Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 32 of 226
Found at i:11018576 original size:13 final size:13
Alignment explanation
Indices: 11018555--11018586 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11018545 GCTTGGATCA
*
11018555 TCATCAAATAAAT
1 TCATAAAATAAAT
11018568 TCATAAAATAAAT
1 TCATAAAATAAAT
11018581 TCATAA
1 TCATAA
11018587 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:11018833 original size:30 final size:29
Alignment explanation
Indices: 11018798--11018854 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
11018788 CCTCGACTCT
*
11018798 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTAC-ATTTTGCCCCTA
* *
11018828 AACTTTTACATAATTACATTTTTCCCC
1 AACTTTTACAAAATTACATTTTGCCCC
11018855 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.42
Consensus pattern (29 bp):
AACTTTTACAAAATTACATTTTGCCCCTA
Found at i:11025925 original size:50 final size:50
Alignment explanation
Indices: 11025801--11026049 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
11025791 GATAATAACA
* * ** * *
11025801 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
11025852 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
11025902 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
11025952 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
11026007 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
11026050 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:11025979 original size:100 final size:104
Alignment explanation
Indices: 11025800--11026049 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
11025790 TGATAATAAC
**
11025800 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
11025865 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
11025902 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
11025965 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
11026007 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11026050 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:11026165 original size:13 final size:13
Alignment explanation
Indices: 11026144--11026175 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11026134 GCTTGGATCA
*
11026144 TCATCAAATAAAT
1 TCATAAAATAAAT
11026157 TCATAAAATAAAT
1 TCATAAAATAAAT
11026170 TCATAA
1 TCATAA
11026176 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:11026422 original size:30 final size:30
Alignment explanation
Indices: 11026387--11026444 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11026377 CCTCGACTCT
*
11026387 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
11026417 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
11026445 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:11028461 original size:124 final size:124
Alignment explanation
Indices: 11028149--11028497 Score: 612
Period size: 124 Copynumber: 2.8 Consensus size: 124
11028139 CCCAAACTTG
*
11028149 CTACTGTAGCAAAATCGCGTCTACGAAGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAAGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
11028214 TAGAAGCGATTTTATACTATTTGCTCAAAAACGT-TAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
*
11028272 CTACTGTAGCAAAATCGCATCCACGAAGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAAGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
11028337 TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
* *
11028396 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATTCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAAGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
11028461 TAGAAGCGATTTTATACTATTTGAC-CAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTG-CTCAGAAACGTCAA
11028498 CTCGAAATAA
Statistics
Matches: 215, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
123 95 0.44
124 119 0.55
125 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAATCGCGTCCACGAAGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
Found at i:11029632 original size:25 final size:25
Alignment explanation
Indices: 11029582--11029636 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
11029572 ATTTTTAAAA
* **
11029582 TAAAATACTTTTCATAATTTGTATT
1 TAAAATACTTTTCATAATATAAATT
11029607 TAAAATACTATTTC-TAATATAAATT
1 TAAAATACT-TTTCATAATATAAATT
11029632 TAAAA
1 TAAAA
11029637 CTATTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (25 bp):
TAAAATACTTTTCATAATATAAATT
Found at i:11029665 original size:18 final size:18
Alignment explanation
Indices: 11029638--11029673 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11029628 AATTTAAAAC
*
11029638 TATTTAATTAAAATATTT
1 TATTTAATTAAAAAATTT
*
11029656 TATTTTATTAAAAAATTT
1 TATTTAATTAAAAAATTT
11029674 AAGCATCTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTTAATTAAAAAATTT
Found at i:11033085 original size:172 final size:172
Alignment explanation
Indices: 11032799--11033142 Score: 670
Period size: 172 Copynumber: 2.0 Consensus size: 172
11032789 GAAGCTAAAG
*
11032799 GTAGAGGTGATGATGTGATCAACACTAGTTCAGGTAACAAGTTATTTCAGATGTGCTTTATGTAC
1 GTAGAGGTGATGATGTGATCAACACTAGTTCAGGTAACAAGTTATTTCAGATGTGATTTATGTAC
*
11032864 CTGATATAGATCAGAACTTACTTAGTGTAGGTCAGTTGGTTAAAAAAGGCTATTCATTAGTCTTC
66 CTGATATAGATCAAAACTTACTTAGTGTAGGTCAGTTGGTTAAAAAAGGCTATTCATTAGTCTTC
11032929 AAGTATGGTTCTTGTGTTATTAAAGATTTTCATGGTCAGGAA
131 AAGTATGGTTCTTGTGTTATTAAAGATTTTCATGGTCAGGAA
11032971 GTAGAGGTGATGATGTGATCAACACTAGTTCAGGTAACAAGTTATTTCAGATGTGATTTATGTAC
1 GTAGAGGTGATGATGTGATCAACACTAGTTCAGGTAACAAGTTATTTCAGATGTGATTTATGTAC
11033036 CTGATATAGATCAAAACTTACTTAGTGTAGGTCAGTTGGTTAAAAAAGGCTATTCATTAGTCTTC
66 CTGATATAGATCAAAACTTACTTAGTGTAGGTCAGTTGGTTAAAAAAGGCTATTCATTAGTCTTC
11033101 AAGTATGGTTCTTGTGTTATTAAAGATTTTCATGGTCAGGAA
131 AAGTATGGTTCTTGTGTTATTAAAGATTTTCATGGTCAGGAA
11033143 ATAGTCTCAG
Statistics
Matches: 170, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
172 170 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.36
Consensus pattern (172 bp):
GTAGAGGTGATGATGTGATCAACACTAGTTCAGGTAACAAGTTATTTCAGATGTGATTTATGTAC
CTGATATAGATCAAAACTTACTTAGTGTAGGTCAGTTGGTTAAAAAAGGCTATTCATTAGTCTTC
AAGTATGGTTCTTGTGTTATTAAAGATTTTCATGGTCAGGAA
Found at i:11036231 original size:25 final size:24
Alignment explanation
Indices: 11036178--11036231 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
11036168 GTTTTTCATT
**
11036178 CTGTTTTTGCTTGCTTTGCTGTTA
1 CTGTTTTTGCTTGCTTTGCTGCCA
*
11036202 ATGTTTTTGCTTGCTGTTGCTGCCA
1 CTGTTTTTGCTTGCT-TTGCTGCCA
11036227 CTGTT
1 CTGTT
11036232 CCAACAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.06, C:0.19, G:0.22, T:0.54
Consensus pattern (24 bp):
CTGTTTTTGCTTGCTTTGCTGCCA
Found at i:11037413 original size:35 final size:35
Alignment explanation
Indices: 11037368--11037435 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
11037358 ATACAGAGAA
* * *
11037368 CAAATGAGGAAGAAACAAAGAATAATTTACTTAGG
1 CAAAGGAGGAAAAAACAAAGAACAATTTACTTAGG
11037403 CAAAGGAGGAAAAAACAAAGAACAATTTACTTA
1 CAAAGGAGGAAAAAACAAAGAACAATTTACTTA
11037436 AGCCTCCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.54, C:0.10, G:0.18, T:0.18
Consensus pattern (35 bp):
CAAAGGAGGAAAAAACAAAGAACAATTTACTTAGG
Found at i:11038118 original size:21 final size:21
Alignment explanation
Indices: 11038092--11038143 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
11038082 CATTGTTTCT
* *
11038092 AATCTCACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
11038113 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
11038134 AATCTCACCG
1 AATCTCACCG
11038144 TCACCGCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.35, G:0.10, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:11048896 original size:17 final size:17
Alignment explanation
Indices: 11048870--11048905 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
11048860 TAAAATTGAA
11048870 TTTTTTTTAATA-TATT
1 TTTTTTTTAATATTATT
11048886 TTTTGTTTTAATATTATT
1 TTTT-TTTTAATATTATT
11048904 TT
1 TT
11048906 GAATGTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 8 0.44
18 6 0.33
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTTTTTAATATTATT
Found at i:11061941 original size:23 final size:21
Alignment explanation
Indices: 11061896--11061946 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
11061886 TATGTTCTAA
*
11061896 AAATTATTTAAAAAATTTGGAT
1 AAATT-TTTAAAAAAATTGGAT
11061918 AAATTTTTAAAATAAATTGTGAT
1 AAATTTTTAAAA-AAATTG-GAT
11061941 -AATTTT
1 AAATTTT
11061947 CATTTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.27
22 16 0.62
23 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (21 bp):
AAATTTTTAAAAAAATTGGAT
Found at i:11061963 original size:40 final size:40
Alignment explanation
Indices: 11061919--11062055 Score: 140
Period size: 40 Copynumber: 3.5 Consensus size: 40
11061909 AATTTGGATA
*
11061919 AATTTTTAAAATAAATTGTGATAATTTTCATTTTAAAAAT
1 AATTTTTAAAATAAATTGAGATAATTTTCATTTTAAAAAT
* * * *
11061959 AATTTATACAATAAATTGGGATAACTTTTGC-TTTTAAAAGT
1 AATTTTTAAAATAAATTGAGATAA-TTTT-CATTTTAAAAAT
* *
11062000 AATTTTT--TA-AAATTCAGATAATTTTCATTTTAAAAAT
1 AATTTTTAAAATAAATTGAGATAATTTTCATTTTAAAAAT
* *
