: 80
0.73 0.16 0.11
Matches are distributed among these distances:
43 9 0.02
44 331 0.60
45 99 0.18
46 2 0.00
47 4 0.01
48 2 0.00
49 4 0.01
50 94 0.17
51 9 0.02
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
Found at i:89267804 original size:227 final size:227
Alignment explanation
Indices: 89267518--89267937 Score: 619
Period size: 227 Copynumber: 1.9 Consensus size: 227
89267508 GCCACTAACA
* *
89267518 TTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGCCACTAATCTTATCTCCCTAAAGTTGTAAT
1 TTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGCCACTAACCTCATCTCCCTAAAGTTGTAAT
* * *
89267583 GGAACAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCCA-AAA
66 GGAACAAGTTAAAGTTAAAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACAGAAA
* * * *
89267647 ATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGATAGCAAATCTTA-TTCTCCTGAAGTT
131 ATATTATCTCCCCAAAGTTACAGTGGAGTAGATTAAAG-TAACAAATCTTATTTCT-CTGAAGTT
89267711 GCAATGGGACAAGTTGAAGCTATCATGGCAGATC
194 GCAATGGGACAAGTTGAAGCTATCATGGCAGATC
* * *
89267745 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACTAACCTCATCTCCTTAAAGTTGTAGT
1 TTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGCCACTAACCTCATCTCCCTAAAGTTGTAAT
* * * * * **
89267810 GGAGCAAGTTGAAGTTAAAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGTGA
66 GGAACAAGTTAAAGTTAAAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACAGAAA
* *
89267875 ATATTATCTCCCCGAAGTTATAGTGGAGTAGATTAAAGTAACAAATCTTATTTCTCTGAAGTT
131 ATATTATCTCCCCAAAGTTACAGTGGAGTAGATTAAAGTAACAAATCTTATTTCTCTGAAGTT
89267938 ACAGTGGAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
227 132 0.78
228 38 0.22
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (227 bp):
TTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGCCACTAACCTCATCTCCCTAAAGTTGTAAT
GGAACAAGTTAAAGTTAAAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACAGAAA
ATATTATCTCCCCAAAGTTACAGTGGAGTAGATTAAAGTAACAAATCTTATTTCTCTGAAGTTGC
AATGGGACAAGTTGAAGCTATCATGGCAGATC
Found at i:89267966 original size:271 final size:271
Alignment explanation
Indices: 89267377--89267982 Score: 670
Period size: 271 Copynumber: 2.2 Consensus size: 271
89267367 ATCATGGCAG
* * * * * ** * * *
89267377 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGCCA-CTAATCTCATTTCCCTGAAGTTG
1 ATCTTATCTCCCTAAAGTTACAGTGGAATAGATTAAAGATAGCAAATCTTATCTCCCTGAAGTTG
* * * *
89267441 CAGTGAGACAGGTTGAAGCTATCATGGCGGATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTG
66 CAATGAGACAAGTTGAAGCTATCATGGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTG
* * * *
89267506 AAGCCACTAACATTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGCCACTAATCTTATCTCCC
131 AAGCCACTAACATCATCTCCCTAAAGTTGCAGTAGAGAAGATTGAAGCCACAAATCTTATCTCCC
* * * * *
89267571 TAAAGTTGTAATGGAACAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAAT
196 TAAAGTTGTAATGGAACAGATTAAAGATACAAGTATTATCTCCCCGAAGTTACAGTGGAGCAAAT
*
89267636 TGAAGCCAAAA
261 TAAAGCCAAAA
* *
89267647 ATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGATAGCAAATCTTAT-TCTCCTGAAGTT
1 ATCTTATCTCCCTAAAGTTACAGTGGAATAGATTAAAGATAGCAAATCTTATCTC-CCTGAAGTT
*
89267711 GCAATGGGACAAGTTGAAGCTATCATGGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT
65 GCAATGAGACAAGTTGAAGCTATCATGGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT
* * * * **
89267776 GAAGCCACTAACCTCATCTCCTTAAAGTTGTAGTGGAGCAAG-TTGAAGTTA-AAAGTCTTATCT
130 GAAGCCACTAACATCATCTCCCTAAAGTTGCAGTAGAG-AAGATTGAAGCCACAAA-TCTTATCT
* * * * * *