11062037 AA-TTTAAAAATAAACTGAG
1 AATTTTTAAAATAAATTGAG
11062056 TTAAATTTGT
Statistics
Matches: 78, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
36 4 0.05
37 15 0.19
38 11 0.14
39 7 0.09
40 21 0.27
41 19 0.24
42 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (40 bp):
AATTTTTAAAATAAATTGAGATAATTTTCATTTTAAAAAT
Found at i:11069851 original size:15 final size:15
Alignment explanation
Indices: 11069831--11069867 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
11069821 TATAATTGTA
*
11069831 CAAATATTTGTTATT
1 CAAATATTTGATATT
11069846 CAAATA-TTGATATT
1 CAAATATTTGATATT
11069860 -AAATATTT
1 CAAATATTT
11069868 TTCACTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 9 0.45
15 6 0.30
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (15 bp):
CAAATATTTGATATT
Found at i:11073121 original size:29 final size:28
Alignment explanation
Indices: 11073068--11073147 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 28
11073058 TTTAAAGAAA
11073068 TTTTAAAAATTCAGAAAAATATAAAAATAT
1 TTTTAAAAATT-A-AAAAATATAAAAATAT
*
11073098 TTTTAAAAATT-AAAAATCATTAAAATTAT
1 TTTTAAAAATTAAAAAAT-A-TAAAAATAT
*
11073127 TTTAAAAATATTAAAAAATAT
1 TTTTAAAA-ATTAAAAAATAT
11073148 TTTTAATACT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
27 6 0.14
28 1 0.02
29 16 0.36
30 15 0.34
31 6 0.14
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.38
Consensus pattern (28 bp):
TTTTAAAAATTAAAAAATATAAAAATAT
Found at i:11073143 original size:21 final size:21
Alignment explanation
Indices: 11073107--11073150 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
11073097 TTTTTAAAAA
*
11073107 TTAAAAATCATTAAAATTATT
1 TTAAAAATCATTAAAAATATT
11073128 TTAAAAAT-ATTAAAAAATATT
1 TTAAAAATCATT-AAAAATATT
11073149 TT
1 TT
11073151 TAATACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAAAAATCATTAAAAATATT
Found at i:11090633 original size:18 final size:18
Alignment explanation
Indices: 11090582--11090636 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
11090572 CAATTAGTTT
* *
11090582 TTTA-TTTTTATATTATT
1 TTTATTTTTTATAATATA
* *
11090599 TTTAATTATTTAAAATATA
1 TTT-ATTTTTTATAATATA
11090618 TTTATTTTTTATAATATA
1 TTTATTTTTTATAATATA
11090636 T
1 T
11090637 AATAAATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
17 3 0.10
18 15 0.50
19 12 0.40
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATTTTTTATAATATA
Found at i:11090640 original size:25 final size:24
Alignment explanation
Indices: 11090590--11090640 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
11090580 TTTTTATTTT
* *
11090590 TATATTATTTTTAATTATTTAAAA
1 TATATTATTTTTAATAATATAAAA
* *
11090614 TATATTTATTTTTTATAATATATAA
1 TATA-TTATTTTTAATAATATAAAA
11090639 TA
1 TA
11090641 AATATATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TATATTATTTTTAATAATATAAAA
Found at i:11093961 original size:11 final size:10
Alignment explanation
Indices: 11093945--11093992 Score: 55
Period size: 11 Copynumber: 4.7 Consensus size: 10
11093935 CTCTCTTTAT
11093945 ATTTTTTTAGA
1 ATTTTTTT-GA
11093956 ATTTTTTTAGA
1 ATTTTTTT-GA
11093967 A--TTTTTGA
1 ATTTTTTTGA
11093975 ATTTTTTTGTA
1 ATTTTTTTG-A
11093986 ATTTTTT
1 ATTTTTT
11093993 GTTGAGAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
8 3 0.09
9 5 0.15
10 6 0.18
11 20 0.59
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (10 bp):
ATTTTTTTGA
Found at i:11093976 original size:19 final size:20
Alignment explanation
Indices: 11093948--11093991 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
11093938 TCTTTATATT
11093948 TTTTTAGAATTTTTTTAG-AA
1 TTTTTAGAATTTTTTT-GTAA
11093968 TTTTT-GAATTTTTTTGTAA
1 TTTTTAGAATTTTTTTGTAA
11093987 TTTTT
1 TTTTT
11093992 TGTTGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (20 bp):
TTTTTAGAATTTTTTTGTAA
Found at i:11103545 original size:31 final size:31
Alignment explanation
Indices: 11103510--11103571 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
11103500 TAATGATTGA
11103510 AGATGATATTCCTTGATGATGGGACTAACTT
1 AGATGATATTCCTTGATGATGGGACTAACTT
11103541 AGATGATATTCCTTGATGATGGGACTAACTT
1 AGATGATATTCCTTGATGATGGGACTAACTT
11103572 TATTTCTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (31 bp):
AGATGATATTCCTTGATGATGGGACTAACTT
Found at i:11120223 original size:4 final size:4
Alignment explanation
Indices: 11120214--11120239 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
11120204 CATTCTATTC
11120214 TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TG
11120240 ACATGAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:11123465 original size:157 final size:157
Alignment explanation
Indices: 11123179--11123488 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
11123169 ATAAGAATAT
*
11123179 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
11123244 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
11123309 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
* *
11123336 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
11123401 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
* *
11123466 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
11123489 ATGCTAAGGG
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:11123639 original size:16 final size:16
Alignment explanation
Indices: 11123618--11123685 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
11123608 GATTTGCTAT
11123618 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11123634 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
11123650 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
11123666 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
11123682 TACA
1 TACA
11123686 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11123989 original size:114 final size:115
Alignment explanation
Indices: 11123864--11124083 Score: 273
Period size: 115 Copynumber: 1.9 Consensus size: 115
11123854 ATTCCATTAA
* * *
11123864 TTTGTGATGCTAATTTAATTTGATATTTTAAATTTT-TTAATTAAATTGAG-GTCTGATTAACTT
1 TTTGTGATGCTAATTTAATTTAATATTTTAAATTTTATTAATT-AATTGAGTATCCGATTAACTT
* * * ** * *
11123927 GTAATGTCAACTTTGTCAAGGGTTTAATATTAGTATTGATATTTTCATAAG
65 GTAATATCAACTCTATCAAAAGTTTAATATTAATATTCATATTTTCATAAG
* * * * *
11123978 TTTGTGATGCTATTTTAATTTAATTTTTTAATTTTTATTAATTGATTTAGTATCCGATTAACTTG
1 TTTGTGATGCTAATTTAATTTAATATTTTAAATTTTATTAATTAATTGAGTATCCGATTAACTTG
*
11124043 TGATATCAACTCTATCAAAAGTTTAATATTAATATTCATAT
66 TAATATCAACTCTATCAAAAGTTTAATATTAATATTCATAT
11124084 AGATACTATT
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
114 37 0.42
115 51 0.58
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (115 bp):
TTTGTGATGCTAATTTAATTTAATATTTTAAATTTTATTAATTAATTGAGTATCCGATTAACTTG
TAATATCAACTCTATCAAAAGTTTAATATTAATATTCATATTTTCATAAG
Found at i:11127336 original size:27 final size:27
Alignment explanation
Indices: 11127298--11127353 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
11127288 CGAAGATTCC
*
11127298 AAGTATCGAATATTGCCTTTATTTAGA
1 AAGTATCGAATATTGCATTTATTTAGA
11127325 AAGTATCGAATATTGCATTTATTTAGA
1 AAGTATCGAATATTGCATTTATTTAGA
11127352 AA
1 AA
11127354 AACTTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (27 bp):
AAGTATCGAATATTGCATTTATTTAGA
Found at i:11129558 original size:44 final size:44
Alignment explanation
Indices: 11129453--11129560 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 44
11129443 AAAATCCGCC
* * **
11129453 ATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTCAACCTGCTCCACTGCAACTTAGGGAGATAAGATCTGTA
* ** *
11129497 ATCTTCAATCTATTCCACTGCAACTTCAGGGAGATAAGATTTGT-
1 ATCTTCAACCTGCTCCACTGCAACTT-AGGGAGATAAGATCTGTA
11129541 ATCTTCAACCTGCTCCACTG
1 ATCTTCAACCTGCTCCACTG
11129561 TAACCGATGG
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 36 0.69
45 16 0.31
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTTCAACCTGCTCCACTGCAACTTAGGGAGATAAGATCTGTA
Found at i:11129657 original size:87 final size:87
Alignment explanation
Indices: 11129532--11131069 Score: 2204
Period size: 87 Copynumber: 17.7 Consensus size: 87
11129522 TCAGGGAGAT
* * * * *
11129532 AAGATTTG-TATCTTCAACCTGCTCCACTGTAACCGATGGAGGCAAGGTTTTGTTTTCGATCAGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
*
11129596 TTCACTGTTAATGCAGGAAGGC
66 TTCGCTGTTAATGCAGGAAGGC
* * *
11129618 AAGATATGTTGTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
*
11129683 TTCGATGTTAATGCAGGAAGGC
66 TTCGCTGTTAATGCAGGAAGGC
* * *
11129705 AAGATCTGTTATCTTTGACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTCTTTTCGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
*
11129770 TTCGTTGTTAATGCAGGAAGGC
66 TTCGCTGTTAATGCAGGAAGGC
* ** *
11129792 AAGATCTGCTATCTTTATCCAGCTCCACTATAACCGATGGAGGCAAGGTTTTGTTTTTGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
11129857 TTCGCTGTTAATGCAGGAAGGC
66 TTCGCTGTTAATGCAGGAAGGC
* * * * * **
11129879 AAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGA-GAGAGGCAAGGTTTGTGTCATCGATCT
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGTTT-TGTTTTCGATCT
*
11129943 GCTTCGCTGTTAATGCAGGAAGAC
64 GCTTCGCTGTTAATGCAGGAAGGC
* * * * *
11129967 AAGATCTGTTGTCTTTAACCAGCTCCGCTACAACC-AAGAGAGGCAAGGTTTTGTTTTCGATCTG
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGTTTTGTTTTCGATCTG
* * **
11130031 CTTCGTTGTTAACGCAGGAAAAC
65 CTTCGCTGTTAATGCAGGAAGGC
*
11130054 AAGATCTGCTATCTTTATCCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
* *
11130119 TTCGTTGTTAACGCAGGAAGGC
66 TTCGCTGTTAATGCAGGAAGGC
*
11130141 AAGATCTGCTATCTTTATCCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
11130206 TTCGCTGTTAATGCAGGAAGGC
66 TTCGCTGTTAATGCAGGAAGGC
* * * *
11130228 AAGATCTGCTATCTTTGACCAACTCCATTGCAACCGATGGAGGCAAGGTTTTCTTTTCGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
*
11130293 TTCGTTGTTAATGCAGGAAGGC
66 TTCGCTGTTAATGCAGGAAGGC
* * *
11130315 AAGATCTGCTATCTTTATCCAGCTCCACTGTAACCGATGGAGGCAAGGTTTTGTTTTTGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
11130380 TTCGCTGTTAATGCAGGAAGGC
66 TTCGCTGTTAATGCAGGAAGGC
* * * * * **
11130402 AAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGA-GAGAGGCAAGGTTTGTGTCATCGATCT
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGTTT-TGTTTTCGATCT
11130466 GCTTCGCTGTTAATGCAGGAAGGC
64 GCTTCGCTGTTAATGCAGGAAGGC
* * * * *
11130490 AAGATTTGTTGTCTTTAACCAGCTCCGCTACAACCGA-GAGAGGCAAGGTTTTGTTTTCGATCTG
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGTTTTGTTTTCGATCTG
* * **
11130554 CTTCGTTGTTAACGCAGGAAAAC
65 CTTCGCTGTTAATGCAGGAAGGC
* *
11130577 AATATCTGCTATCTTTATCCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
*
11130642 TTCGCTGTTAACGCAGGAAGGC
66 TTCGCTGTTAATGCAGGAAGGC
* * *
11130664 AAGATCTGCTATATTTATCCAGCTCCACTGCAACCGATGGATGCAAGGTTTTGTTTTCGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
* *
11130729 TTCGTTGTTAACGCAGGAAGGC
66 TTCGCTGTTAATGCAGGAAGGC
* * * *
11130751 AAGATCTGCTATCTTTATCCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTATTTTCGATTTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
*
11130816 TTCGCTGTTAACGCAGGAAGGC
66 TTCGCTGTTAATGCAGGAAGGC
* *
11130838 AATATCTACTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
*
11130903 TTCACTGTTAATGCAGGAAGGC
66 TTCGCTGTTAATGCAGGAAGGC
* *
11130925 AAGATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTCTTTTCGATCTGC
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
* *
11130990 TTCGTTGTTAATGTAGGAAGGC
66 TTCGCTGTTAATGCAGGAAGGC
* * *
11131012 AATATCTGCTATCTTTATCCAGCTCCACTGCAACCGATGGATGCAAGGTTTTGCTTTT
1 AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTG-TTTT
11131070 GATTTTTACT
Statistics
Matches: 1324, Mismatches: 119, Indels: 16
0.91 0.08 0.01
Matches are distributed among these distances:
86 9 0.01
87 1146 0.87
88 169 0.13
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (87 bp):
AAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGC
TTCGCTGTTAATGCAGGAAGGC
Found at i:11130490 original size:44 final size:44
Alignment explanation
Indices: 11129571--11130504 Score: 152
Period size: 44 Copynumber: 21.4 Consensus size: 44
11129561 TAACCGATGG
* * * *
11129571 AGGCAAGGTTT-TGTTTTCGATCAGCTTCACTGTTAATGCAGGA
1 AGGCAAGATTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
* ** * * * * * *
11129614 AGGCAAGATATGTTGTCTTTAACCAGCTCCACTG-CAA-CCGATGG-
1 AGGCAAGATTTG-TGTCTTCGATCTGCTTCGCTGTTAATGC-A-GGA
* * *
11129658 AGGCAAGGTTT-TGTTTTCGATCTGCTTCGATGTTAATGCAGGA
1 AGGCAAGATTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
* * * * * * * * *
11129701 AGGCAAGATCTGTTATCTTTGACCAGCTCCACTG-CAA-CCGATGG-
1 AGGCAAGATTTG-TGTCTTCGATCTGCTTCGCTGTTAATGC-A-GGA
* * * *
11129745 AGGCAAGGTTT-TCTTTTCGATCTGCTTCGTTGTTAATGCAGGA
1 AGGCAAGATTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
* * * * * * * *
11129788 AGGCAAGATCTGCTATCTT-TATCCAGCTCCACT-ATAA-CCGATGG-
1 AGGCAAGATTTG-TGTCTTCGAT-CTGCTTCGCTGTTAATGC-A-GGA
* * *
11129832 AGGCAAGGTTT-TGTTTTTGATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGATTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
* * * * * ** *
11129875 AGGCAAGATCTGTTGTCTTCAACCAGCTCCGCT-ACAA--CCGAGA
1 AGGCAAGATTTG-TGTCTTCGATCTGCTTCGCTGTTAATGCAG-GA
* *
11129918 GAGGCAAGGTTTGTGTCATCGATCTGCTTCGCTGTTAATGCAGGA
1 -AGGCAAGATTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
* * ** * * * ** * *
11129963 AGACAAGATCTGTTGTCTTTAACCAGCTCCGCT-ACAA-CCAAGA
1 AGGCAAGATTTG-TGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
* * * *
11130006 GAGGCAAGGTTT-TGTTTTCGATCTGCTTCGTTGTTAACGCAGGA
1 -AGGCAAGATTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
** * * * * * * * *
11130050 AAACAAGATCTGCTATCTT-TATCCAGCTCCACTG-CAA-CCGATGG-
1 AGGCAAGATTTG-TGTCTTCGAT-CTGCTTCGCTGTTAATGC-A-GGA
* * * *
11130094 AGGCAAGGTTT-TGTTTTCGATCTGCTTCGTTGTTAACGCAGGA
1 AGGCAAGATTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
* * * * * * * *
11130137 AGGCAAGATCTGCTATCTT-TATCCAGCTCCACTG-CAA-CCGATGG-
1 AGGCAAGATTTG-TGTCTTCGAT-CTGCTTCGCTGTTAATGC-A-GGA
* *
11130181 AGGCAAGGTTT-TGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGATTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
* * * * ** * ** * *
11130224 AGGCAAGATCTGCTATCTTTGACCAACTCCATTG-CAA-CCGATGG-
1 AGGCAAGATTTG-TGTCTTCGATCTGCTTCGCTGTTAATGC-A-GGA
* * * *
11130268 AGGCAAGGTTT-TCTTTTCGATCTGCTTCGTTGTTAATGCAGGA
1 AGGCAAGATTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
* * * * * * *
11130311 AGGCAAGATCTGCTATCTT-TATCCAGCTCCACTG-TAA-CCGATGG-
1 AGGCAAGATTTG-TGTCTTCGAT-CTGCTTCGCTGTTAATGC-A-GGA
* * *
11130355 AGGCAAGGTTT-TGTTTTTGATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGATTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
* * * * * ** *
11130398 AGGCAAGATCTGTTGTCTTCAACCAGCTCCGCT-ACAA--CCGAGA
1 AGGCAAGATTTG-TGTCTTCGATCTGCTTCGCTGTTAATGCAG-GA
* *
11130441 GAGGCAAGGTTTGTGTCATCGATCTGCTTCGCTGTTAATGCAGGA
1 -AGGCAAGATTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
11130486 AGGCAAGATTTGTTGTCTT
1 AGGCAAGATTTG-TGTCTT
11130505 TAACCAGCTC
Statistics
Matches: 587, Mismatches: 228, Indels: 150
0.61 0.24 0.16
Matches are distributed among these distances:
42 116 0.20
43 157 0.27
44 161 0.27
45 149 0.25
46 4 0.01
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (44 bp):
AGGCAAGATTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGA
Found at i:11130534 original size:44 final size:44
Alignment explanation
Indices: 11130398--11130536 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 44
11130388 TAATGCAGGA
*
11130398 AGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAG
1 AGGCAAGATTTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAG
* * * * * * ** *
11130442 AGGCAAGGTTTG-TGTCATCGATCTGCTTCGCTGTTAA-TGCAG-G
1 AGGCAAGATTTGTTGTCTTCAACCAGCTCCGCT-ACAACCG-AGAG
*
11130485 AAGGCAAGATTTGTTGTCTTTAACCAGCTCCGCTACAACCGAGAG
1 -AGGCAAGATTTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAG
11130530 AGGCAAG
1 AGGCAAG
11130537 GTTTTGTTTT
Statistics
Matches: 69, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
43 17 0.25
44 36 0.52
45 16 0.23
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (44 bp):
AGGCAAGATTTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAG
Found at i:11130536 original size:523 final size:523
Alignment explanation
Indices: 11129552--11131069 Score: 2513
Period size: 523 Copynumber: 2.9 Consensus size: 523
11129542 TCTTCAACCT
* * * *
11129552 GCTCCACTGTAACCGATGGAGGCAAGGTTTTGTTTTCGATCAGCTTCACTGTTAATGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
* * * *
11129617 CAAGATATGTTGTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTG
66 CAAGATCTGCTATCTTTATCCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTG
*
11129682 CTTCGATGTTAATGCAGGAAGGCAAGATCTGTTATCTTTGACCAGCTCCACTGCAACCGATGGAG
131 CTTCGATGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAG
11129747 GCAAGGTTTTCTTTTCGATCTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTATCC
196 GCAAGGTTTTCTTTTCGATCTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTATCC
*
11129812 AGCTCCACTATAACCGATGGAGGCAAGGTTTTGTTTTTGATCTGCTTCGCTGTTAATGCAGGAAG
261 AGCTCCACTGTAACCGATGGAGGCAAGGTTTTGTTTTTGATCTGCTTCGCTGTTAATGCAGGAAG
11129877 GCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCATCGATC
326 GCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCATCGATC
* *
11129942 TGCTTCGCTGTTAATGCAGGAAGACAAGATCTGTTGTCTTTAACCAGCTCCGCTACAACCAAGAG
391 TGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGTTGTCTTTAACCAGCTCCGCTACAACCGAGAG
11130007 AGGCAAGGTTTTGTTTTCGATCTGCTTCGTTGTTAACGCAGGAAAACAAGATCTGCTATCTTTAT
456 AGGCAAGGTTTTGTTTTCGATCTGCTTCGTTGTTAACGCAGGAAAACAAGATCTGCTATCTTTAT
11130072 CCA
521 CCA
*
11130075 GCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGTTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
11130140 CAAGATCTGCTATCTTTATCCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTG
66 CAAGATCTGCTATCTTTATCCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTG
* * *
11130205 CTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAACTCCATTGCAACCGATGGAG
131 CTTCGATGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAG
11130270 GCAAGGTTTTCTTTTCGATCTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTATCC
196 GCAAGGTTTTCTTTTCGATCTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTATCC
11130335 AGCTCCACTGTAACCGATGGAGGCAAGGTTTTGTTTTTGATCTGCTTCGCTGTTAATGCAGGAAG
261 AGCTCCACTGTAACCGATGGAGGCAAGGTTTTGTTTTTGATCTGCTTCGCTGTTAATGCAGGAAG
11130400 GCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCATCGATC
326 GCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCATCGATC
*
11130465 TGCTTCGCTGTTAATGCAGGAAGGCAAGATTTGTTGTCTTTAACCAGCTCCGCTACAACCGAGAG
391 TGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGTTGTCTTTAACCAGCTCCGCTACAACCGAGAG
*
11130530 AGGCAAGGTTTTGTTTTCGATCTGCTTCGTTGTTAACGCAGGAAAACAATATCTGCTATCTTTAT
456 AGGCAAGGTTTTGTTTTCGATCTGCTTCGTTGTTAACGCAGGAAAACAAGATCTGCTATCTTTAT
11130595 CCA
521 CCA
11130598 GCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
1 GCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
* *
11130663 CAAGATCTGCTATATTTATCCAGCTCCACTGCAACCGATGGATGCAAGGTTTTGTTTTCGATCTG
66 CAAGATCTGCTATCTTTATCCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTG
* *
11130728 CTTCGTTGTTAACGCAGGAAGGCAAGATCTGCTATCTTT-ATCCAGCTCCACTGCAACCGATGGA
131 CTTCGATGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGA-CCAGCTCCACTGCAACCGATGGA
* * * * * * * *
11130792 GGCAAGGCTTTATTTTCGATTTGCTTCGCTGTTAACGCAGGAAGGCAATATCTACTATCTTTAAC
195 GGCAAGGTTTTCTTTTCGATCTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTATC
* * *
11130857 CAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCACTGTTAATGCAGGAA
260 CAGCTCCACTGTAACCGATGGAGGCAAGGTTTTGTTTTTGATCTGCTTCGCTGTTAATGCAGGAA
* * ** * * * **
11130922 GGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCGATG-GAGGCAAGGTTT-TCTTTTCGA
325 GGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGA-GAGAGGCAAGGTTTGTGTCATCGA
* * * * * * * *
11130985 TCTGCTTCGTTGTTAATGTAGGAAGGCAATATCTGCTATCTTTATCCAGCTCCACTGCAACCGAT
389 TCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGTTGTCTTTAACCAGCTCCGCTACAACCGA-
*
11131050 G-GATGCAAGGTTTTGCTTTT
453 GAGAGGCAAGGTTTTG-TTTT
11131070 GATTTTTACT
Statistics
Matches: 936, Mismatches: 55, Indels: 8
0.94 0.06 0.01
Matches are distributed among these distances:
522 75 0.08
523 860 0.92
524 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (523 bp):
GCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGG
CAAGATCTGCTATCTTTATCCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTG
CTTCGATGTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAG
GCAAGGTTTTCTTTTCGATCTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTATCC
AGCTCCACTGTAACCGATGGAGGCAAGGTTTTGTTTTTGATCTGCTTCGCTGTTAATGCAGGAAG
GCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCATCGATC
TGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGTTGTCTTTAACCAGCTCCGCTACAACCGAGAG
AGGCAAGGTTTTGTTTTCGATCTGCTTCGTTGTTAACGCAGGAAAACAAGATCTGCTATCTTTAT
CCA
Found at i:11132277 original size:14 final size:14
Alignment explanation
Indices: 11132258--11132312 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
11132248 TTAGCCTCTC
11132258 CATTTTT-ACTCTTT
1 CATTTTTCA-TCTTT
*
11132272 CATTTTTCATTTTT
1 CATTTTTCATCTTT
*
11132286 CATTTTCCAT-TTT
1 CATTTTTCATCTTT
*
11132299 CATTCTTCATCTTT
1 CATTTTTCATCTTT
11132313 TTCTTTTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
13 11 0.31
14 23 0.66
15 1 0.03
ACGTcount: A:0.15, C:0.22, G:0.00, T:0.64
Consensus pattern (14 bp):
CATTTTTCATCTTT
Found at i:11132281 original size:7 final size:7
Alignment explanation
Indices: 11132269--11132313 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
11132259 ATTTTTACTC
11132269 TTTCATT
1 TTTCATT
11132276 TTTCATT
1 TTTCATT
11132283 TTTCATT
1 TTTCATT
*
11132290 TTCCA-T
1 TTTCATT
11132296 TTTCATT
1 TTTCATT
*
11132303 CTTCATCT
1 TTTCAT-T
11132311 TTT
1 TTT
11132314 TCTTTTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
6 5 0.16
7 24 0.75
8 3 0.09
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTCATT
Found at i:11132708 original size:6 final size:6
Alignment explanation
Indices: 11132669--11132735 Score: 54
Period size: 6 Copynumber: 11.8 Consensus size: 6
11132659 TTCTTTTCAT
* * * *
11132669 ATTTT- ATTTTG ACTTTG A--TTG ATTTCT- CTTTTG TTTTTG -TTTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTT-TG ATTTTG ATTTTG ATTTTG
11132713 ATTTTG ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTT
11132736 TTTCTCTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
4 4 0.08
5 10 0.20
6 36 0.71
7 1 0.02
ACGTcount: A:0.13, C:0.04, G:0.12, T:0.70
Consensus pattern (6 bp):
ATTTTG
Found at i:11135316 original size:19 final size:19
Alignment explanation
Indices: 11135292--11135337 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
11135282 GTGAAACTCT
*
11135292 AATGCATATG-ATGCAATAG
1 AATGCAAATGCATGCAAT-G
*
11135311 AATGCAAATGCATGGAATG
1 AATGCAAATGCATGCAATG
11135330 AATGCAAA
1 AATGCAAA
11135338 AGAAAATGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.22
Consensus pattern (19 bp):
AATGCAAATGCATGCAATG
Found at i:11139368 original size:17 final size:16
Alignment explanation
Indices: 11139346--11139386 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
11139336 AATTTGACTT
11139346 AAAAAAATTTATAACTC
1 AAAAAAATTTAT-ACTC
*
11139363 AAAAAAAATTATACTC
1 AAAAAAATTTATACTC
11139379 AAAAAAAT
1 AAAAAAAT
11139387 CCCAACTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAAATTTATACTC
Found at i:11148540 original size:24 final size:24
Alignment explanation
Indices: 11148512--11148563 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11148502 TTAGTAAGTC
*
11148512 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATGCT
* *
11148536 AAATATATTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATGCT
11148560 AAAT
1 AAAT
11148564 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATGCT
Found at i:11150180 original size:50 final size:47
Alignment explanation
Indices: 11150101--11150217 Score: 126
Period size: 50 Copynumber: 2.4 Consensus size: 47
11150091 CAATGAGTGT
* ** *
11150101 GCCAGTGTAAGACCATGTTTGGGATATGGCATCGACACGGATAGAGGAGA
1 GCCAGTGTAAGACCATGTCTAAGACATGGCATCGACAC--A-AGAGGAGA
* * * * *
11150151 GTCAGTGTAAGACCATGTCTAAGACATGGCATCGGCTCAAGATGAGT
1 GCCAGTGTAAGACCATGTCTAAGACATGGCATCGACACAAGAGGAGA
11150198 GCCAGTGTAAGACCATGTCT
1 GCCAGTGTAAGACCATGTCT
11150218 GGGACATGAC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
47 25 0.44
48 1 0.02
50 31 0.54
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (47 bp):
GCCAGTGTAAGACCATGTCTAAGACATGGCATCGACACAAGAGGAGA
Found at i:11150224 original size:47 final size:49
Alignment explanation
Indices: 11150099--11150230 Score: 151
Period size: 47 Copynumber: 2.7 Consensus size: 49
11150089 GGCAATGAGT
* *
11150099 GTGCCAGTGTAAGACCATGTTTGGGATATGGCATCGACACGGATAGAGGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAC-GATAGAGGA
* * ** * * *
11150149 GAGTCAGTGTAAGACCATGTCTAAGACATGGCATCGGCTC-A-AGATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGATAGAGGA
*
11150196 GTGCCAGTGTAAGACCATGTCTGGGACATGACATC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATC
11150231 AGCACCGATA
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
47 35 0.51
48 1 0.01
50 32 0.47
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (49 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGATAGAGGA
Found at i:11150385 original size:45 final size:44
Alignment explanation
Indices: 11150335--11150447 Score: 140
Period size: 45 Copynumber: 2.5 Consensus size: 44
11150325 AAAATAAAGT
11150335 TGATTGCTATGTGCTGATTTCACCGGATACCAATG-GTTATATAA-G
1 TGATTGCTATGTGCTGATTTCACCGG-TACCAATGAG-TATA-AATG
* * *
11150380 TGATTGCTATGTGTTGAATTCACCCGGTACCATTGAGTATAAATG
1 TGATTGCTATGTGCTGATTTCA-CCGGTACCAATGAGTATAAATG
*
11150425 TGGTTGCTATGTGCTGATTTCAC
1 TGATTGCTATGTGCTGATTTCAC
11150448 TGAGTGCTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
44 3 0.05
45 51 0.86
46 5 0.08
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (44 bp):
TGATTGCTATGTGCTGATTTCACCGGTACCAATGAGTATAAATG
Found at i:11153448 original size:24 final size:24
Alignment explanation
Indices: 11153420--11153472 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
11153410 TTAGTAAGTC
* *
11153420 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* * *
11153444 AAATATATTATATTAATAAATACT
1 AAATAAACTATACTAATAAATACT
11153468 AAATA
1 AAATA
11153473 TTCTAAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11153929 original size:33 final size:34
Alignment explanation
Indices: 11153869--11153932 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
11153859 TATAATCCTG
* *
11153869 ATAAAATTTTTAATTATTGTTCAAATGAAATAAA
1 ATAAAATTTATAATTATTCTTCAAATGAAATAAA
*
11153903 ATAAAATTTAT-ATTTTTCTTCAAATGAAAT
1 ATAAAATTTATAATTATTCTTCAAATGAAAT
11153933 GAATATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 17 0.63
34 10 0.37
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (34 bp):
ATAAAATTTATAATTATTCTTCAAATGAAATAAA
Found at i:11155394 original size:3 final size:3
Alignment explanation
Indices: 11155388--11155421 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
11155378 TTCTTCTTCT
11155388 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