89267839 CCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGTGAA-TATTATCTCCCCGAAGTTATAGTGGAG
193 CCCTAAAGTTGTAATGGAACAGATTAAAGATA--CAAGTATTATCTCCCCGAAGTTACAGTGGAG
* * *
89267903 TAGATTAAAG-TAACAA
256 CAAATTAAAGCCAA-AA
* * * * *
89267919 ATCTTATTTCTCTGAAGTTACAGTGGAATATATTGAAA-TTA-CAAATCTTATCTCCCTGAAGTT
1 ATCTTATCTCCCTAAAGTTACAGTGGAATAGATT-AAAGATAGCAAATCTTATCTCCCTGAAGTT
89267982 G
65 G
89267983 TAGTGGGGTA
Statistics
Matches: 283, Mismatches: 44, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
270 40 0.14
271 172 0.61
272 66 0.23
273 5 0.02
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (271 bp):
ATCTTATCTCCCTAAAGTTACAGTGGAATAGATTAAAGATAGCAAATCTTATCTCCCTGAAGTTG
CAATGAGACAAGTTGAAGCTATCATGGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTG
AAGCCACTAACATCATCTCCCTAAAGTTGCAGTAGAGAAGATTGAAGCCACAAATCTTATCTCCC
TAAAGTTGTAATGGAACAGATTAAAGATACAAGTATTATCTCCCCGAAGTTACAGTGGAGCAAAT
TAAAGCCAAAA
Found at i:89270712 original size:23 final size:23
Alignment explanation
Indices: 89270682--89270770 Score: 103
Period size: 23 Copynumber: 3.9 Consensus size: 23
89270672 AGCTTACTAT
*
89270682 TTTTAGCTC-ATTGGAGCTTACCG
1 TTTTAGCTCGA-TAGAGCTTACCG
*
89270705 TTTTAGCTCGATAGAGCTTACTG
1 TTTTAGCTCGATAGAGCTTACCG
*
89270728 -TTTAGCTCGATAGAGCTTACCA
1 TTTTAGCTCGATAGAGCTTACCG
*
89270750 TTTCAGCTC-ATTAGAGCTTAC
1 TTTTAGCTCGA-TAGAGCTTAC
89270771 TGTTCATCAG
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
22 21 0.36
23 36 0.62
24 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (23 bp):
TTTTAGCTCGATAGAGCTTACCG
Found at i:89270734 original size:22 final size:22
Alignment explanation
Indices: 89270695--89270770 Score: 100
Period size: 22 Copynumber: 3.4 Consensus size: 22
89270685 TAGCTCATTG
89270695 GAGCTTACCGTTTTAGCTCGATA
1 GAGCTTACCG-TTTAGCTCGATA
*
89270718 GAGCTTACTGTTTAGCTCGATA
1 GAGCTTACCGTTTAGCTCGATA
*
89270740 GAGCTTACCATTTCAGCTC-ATTA
1 GAGCTTACCGTTT-AGCTCGA-TA
89270763 GAGCTTAC
1 GAGCTTAC
89270771 TGTTCATCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
22 24 0.50
23 24 0.50
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (22 bp):
GAGCTTACCGTTTAGCTCGATA
Found at i:89278079 original size:40 final size:40
Alignment explanation
Indices: 89278031--89278295 Score: 432
Period size: 40 Copynumber: 6.7 Consensus size: 40
89278021 GCTACTGGCT
89278031 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
89278071 CAATTGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
89278111 CAATTGCCTTCGGGACTTGGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
89278151 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
89278191 CAAATGCCTTCGGGACTTGGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
89278231 CAAATGCCTTCGGGACTTAG--C--TATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGT-TATAGTAACTCGCA
89278268 CAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
89278296 CAATCCGAAT
Statistics
Matches: 210, Mismatches: 10, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
36 6 0.03
37 28 0.13
38 2 0.01
39 3 0.01
40 171 0.81
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:89286198 original size:40 final size:40
Alignment explanation
Indices: 89286117--89286417 Score: 446
Period size: 40 Copynumber: 7.6 Consensus size: 40
89286107 AAACCAAGTA
** * *
89286117 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
89286156 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
89286196 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