11155422 TGCCCTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:11156344 original size:49 final size:47
Alignment explanation
Indices: 11156272--11156366 Score: 145
Period size: 49 Copynumber: 2.0 Consensus size: 47
11156262 TGTATGGTAG
* *
11156272 TTGTTATAATTAGTTATTTCATTACTTTCTTTTTACAGATTATTCTTTA
1 TTGTTATAATTAGTTATTCCATTAC-TT-TTTTCACAGATTATTCTTTA
*
11156321 TTGTTATAATTAGTTATTCCATTACTTTTTTCCCAGATTATTCTTT
1 TTGTTATAATTAGTTATTCCATTACTTTTTTCACAGATTATTCTTT
11156367 CATATAGATT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 17 0.40
48 2 0.05
49 24 0.56
ACGTcount: A:0.23, C:0.13, G:0.06, T:0.58
Consensus pattern (47 bp):
TTGTTATAATTAGTTATTCCATTACTTTTTTCACAGATTATTCTTTA
Found at i:11165307 original size:12 final size:12
Alignment explanation
Indices: 11165290--11165315 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11165280 AAACTTGGAT
11165290 GAGGATGAGGAA
1 GAGGATGAGGAA
11165302 GAGGATGAGGAA
1 GAGGATGAGGAA
11165314 GA
1 GA
11165316 TCCTTTGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.50, T:0.08
Consensus pattern (12 bp):
GAGGATGAGGAA
Found at i:11185259 original size:17 final size:18
Alignment explanation
Indices: 11185228--11185264 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
11185218 TCTAGACATA
11185228 TATATTTTTTAATAATTT
1 TATATTTTTTAATAATTT
11185246 TATATTTTTT-ATAATTT
1 TATATTTTTTAATAATTT
11185263 TA
1 TA
11185265 AAAAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATATTTTTTAATAATTT
Found at i:11188379 original size:22 final size:22
Alignment explanation
Indices: 11188344--11188405 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
11188334 AATAAAATGA
*
11188344 AATTTATTTAATTACTATATATT
1 AATTT-TTAAATTACTATATATT
* *
11188367 AATTTTTAAATTATTATATTTT
1 AATTTTTAAATTACTATATATT
* *
11188389 TATTTTTATAATGACTA
1 AATTTTTA-AATTACTA
11188406 AATTTATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 21 0.66
23 11 0.34
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (22 bp):
AATTTTTAAATTACTATATATT
Found at i:11192469 original size:2 final size:2
Alignment explanation
Indices: 11192462--11192486 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11192452 CACTACATAT
11192462 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
11192487 ATGAGAGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11193871 original size:11 final size:12
Alignment explanation
Indices: 11193855--11193896 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 12
11193845 GAGAGCAGAA
11193855 TTTTCT-TTGAG
1 TTTTCTCTTGAG
* *
11193866 TTTTCTCTAAGAT
1 TTTTCTCT-TGAG
11193879 TTTTCTCTTGAG
1 TTTTCTCTTGAG
11193891 TTTTCT
1 TTTTCT
11193897 TTAGAAGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
11 6 0.24
12 9 0.36
13 10 0.40
ACGTcount: A:0.12, C:0.14, G:0.12, T:0.62
Consensus pattern (12 bp):
TTTTCTCTTGAG
Found at i:11197753 original size:3 final size:3
Alignment explanation
Indices: 11197745--11197784 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
11197735 TTTTCTACAT
11197745 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
11197785 GACTCATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:11199937 original size:19 final size:19
Alignment explanation
Indices: 11199913--11199966 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
11199903 AATCTTCAGG
11199913 GATATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
11199932 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
* *
11199951 GATATGCAATTTTAGA
1 GATATACAATCTTAGA
11199967 AGATATGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:11199992 original size:22 final size:21
Alignment explanation
Indices: 11199926--11199992 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 21
11199916 ATACAATCTT
*
11199926 AGATATGATATATAATCTT--
1 AGATATGATATGTAATCTTAG
* *
11199945 AGATATGATATGCAATTTTAG
1 AGATATGATATGTAATCTTAG
*
11199966 AAGATATGATTTTGTAATCTTAG
1 -AGATATGA-TATGTAATCTTAG
11199989 AGAT
1 AGAT
11199993 TTAATTTGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 16 0.42
22 12 0.32
23 10 0.26
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.40
Consensus pattern (21 bp):
AGATATGATATGTAATCTTAG
Found at i:11200195 original size:21 final size:19
Alignment explanation
Indices: 11200156--11200196 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
11200146 GGTGGCTTAC
*
11200156 TATTTTTTTTTCTTTCGAT
1 TATTTTTTTTTATTTCGAT
11200175 TATTTTTTATTTATTTACGAT
1 TATTTTTT-TTTATTT-CGAT
11200196 T
1 T
11200197 TTAAAAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 6 0.32
21 5 0.26
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.71
Consensus pattern (19 bp):
TATTTTTTTTTATTTCGAT
Found at i:11200663 original size:22 final size:22
Alignment explanation
Indices: 11200600--11200658 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 22
11200590 TAATATAATT
*
11200600 ATTATTTTTATTTATTTATATGTA
1 ATTA-TTTT-TTTATCTATATGTA
11200624 ATTATTTTTTTATCTATATGT-
1 ATTATTTTTTTATCTATATGTA
11200645 ATATATTTATTTTA
1 AT-TATTT-TTTTA
11200659 GTATACATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
21 2 0.06
22 17 0.53
23 9 0.28
24 4 0.12
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (22 bp):
ATTATTTTTTTATCTATATGTA
Found at i:11202414 original size:17 final size:17
Alignment explanation
Indices: 11202366--11202414 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
11202356 TCTCCTAACA
* *
11202366 GAGCTCCCATCTTTGGT
1 GAGCTCGCATCTTTGAT
*
11202383 GAGCTCGGA-CATTTGAT
1 GAGCTCGCATC-TTTGAT
11202400 GAGCTCGCATCTTTG
1 GAGCTCGCATCTTTG
11202415 CAATTTGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 1 0.04
17 24 0.92
18 1 0.04
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (17 bp):
GAGCTCGCATCTTTGAT
Found at i:11206360 original size:23 final size:23
Alignment explanation
Indices: 11206334--11206432 Score: 121
Period size: 23 Copynumber: 4.3 Consensus size: 23
11206324 ATAAGTGCCA
*
11206334 CACTGATATGTAGCCGAAGCTAT
1 CACTGATATGTAGCCGAAGCTAC
11206357 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
11206380 CACTAAAATGTAGTC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
*
11206403 CACTGA-ATTGTAGTCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
11206426 CACTGAT
1 CACTGAT
11206433 CAATAACATT
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
22 2 0.03
23 64 0.96
24 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:11210165 original size:21 final size:21
Alignment explanation
Indices: 11210124--11210167 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11210114 AATTTTCAAA
**
11210124 GTTGGTATCGATATTTAATTG
1 GTTGGTATCGATACATAATTG
11210145 GTTGGTATCGATACCAT-ATTG
1 GTTGGTATCGATA-CATAATTG
11210166 GT
1 GT
11210168 ACTTTATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.23, C:0.09, G:0.25, T:0.43
Consensus pattern (21 bp):
GTTGGTATCGATACATAATTG
Found at i:11216536 original size:12 final size:12
Alignment explanation
Indices: 11216519--11216549 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11216509 CTTTAGTTTT
11216519 CACACGGCCTAG
1 CACACGGCCTAG
*
11216531 CACACGGCCTGG
1 CACACGGCCTAG
11216543 CACACGG
1 CACACGG
11216550 GCGTGTGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.42, G:0.29, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:11218746 original size:26 final size:26
Alignment explanation
Indices: 11218716--11218767 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
11218706 CACCACTGAA
*
11218716 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
11218742 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
11218768 CTTTCATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:11218911 original size:104 final size:104
Alignment explanation
Indices: 11218684--11219050 Score: 627
Period size: 104 Copynumber: 3.6 Consensus size: 104
11218674 TAACCGTTAT
* * *
11218684 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
11218748 AATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
11218785 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
11218850 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
11218889 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
11218954 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* * **
11218993 TGGTGGATCA-CGCACATAGCACCACC-ATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
11219051 TTATATACAA
Statistics
Matches: 255, Mismatches: 7, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
101 57 0.22
102 28 0.11
103 29 0.11
104 140 0.55
105 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:11219407 original size:29 final size:29
Alignment explanation
Indices: 11219374--11219437 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
11219364 TAATCCACCA
11219374 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
11219403 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
11219433 CCCAA
1 CCCAA
11219438 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:11219411 original size:30 final size:30
Alignment explanation
Indices: 11219381--11219437 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11219371 CCACCCAACT
11219381 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
11219410 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
11219438 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:11226440 original size:104 final size:104
Alignment explanation
Indices: 11226260--11226526 Score: 455
Period size: 104 Copynumber: 2.6 Consensus size: 104
11226250 TAACCGTTAT
* **
11226260 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
11226325 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
11226364 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
11226429 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
11226468 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
11226527 TTATATACAA
Statistics
Matches: 154, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
104 153 0.99
105 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.18
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:11226885 original size:29 final size:29
Alignment explanation
Indices: 11226852--11226915 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
11226842 TAATCCACCA
11226852 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
11226881 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
11226911 CCCAA
1 CCCAA
11226916 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:11226889 original size:30 final size:30
Alignment explanation
Indices: 11226859--11226915 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11226849 CCACCCAACT
11226859 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
11226888 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
11226916 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:11228515 original size:23 final size:23
Alignment explanation
Indices: 11228480--11228601 Score: 156
Period size: 23 Copynumber: 5.3 Consensus size: 23
11228470 AGTGTTATTG
* *
11228480 ATCACTGGTAGCTTCAGCTACA-
1 ATCAGTGGTAGCTTCGGCTACAT
* *
11228502 ATTTAGTGGTAGCTACGGCTACAT
1 A-TCAGTGGTAGCTTCGGCTACAT
* *
11228526 ATCATTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
11228549 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
11228572 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
11228595 ATCAGTG
1 ATCAGTG
11228602 TGACACTTAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
22 1 0.01
23 82 0.98
24 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:11243081 original size:21 final size:21
Alignment explanation
Indices: 11243009--11243105 Score: 63
Period size: 21 Copynumber: 4.5 Consensus size: 21
11242999 ATCATTTAAA
*
11243009 ATTTATAAAATTATTTTAAAAAA
1 ATTTA-AAAATTA-TTTAAAAAT
* *
11243032 ACTTGTAAAAATTA-TAAAAAAA
1 A-TT-TAAAAATTATTTAAAAAT
** *
11243054 AAGTAAAAATTATTTACATAAT
1 ATTTAAAAATTATTTA-AAAAT
**
11243076 -TTTAAATTTTATTTAAAAAT
1 ATTTAAAAATTATTTAAAAAT
11243096 ATTTAAAAAT
1 ATTTAAAAAT
11243106 GTTTTTCAAT
Statistics
Matches: 56, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
20 13 0.23
21 20 0.36
22 11 0.20
23 1 0.02
24 9 0.16
25 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
ATTTAAAAATTATTTAAAAAT
Found at i:11243190 original size:55 final size:51
Alignment explanation
Indices: 11243131--11243292 Score: 134
Period size: 55 Copynumber: 3.1 Consensus size: 51
11243121 GCTTGGAGAT
**
11243131 TTTTGGTAACTACCTTTTACAATTATTTTTAAAATTATTATAATTTTTTAAACAA
1 TTTTGGTAA-TAATTTTTACAATTATTTTTAAAATTATTAT-ATTTTTT--ACAA
* * * *
11243186 TTTTGGTTAATATTTTTTACATTTGTTTTTTTAAAATTATTATA-GTTTTACAA
1 TTTTGG-TAATAATTTTTACA-AT-TATTTTTAAAATTATTATATTTTTTACAA
* * *
11243239 TTTT--TAAATAATTTTTATAATTATTTTTAAGATTATTATGA-TTTTTAAAA
1 TTTTGGT-AATAATTTTTACAATTATTTTTAAAATTATTAT-ATTTTTTACAA
11243289 TTTT
1 TTTT
11243293 TAACAATTCT
Statistics
Matches: 90, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
49 16 0.18
50 14 0.16
51 11 0.12
53 8 0.09
55 19 0.21
56 5 0.06
57 17 0.19
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.57
Consensus pattern (51 bp):
TTTTGGTAATAATTTTTACAATTATTTTTAAAATTATTATATTTTTTACAA
Found at i:11243383 original size:29 final size:30
Alignment explanation
Indices: 11243351--11243431 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 30
11243341 TAAAAAAATA
*
11243351 AATTTTAAAGTTTTCTAAA-TATTTTTAC-T
1 AATTTTAAA-TTTTCTAAAGAATTTTTACAT
*
11243380 AATTTTTATATTTT-TAAAGAATTTTTACAT
1 AA-TTTTAAATTTTCTAAAGAATTTTTACAT
**
11243410 CTTTTTAAATTTTCTAAA-AATT
1 AATTTTAAATTTTCTAAAGAATT
11243432 ATATATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
28 4 0.09
29 28 0.65
30 11 0.26
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (30 bp):
AATTTTAAATTTTCTAAAGAATTTTTACAT
Found at i:11250340 original size:2 final size:2
Alignment explanation
Indices: 11250333--11250363 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
11250323 TTCTTTATTT
*
11250333 TG TG TG TG TG TG TG TG TG TG TG AG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
11250364 TGAGAAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.48, T:0.48
Consensus pattern (2 bp):
TG
Found at i:11252702 original size:29 final size:29
Alignment explanation
Indices: 11252622--11252702 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 29
11252612 AGACTTGATA
* *
11252622 CACACAGCCGTGTCGCAGACCATGTATGG
1 CACACGGCCGTGTCGCAGACCGTGTATGG
*
11252651 CACACGGCCGTGTCGCAAACCGTGTATGG
1 CACACGGCCGTGTCGCAGACCGTGTATGG
* * *
11252680 CACACGGTCGTGTGGCAGCCCGT
1 CACACGGCCGTGTCGCAGACCGT
11252703 CTCCCAGGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.20, C:0.32, G:0.31, T:0.17
Consensus pattern (29 bp):
CACACGGCCGTGTCGCAGACCGTGTATGG
Found at i:11266244 original size:105 final size:99
Alignment explanation
Indices: 11266106--11266312 Score: 281
Period size: 98 Copynumber: 2.0 Consensus size: 99
11266096 AAAAACGAAA
* *
11266106 AAAAAAAATTTTTGGTGCTGACCTGTCAATGGCCGGCACCCAGTACAATTAAAAAAATATTTTTA
1 AAAAAAAATTTTGGGTGCTGACCTGTCAATGGCCGGCACCCAGCACAATT---AAAA-A--TTT-
* *
11266171 TTTTTTTGTGTCAGAATTAGATATAAATATACAAAAAAAAT
59 TTTTTTCGTGTCAGAATCAGATATAAATATACAAAAAAAAT
* *
11266212 AAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGCACAATTTAAAATTTTTTTTTC
1 AAAAAAAATTTTGGGTGCTGACCTGTCAATGGCCGGCACCCAGCACAATTAAAAATTTTTTTTTC
*
11266276 GTGTCAGAATCAGATATAAATATACGAAAAAAAT
66 GTGTCAGAATCAGATATAAATATACAAAAAAAAT
11266310 AAA
1 AAA
11266313 TAATTTTTTT
Statistics
Matches: 94, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
98 41 0.44
99 3 0.03
101 1 0.01
102 3 0.03
105 38 0.40
106 8 0.09
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (99 bp):
AAAAAAAATTTTGGGTGCTGACCTGTCAATGGCCGGCACCCAGCACAATTAAAAATTTTTTTTTC
GTGTCAGAATCAGATATAAATATACAAAAAAAAT
Found at i:11266454 original size:107 final size:107
Alignment explanation
Indices: 11266316--11266707 Score: 517
Period size: 107 Copynumber: 3.6 Consensus size: 107
11266306 AAATAAATAA
*
11266316 TTTTTTTTAAAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCAAAATTTTTTTTTTATTT
1 TTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCAAAATTTTTTTTTTATTT
* * *
11266381 TTTTCGTATATTTATTTTTTATTCTGACACGAAAAAAAAGAT
66 TTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAT
* * *
11266423 TTTTTTTTTAATTTGTACTGGGTGCCAGCCATTGACAGGCCAGCACC-AAA-TTTTTTTTTA-TT
1 TTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCAAAATTTTTTTTTTATTT
11266485 TTTTCGTATATTTATATCTGATTCTGACACG-AAAAAAAGAAT
66 TTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAG-AT
* *
11266527 TTTTTTTTTAAAAATTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTGTTATT
1 TTTTTTTTT--AAA-TTGTACTGGGTGCCGGCCATTGACAGGCCAACACCAAAATTTTT-TT-TT
* *
11266592 T-TTTATTT-GTATATTTATATCTGATTCTGACACGAAAAAAAATAAAAAT
61 TATTTTTTTCGTATATTTATATCTGATTCTGACACG---AAAAA-AAAGAT
* * * *
11266641 ATATTTTTTAAATTGTACTGGGTGCCGGCCATTGACAAGCCAACACCAAAATTTTTTTTTTGTTT
1 TTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCAAAATTTTTTTTTTATTT
11266706 TT
66 TT
11266708 CTTTTTTTCC
Statistics
Matches: 253, Mismatches: 17, Indels: 27
0.85 0.06 0.09
Matches are distributed among these distances:
103 8 0.03
104 41 0.16
105 10 0.04
106 5 0.02
107 77 0.30
108 3 0.01
109 7 0.03
110 34 0.13
111 49 0.19
112 3 0.01
114 13 0.05
115 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (107 bp):
TTTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAACACCAAAATTTTTTTTTTATTT
TTTTCGTATATTTATATCTGATTCTGACACGAAAAAAAAGAT
Found at i:11270666 original size:12 final size:12
Alignment explanation
Indices: 11270649--11270675 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11270639 AATGGGACCT
11270649 GGAGGGCCGGGA
1 GGAGGGCCGGGA
11270661 GGAGGGCCGGGA
1 GGAGGGCCGGGA
11270673 GGA
1 GGA
11270676 CCTGGTGGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.15, G:0.67, T:0.00
Consensus pattern (12 bp):
GGAGGGCCGGGA
Found at i:11270711 original size:30 final size:29
Alignment explanation
Indices: 11270643--11270713 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
11270633 TAGCAAAATG
* *
11270643 GGACCTGGAGGGCCGGGAGGAGGGCCGGGA
1 GGACCTGGTGGACCGGGAGGAGGG-CGGGA
11270673 GGACCTGGTGGACCGGGAGGATGGG-GAGGA