89286236 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * * *
89286276 CCTTCGGGACATGGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
89286316 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
89286356 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
89286396 CCTTCGGGA-TTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
89286418 CAATCCGAAT
Statistics
Matches: 242, Mismatches: 18, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
39 24 0.10
40 218 0.90
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:89289107 original size:16 final size:18
Alignment explanation
Indices: 89289076--89289108 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
89289066 AACTCGTCAC
89289076 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
89289094 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
89289109 AATTTGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:89296648 original size:16 final size:18
Alignment explanation
Indices: 89296617--89296649 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
89296607 AACTCGTCAC
89296617 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
89296635 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
89296650 AATTTGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:89304844 original size:12 final size:12
Alignment explanation
Indices: 89304706--89304848 Score: 58
Period size: 12 Copynumber: 11.3 Consensus size: 12
89304696 TAATTCTGTT
89304706 ATTTATTTATTC
1 ATTTATTTATTC
* * * *
89304718 ATCTACTTGTTT
1 ATTTATTTATTC
89304730 ATTTATTCCTTATTCC
1 ATTTA-T--TTATT-C
89304746 ATTTACTTTATTC
1 ATTTA-TTTATTC
* *
89304759 ATTTATCTGTTC
1 ATTTATTTATTC
* * *
89304771 ATTTACTCATTT
1 ATTTATTTATTC
89304783 ATTTATAAATTATTC
1 ATTTAT---TTATTC
*
89304798 ATTTATTTATTT
1 ATTTATTTATTC
89304810 ATTT-TTGT-TTC
1 ATTTATT-TATTC
* **
89304821 AATCCTTGTATTC
1 ATTTATT-TATTC
89304834 ATTTATTTATT-
1 ATTTATTTATTC
89304845 ATTT
1 ATTT
89304849 CGACATTTTT
Statistics
Matches: 95, Mismatches: 26, Indels: 21
0.67 0.18 0.15
Matches are distributed among these distances:
11 10 0.11
12 47 0.49
13 13 0.14
14 5 0.05
15 14 0.15
16 6 0.06
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.62
Consensus pattern (12 bp):
ATTTATTTATTC
Found at i:89305150 original size:15 final size:16
Alignment explanation
Indices: 89305130--89305172 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
89305120 GCATCTAGCA
89305130 TTTTTATTTTTCA-TT
1 TTTTTATTTTTCATTT
*
89305145 TTTTTATTTTTTATTT
1 TTTTTATTTTTCATTT
89305161 TTATTTATTTTT
1 TT-TTTATTTTT
89305173 ATTACTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 12 0.48
16 4 0.16
17 9 0.36
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTATTTTTCATTT
Found at i:89305157 original size:22 final size:22
Alignment explanation
Indices: 89305130--89305189 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
89305120 GCATCTAGCA
89305130 TTTTTATTTTTCATTT-TTTTAT
1 TTTTTATTTTT-ATTTATTTTAT
89305152 TTTTTATTTTTATTTATTTTTAT
1 TTTTTATTTTTATTTA-TTTTAT
* *
89305175 TACTTTATTTATATT
1 T-TTTTATTTTTATT
89305190 ATACCATGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 4 0.12
22 11 0.33
23 7 0.21
24 11 0.33
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTATTTTTATTTATTTTAT
Found at i:89305173 original size:10 final size:10
Alignment explanation
Indices: 89305132--89305175 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
89305122 ATCTAGCATT
89305132 TTTATTTTTCA
1 TTTATTTTT-A
* *
89305143 TTTTTTTATTT
1 TTTATTT-TTA
89305154 TTTATTTTTA
1 TTTATTTTTA
89305164 TTTATTTTTA
1 TTTATTTTTA
89305174 TT
1 TT
89305176 ACTTTATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
10 14 0.50
11 12 0.43
12 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:89305181 original size:14 final size:13
Alignment explanation
Indices: 89305129--89305191 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
89305119 GGCATCTAGC
89305129 ATTTTTATT-TTT
1 ATTTTTATTATTT
89305141 CATTTTT-TTATTT
1 -ATTTTTATTATTT
*
89305154 -TTTATTTTTATTT
1 ATTT-TTATTATTT
89305167 ATTTTTATTACTTT
1 ATTTTTATTA-TTT
*
89305181 ATTTATATTAT
1 ATTTTTATTAT
89305192 ACCATGGATT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
11 3 0.07
12 4 0.09
13 21 0.49
14 15 0.35
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTTATTATTT
Found at i:89305181 original size:18 final size:16
Alignment explanation
Indices: 89305132--89305186 Score: 60
Period size: 16 Copynumber: 3.3 Consensus size: 16
89305122 ATCTAGCATT
89305132 TTTATTTTTCA-TTTT-
1 TTTATTTTT-ATTTTTA
89305147 TTTATTTTTTATTTTTA
1 TTTA-TTTTTATTTTTA
89305164 TTTATTTTTATTACTTTA
1 TTTATTTTTATT--TTTA
89305182 TTTAT
1 TTTAT
89305187 ATTATACCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
15 5 0.14
16 17 0.49
17 4 0.11
18 9 0.26
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Found at i:89307283 original size:20 final size:20
Alignment explanation
Indices: 89307260--89307298 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
89307250 TGAAGGAAGA
89307260 TTATAGAAGAATCATGATTT
1 TTATAGAAGAATCATGATTT
89307280 TTATAGAAGAATCATGATT
1 TTATAGAAGAATCATGATT
89307299 AAAGTTTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.38
Consensus pattern (20 bp):
TTATAGAAGAATCATGATTT
Found at i:89309452 original size:18 final size:18
Alignment explanation
Indices: 89309429--89309464 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
89309419 AGAAAGTATG
89309429 ATTGAGTTATGGAAGAGT
1 ATTGAGTTATGGAAGAGT
89309447 ATTGAGTTATGGAAGAGT
1 ATTGAGTTATGGAAGAGT
89309465 GTCTACTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (18 bp):
ATTGAGTTATGGAAGAGT
Found at i:89314695 original size:13 final size:13
Alignment explanation
Indices: 89314670--89314695 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89314660 GAAATTGTTT
89314670 TTTGAAAATTTTG
1 TTTGAAAATTTTG
89314683 TTTGAAAATTTTG
1 TTTGAAAATTTTG
89314696 ACGTTTGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTGAAAATTTTG
Found at i:89316418 original size:13 final size:12
Alignment explanation
Indices: 89316397--89316431 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
89316387 GTCTTTTATC
89316397 TTTATTTATTTTA
1 TTTA-TTATTTTA
89316410 TTTACTTATTTTA
1 TTTA-TTATTTTA
89316423 TTTATTATT
1 TTTATTATT
89316432 AATTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:89316471 original size:44 final size:44
Alignment explanation
Indices: 89316440--89316550 Score: 159
Period size: 44 Copynumber: 2.5 Consensus size: 44
89316430 TTAATTTTAA
89316440 AAAAATTGAAATGTATATTTGAAATGTTTTATAATATATATTTT
1 AAAAATTGAAATGTATATTTGAAATGTTTTATAATATATATTTT
**
89316484 TTAAATTGAAATGTATATTTGAAATGTTTTATAATATATATTTTTT
1 AAAAATTGAAATGTATATTTGAAATGTTTTATAATATATA--TTTT
* *
89316530 AAAAATTTTAAATATATATTT
1 AAAAA-TTGAAATGTATATTT
89316551 CTGAAATTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
44 38 0.66
46 7 0.12
47 13 0.22
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (44 bp):
AAAAATTGAAATGTATATTTGAAATGTTTTATAATATATATTTT