1 GGACCTGGTGGACCGGGAGGA-GGGCG-GGA
11270703 GGACCTGGTGG
1 GGACCTGGTGG
11270714 TTGGGGTCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 1 0.03
30 33 0.89
31 3 0.08
ACGTcount: A:0.17, C:0.17, G:0.58, T:0.08
Consensus pattern (29 bp):
GGACCTGGTGGACCGGGAGGAGGGCGGGA
Found at i:11282894 original size:51 final size:50
Alignment explanation
Indices: 11282799--11282908 Score: 193
Period size: 51 Copynumber: 2.2 Consensus size: 50
11282789 TGAGTATTTT
* *
11282799 TGATCAGTGACAAGTGATAAGTGGTAGTTTAGCTACACTTATCTGATCAG
1 TGATAAGTGACAAGTGATAAGTGATAGTTTAGCTACACTTATCTGATCAG
11282849 TGATAAGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAG
1 TGATAAGTGACAAGTGATAAGTGATAG-TTTAGCTACACTTATCTGATCAG
11282900 TGATAAGTG
1 TGATAAGTG
11282909 GTAGTTTTAG
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
50 25 0.44
51 32 0.56
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (50 bp):
TGATAAGTGACAAGTGATAAGTGATAGTTTAGCTACACTTATCTGATCAG
Found at i:11282918 original size:37 final size:37
Alignment explanation
Indices: 11282861--11282946 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
11282851 ATAAGTGACA
11282861 AGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
1 AGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
* * *
11282898 AGTGATAAGTGGTAGTTTTAGCTGCACTTATCTGATC
1 AGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
11282935 AGTGATAAGTGA
1 AGTGATAAGTGA
11282947 CAAGTGATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (37 bp):
AGTGATAAGTGATAGCTTTAGCTACACTTATCTGATC
Found at i:11282978 original size:50 final size:50
Alignment explanation
Indices: 11282898--11283052 Score: 198
Period size: 50 Copynumber: 3.2 Consensus size: 50
11282888 TTATCTGATC
* **
11282898 AGTGATAAGTGGTAGTTTTAGCTGCACTTATCTGATCAGTGATAAGTGACA
1 AGTGATAAATGGTAGCCTTAGCTGCACTTATCTGATCAGTGA-AAGTGACA
*
11282949 AGTGATAAATGGTA-CCTTAGCTACACTTATCTGATC---G---GTGACA
1 AGTGATAAATGGTAGCCTTAGCTGCACTTATCTGATCAGTGAAAGTGACA
* *
11282992 AGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAGTGAAAGTGACA
1 AGTGATAAATGGTAGCCTTAGCTGCACTTATCTGATCAGTGAAAGTGACA
11283042 AGTGATAAATG
1 AGTGATAAATG
11283053 TGATCCATGT
Statistics
Matches: 89, Mismatches: 8, Indels: 15
0.79 0.07 0.13
Matches are distributed among these distances:
43 19 0.21
44 20 0.22
47 2 0.02
50 35 0.39
51 13 0.15
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (50 bp):
AGTGATAAATGGTAGCCTTAGCTGCACTTATCTGATCAGTGAAAGTGACA
Found at i:11284731 original size:41 final size:40
Alignment explanation
Indices: 11284681--11284815 Score: 175
Period size: 41 Copynumber: 3.3 Consensus size: 40
11284671 GTAGGTATAT
* *
11284681 TGCCAGTGAATCAATTCAGGCTTAAAGCCTAGTAGGCTAAG
1 TGCCGGTGAATCAA-TCAGGCTTAAAGCCTAGCAGGCTAAG
*
11284722 TGCCGGTGAACTGAATCAGGC-TATAAGCCTAGCAGGCTAAG
1 TGCCGGTGAA-TCAATCAGGCTTA-AAGCCTAGCAGGCTAAG
*
11284763 TGCCGGTG-ATCTGAATCAGGCTTTAAGCCTAGCAGGCTAAG
1 TGCCGGTGAATC--AATCAGGCTTAAAGCCTAGCAGGCTAAG
11284804 TGCCGGTGAATC
1 TGCCGGTGAATC
11284816 TGTCTTATTT
Statistics
Matches: 83, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
39 1 0.01
40 3 0.04
41 72 0.87
42 7 0.08
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (40 bp):
TGCCGGTGAATCAATCAGGCTTAAAGCCTAGCAGGCTAAG
Found at i:11285026 original size:38 final size:38
Alignment explanation
Indices: 11284983--11285062 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
11284973 AATTGTTGGA
* *
11284983 TATATATATGTATGCATTCGACATATGTGAATT-ATAAG
1 TATATATATATATGCATTCGACACATGTG-ATTGATAAG
* * *
11285021 TATATATATATGTGCATTCGGCACATGTGGTTGATAAG
1 TATATATATATATGCATTCGACACATGTGATTGATAAG
11285059 TATA
1 TATA
11285063 ATTATTTGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 2 0.06
38 34 0.94
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.39
Consensus pattern (38 bp):
TATATATATATATGCATTCGACACATGTGATTGATAAG
Found at i:11287519 original size:23 final size:23
Alignment explanation
Indices: 11287487--11287530 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
11287477 GAACATTTAA
11287487 TCGGGAAGCTCA-TAAAGAGCCTC
1 TCGGGAAGCTCACT-AAGAGCCTC
*
11287510 TCGGGTAGCTCACTAAGAGCC
1 TCGGGAAGCTCACTAAGAGCC
11287531 ATGTAACGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.18
Consensus pattern (23 bp):
TCGGGAAGCTCACTAAGAGCCTC
Found at i:11309495 original size:27 final size:27
Alignment explanation
Indices: 11309451--11309579 Score: 89
Period size: 27 Copynumber: 4.8 Consensus size: 27
11309441 AGTCCGACAA
* * * *
11309451 GACGTTAAACACTAGATTTTTCAATGG
1 GACGTTAAACACGAGATTGTCCAATAG
*
11309478 GACGTTAAACACGGGATTGTCCAATAG
1 GACGTTAAACACGAGATTGTCCAATAG
* * * ** * *
11309505 GACATTAAATACGAGATAGTCTGACAA
1 GACGTTAAACACGAGATTGTCCAATAG
* *
11309532 GACATTAAGCACG-GAATTGTCCAATAG
1 GACGTTAAACACGAG-ATTGTCCAATAG
* * *
11309559 AAGGTTAAACACGGGATTGTC
1 GACGTTAAACACGAGATTGTC
11309580 TAACGAGATG
Statistics
Matches: 76, Mismatches: 24, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
26 1 0.01
27 74 0.97
28 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (27 bp):
GACGTTAAACACGAGATTGTCCAATAG
Found at i:11309616 original size:27 final size:27
Alignment explanation
Indices: 11309586--11309641 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
11309576 TGTCTAACGA
11309586 GATGTTAAACACAGGATAGTTCGATGG
1 GATGTTAAACACAGGATAGTTCGATGG
* *
11309613 GATGTTAAATACGGGATAGTTCGATGG
1 GATGTTAAACACAGGATAGTTCGATGG
11309640 GA
1 GA
11309642 CTCTATACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.27
Consensus pattern (27 bp):
GATGTTAAACACAGGATAGTTCGATGG
Found at i:11318460 original size:20 final size:20
Alignment explanation
Indices: 11318429--11318480 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
11318419 TAAAAAGTTA
* *
11318429 AAAATGAATTATTTATAATTT
1 AAAAT-AATTATATAAAATTT
*
11318450 ATAATAATTATATAAAATTT
1 AAAATAATTATATAAAATTT
11318470 AAAATATATTA
1 AAAATA-ATTA
11318481 CAAAGTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
AAAATAATTATATAAAATTT
Found at i:11318667 original size:14 final size:15
Alignment explanation
Indices: 11318648--11318679 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
11318638 TTATTTTAAT
11318648 AAAAAATTAATA-TA
1 AAAAAATTAATATTA
11318662 AAAAAATTAATATTA
1 AAAAAATTAATATTA
11318677 AAA
1 AAA
11318680 TTTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAAAATTAATATTA
Found at i:11319737 original size:19 final size:20
Alignment explanation
Indices: 11319695--11319737 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
11319685 TCATGCTTTC
*
11319695 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
11319715 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
11319733 TATTC
1 TATTC
11319738 CACAATCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:11319918 original size:38 final size:37
Alignment explanation
Indices: 11319866--11319957 Score: 96
Period size: 38 Copynumber: 2.5 Consensus size: 37
11319856 ATCAGATTGG
* * *
11319866 CACCCAGTGCCTCATCGG-ATAGTTCGAAGCAAAGTTGA
1 CACCTAGTGTCTCATCGGCATAG-CCGAAGCAAAG-TGA
* *
11319904 CACCTAGTGTCTCATCGGCCTAGCCGAAGTAAAGTGA
1 CACCTAGTGTCTCATCGGCATAGCCGAAGCAAAGTGA
* *
11319941 TACCTAGTATCTCATCG
1 CACCTAGTGTCTCATCG
11319958 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
37 18 0.39
38 25 0.54
39 3 0.07
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (37 bp):
CACCTAGTGTCTCATCGGCATAGCCGAAGCAAAGTGA
Found at i:11319969 original size:38 final size:38
Alignment explanation
Indices: 11319890--11320000 Score: 107
Period size: 38 Copynumber: 2.9 Consensus size: 38
11319880 TCGGATAGTT
* * *
11319890 CGAAGCAAAGTTGACACCTAGTGTCTCATCGGCCTAGC
1 CGAAGTAAAGTTGACACCTAGTATCTCATCGACCTAGC
* * *
11319928 CGAAGTAAAG-TGATACCTAGTATCTCATCGAATCTATC
1 CGAAGTAAAGTTGACACCTAGTATCTCATCG-ACCTAGC
* * *
11319966 CGAAGTAAAATAGTGACACCCAGTGTCTCATCGAC
1 CGAAGTAAAGT--TGACACCTAGTATCTCATCGAC
11320001 TCAAGGTCGA
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
37 18 0.31
38 22 0.38
40 1 0.02
41 17 0.29
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (38 bp):
CGAAGTAAAGTTGACACCTAGTATCTCATCGACCTAGC
Found at i:11319995 original size:41 final size:38
Alignment explanation
Indices: 11319890--11319999 Score: 114
Period size: 41 Copynumber: 2.8 Consensus size: 38
11319880 TCGGATAGTT
* *
11319890 CGAAGCAAAGTTGACACCTAGTGTCTCATCG-GCCTAGC
1 CGAAGTAAAG-TGACACCTAGTGTCTCATCGAACCTAGC
* * * *
11319928 CGAAGTAAAGTGATACCTAGTATCTCATCGAATCTATC
1 CGAAGTAAAGTGACACCTAGTGTCTCATCGAACCTAGC
*
11319966 CGAAGTAAAATAGTGACACCCAGTGTCTCATCGA
1 CGAAGT--AA-AGTGACACCTAGTGTCTCATCGA
11320000 CTCAAGGTCG
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
37 18 0.31
38 19 0.32
40 2 0.03
41 20 0.34
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (38 bp):
CGAAGTAAAGTGACACCTAGTGTCTCATCGAACCTAGC
Found at i:11328784 original size:22 final size:24
Alignment explanation
Indices: 11328744--11328792 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
11328734 AAAATTTTAA
11328744 TAATAATACAAATAATAATATGAT
1 TAATAATACAAATAATAATATGAT
* *
11328768 TAATAA-A-AAATAGTAATATTAT
1 TAATAATACAAATAATAATATGAT