Found at i:89316479 original size:23 final size:23
Alignment explanation
Indices: 89316453--89316526 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
89316443 AATTGAAATG
89316453 TATATTTGAAATGTTTTATAATA
1 TATATTTGAAATGTTTTATAATA
* * *
89316476 TATATTTTTTAAA---TTGA-AATG
1 TATA--TTTGAAATGTTTTATAATA
89316497 TATATTTGAAATGTTTTATAATA
1 TATATTTGAAATGTTTTATAATA
89316520 TATATTT
1 TATATTT
89316527 TTTAAAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
19 6 0.15
21 7 0.18
22 6 0.15
23 14 0.36
25 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (23 bp):
TATATTTGAAATGTTTTATAATA
Found at i:89316572 original size:22 final size:20
Alignment explanation
Indices: 89316554--89316627 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 20
89316544 TATATTTCTG
89316554 AAAT-TATTTTTCTAAATTTT
1 AAATATATTTTT-TAAATTTT
* *
89316574 AAATGTTATTTTTTAAACTTT
1 AAAT-ATATTTTTTAAATTTT
89316595 AAATATCATTTTTTAAATTTT
1 AAATAT-ATTTTTTAAATTTT
89316616 AAATATATTTTT
1 AAATATATTTTT
89316628 AATAATATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.23
21 30 0.62
22 7 0.15
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (20 bp):
AAATATATTTTTTAAATTTT
Found at i:89316770 original size:24 final size:24
Alignment explanation
Indices: 89316735--89316790 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
89316725 TTTTAATTTC
*
89316735 TTTTATAATATTTTAAA-TTATGAT
1 TTTTA-AATATTTAAAATTTATGAT
*
89316759 TTTTAAATTATTTAAAATTTATTAT
1 TTTTAAA-TATTTAAAATTTATGAT
89316784 TTTTAAA
1 TTTTAAA
89316791 GATATGACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 13 0.46
25 13 0.46
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTTAAATATTTAAAATTTATGAT
Found at i:89316843 original size:13 final size:13
Alignment explanation
Indices: 89316825--89316859 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
89316815 TTATTTTATA
89316825 ATATTTTAAATAT
1 ATATTTTAAATAT
89316838 ATATTTTAAATAT
1 ATATTTTAAATAT
89316851 -T-TTTTAAAT
1 ATATTTTAAAT
89316860 TTTAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 8 0.36
12 1 0.05
13 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATATTTTAAATAT
Found at i:89316863 original size:134 final size:133
Alignment explanation
Indices: 89316580--89316887 Score: 365
Period size: 134 Copynumber: 2.3 Consensus size: 133
89316570 TTTTAAATGT
* *
89316580 TATTTTTTAAACTTTAAATATCATTTTTTAAATTTTAAATATATTTTTAATAATATAAAACATTT
1 TATTTTTTAAA-TTTTAATATCATTTTATAAATTTTAAATATATTTTTAATAATATAAAACATTT
*
89316645 AAATATTTTAAAGATATGACCTTTCAAATCTATTATTAGTTTTATAATATTTTAAATGTATATTT
65 AAATATTTTAAAGATATGACCTTTCAAATCTATTATTAGTTTTATAATATTTTAAATATATATTT
89316710 TAAA
130 TAAA
*** ** * * *
89316714 TATTAAATATTTTTTAATTTC-TTTTATAATATTTTAAATTATGATTTTTAA-ATTATTTAAA-A
1 TATTTTTTAAATTTTAATATCATTTTATAA-ATTTTAAA-TAT-ATTTTTAATAATA-TAAAACA
* *
89316776 TTT-ATTATTTTTAAAGATATGACCTTTCAAATTTATTATTTA-TTTTATAATATTTTAAATATA
62 TTTAAATA-TTTTAAAGATATGACCTTTCAAATCTATTA-TTAGTTTTATAATATTTTAAATATA
89316839 TATTTTAAA
125 TATTTTAAA
*
89316848 TATTTTTTAAATTTTAAATATAATTTTTATAAATTATTAA
1 TATTTTTTAAATTTT-AATATCA-TTTTATAAATT-TTAA
89316888 TTTTAAAATT
Statistics
Matches: 144, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
132 7 0.05
133 19 0.13
134 84 0.58
135 19 0.13
136 3 0.02
137 12 0.08
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (133 bp):
TATTTTTTAAATTTTAATATCATTTTATAAATTTTAAATATATTTTTAATAATATAAAACATTTA
AATATTTTAAAGATATGACCTTTCAAATCTATTATTAGTTTTATAATATTTTAAATATATATTTT
AAA
Done.