11328790 TAA
1 TAA
11328793 ATTAATTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 16 0.70
23 1 0.04
24 6 0.26
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (24 bp):
TAATAATACAAATAATAATATGAT
Found at i:11330832 original size:25 final size:25
Alignment explanation
Indices: 11330803--11330868 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 25
11330793 CCTATTTCTC
* *
11330803 CTTTCTTTCTTTCCCTTTTTCTTTT
1 CTTTCTTTCTTTCCCTATTTCGTTT
11330828 CTTTCTTT-TTCTCCCTATTTCGTTT
1 CTTTCTTTCTT-TCCCTATTTCGTTT
11330853 CTATTCTGTTTCTTTC
1 CT-TTC--TTTCTTTC
11330869 TATTTCTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
24 2 0.06
25 22 0.65
26 3 0.09
28 5 0.15
29 2 0.06
ACGTcount: A:0.03, C:0.27, G:0.03, T:0.67
Consensus pattern (25 bp):
CTTTCTTTCTTTCCCTATTTCGTTT
Found at i:11330864 original size:16 final size:16
Alignment explanation
Indices: 11330845--11330885 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
11330835 TTTCTCCCTA
11330845 TTTCGTTTCTA-TTCT
1 TTTCGTTTCTATTTCT
11330860 GTTTC-TTTCTATTTCT
1 -TTTCGTTTCTATTTCT
*
11330876 TTTTGTTTCT
1 TTTCGTTTCT
11330886 TTTTATGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.05, C:0.17, G:0.07, T:0.71
Consensus pattern (16 bp):
TTTCGTTTCTATTTCT
Found at i:11330871 original size:26 final size:25
Alignment explanation
Indices: 11330814--11330874 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
11330804 TTTCTTTCTT
* * *
11330814 TCCCTTTTTCTTTTCTTTCTTTTTC
1 TCCCTATTTCGTTTCTTTCTGTTTC
11330839 TCCCTATTTCGTTTCTATTCTGTTTC
1 TCCCTATTTCGTTTCT-TTCTGTTTC
**
11330865 TTTCTATTTC
1 TCCCTATTTC
11330875 TTTTTGTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 14 0.47
26 16 0.53
ACGTcount: A:0.05, C:0.26, G:0.03, T:0.66
Consensus pattern (25 bp):
TCCCTATTTCGTTTCTTTCTGTTTC
Found at i:11335888 original size:23 final size:26
Alignment explanation
Indices: 11335857--11335914 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 26
11335847 ATTAACTCTT
11335857 ATGAGCTTACC-GT-TTCAGCTC-GA
1 ATGAGCTTACCAGTCTTCAGCTCGGA
* *
11335880 TTGAGCTTACCATTCTTCAGCTCGGA
1 ATGAGCTTACCAGTCTTCAGCTCGGA
11335906 ATGAGCTTA
1 ATGAGCTTA
11335915 TCGATCATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.34
24 1 0.03
25 8 0.28
26 10 0.34
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (26 bp):
ATGAGCTTACCAGTCTTCAGCTCGGA
Found at i:11336621 original size:16 final size:17
Alignment explanation
Indices: 11336600--11336631 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11336590 TATATAACAA
11336600 AAGAAAGAAA-AGAAAT
1 AAGAAAGAAACAGAAAT
11336616 AAGAAAGAAACAGAAA
1 AAGAAAGAAACAGAAA
11336632 GCTTAAAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.75, C:0.03, G:0.19, T:0.03
Consensus pattern (17 bp):
AAGAAAGAAACAGAAAT
Found at i:11339804 original size:24 final size:24
Alignment explanation
Indices: 11339777--11339822 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
11339767 ATTGAAATGG
11339777 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
11339801 ATTGAATTTATATTGATTGAAT
1 ATTGAATTTATATTGATTGAAT
11339823 GGGTATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 3 0.15
24 12 0.60
25 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:11340103 original size:40 final size:40
Alignment explanation
Indices: 11339981--11340121 Score: 135
Period size: 40 Copynumber: 3.6 Consensus size: 40
11339971 CGATTTCGAG
* * *
11339981 CCGATGAGACATTGGGTGTCAATTTACTACTTCGGATTAAT
1 CCGATGAGACACTGGGTGTCAAATTATTACTTCGGATT-AT
* * * * * * *
11340022 TCAATGAGGCACTGGGTG-CCAA-T-TTACTTTGGTTTAG
1 CCGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAT
*
11340059 CCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAT
1 CCGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAT
* *
11340099 CCGATGAGGCACTGGGTGCCAAA
1 CCGATGAGACACTGGGTGTCAAA
11340122 CTGGTGCGTT
Statistics
Matches: 77, Mismatches: 20, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
37 16 0.21
38 12 0.16
39 2 0.03
40 33 0.43
41 14 0.18
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (40 bp):
CCGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAT
Found at i:11340322 original size:11 final size:11
Alignment explanation
Indices: 11340308--11340348 Score: 73
Period size: 11 Copynumber: 3.6 Consensus size: 11
11340298 TTATATACTC
11340308 ATGAAATGAAT
1 ATGAAATGAAT
11340319 ATGAAATGAAT
1 ATGAAATGAAT
11340330 ATGAAATGAAT
1 ATGAAATGAAT
11340341 AATGAAAT
1 -ATGAAAT
11340349 TGTGTAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 22 0.76
12 7 0.24
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.27
Consensus pattern (11 bp):
ATGAAATGAAT
Found at i:11340376 original size:12 final size:13
Alignment explanation
Indices: 11340341--11340379 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
11340331 TGAAATGAAT
*
11340341 AATGAAATTGTGT
1 AATGAAATTGTGA
11340354 AATGAAA-TGTGA
1 AATGAAATTGTGA
11340366 AAT-AAATTGTGA
1 AATGAAATTGTGA
11340378 AA
1 AA
11340380 ATTTATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 3 0.12
12 14 0.58
13 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.31
Consensus pattern (13 bp):
AATGAAATTGTGA
Found at i:11348430 original size:8 final size:8
Alignment explanation
Indices: 11348417--11348446 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
11348407 CATCATATCC
11348417 TTCATGTT
1 TTCATGTT
11348425 TTCATGTT
1 TTCATGTT
11348433 TTCATGTT
1 TTCATGTT
11348441 TTCATG
1 TTCATG
11348447 CTTTATTAAG
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:0.13, C:0.13, G:0.13, T:0.60
Consensus pattern (8 bp):
TTCATGTT
Found at i:11355106 original size:22 final size:23
Alignment explanation
Indices: 11355081--11355125 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
11355071 ATTAAGCTAT
11355081 TTAAAAGTTTTT-AATTTTTGAA
1 TTAAAAGTTTTTAAATTTTTGAA
**
11355103 TTAAATTTTTTTAAATTTTTGAA
1 TTAAAAGTTTTTAAATTTTTGAA
11355126 AACTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (23 bp):
TTAAAAGTTTTTAAATTTTTGAA
Found at i:11361983 original size:16 final size:15
Alignment explanation
Indices: 11361957--11362000 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
11361947 TGGTAGGGTG
11361957 AAGAG-AAAATTAGA
1 AAGAGAAAAATTAGA
11361971 AAGATGAAAAATTAG-
1 AAGA-GAAAAATTAGA
*
11361986 AAGAGAAAAAATAGA
1 AAGAGAAAAATTAGA
11362001 TTTTCCATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 13 0.50
15 5 0.19
16 8 0.31
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.14
Consensus pattern (15 bp):
AAGAGAAAAATTAGA
Found at i:11363507 original size:18 final size:20
Alignment explanation
Indices: 11363462--11363514 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
11363452 ATATATAGTA
*
11363462 ATAAATGTTTTATAATAAGAT
1 ATAAATATTTT-TAATAAGAT
*
11363483 ATGAATATTTTTAAT-A-AT
1 ATAAATATTTTTAATAAGAT
*
11363501 ATAAATATGTTTAA
1 ATAAATATTTTTAA
11363515 ACTTTTCTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 14 0.50
19 1 0.04
20 4 0.14
21 9 0.32
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (20 bp):
ATAAATATTTTTAATAAGAT
Found at i:11371629 original size:17 final size:19
Alignment explanation
Indices: 11371597--11371634 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
11371587 TCAAAATCAA
*
11371597 TTTTTTTACAACATTT-AT
1 TTTTTTTACAAAATTTCAT
11371615 TTTTTTTA-AAAATTTCAT
1 TTTTTTTACAAAATTTCAT
11371633 TT
1 TT
11371635 CAAATTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTTTTACAAAATTTCAT
Found at i:11373872 original size:17 final size:20
Alignment explanation
Indices: 11373838--11373879 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 20
11373828 TTTTTAGGAA
11373838 TTTTTAACAATAATTCTATT
1 TTTTTAACAATAATTCTATT
11373858 TTTTTAA-AAT-A-TCTATT
1 TTTTTAACAATAATTCTATT
11373875 TTTTT
1 TTTTT
11373880 TTAAAGTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.50
18 1 0.05
19 3 0.14
20 7 0.32
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTAACAATAATTCTATT
Found at i:11383689 original size:24 final size:24
Alignment explanation
Indices: 11383645--11383712 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
11383635 TATAAAGGGA
*
11383645 AGCTCACAAAGAGC-CTATAACGGGT
1 AGCTC-CAAAGAGCAAT-TAACGGGT
*
11383670 AGCTCCAAATAGCAATTAACGGGT
1 AGCTCCAAAGAGCAATTAACGGGT
* *
11383694 TGCTCCGAAGAGCAATTAA
1 AGCTCCAAAGAGCAATTAA
11383713 TGGGAAGCGC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 31 0.84
25 6 0.16
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (24 bp):
AGCTCCAAAGAGCAATTAACGGGT
Found at i:11387997 original size:28 final size:27
Alignment explanation
Indices: 11387942--11387994 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
11387932 CACCAATAAA
*
11387942 TGGGGGAATCAGCACACAGCAATCCCT
1 TGGGGGAATCAGCACACAGCAACCCCT
**
11387969 TGGGGGAATCAGCACTTAGCAACCCC
1 TGGGGGAATCAGCACACAGCAACCCC
11387995 CTTCACATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.15
Consensus pattern (27 bp):
TGGGGGAATCAGCACACAGCAACCCCT
Found at i:11388085 original size:102 final size:103
Alignment explanation
Indices: 11387909--11388171 Score: 377
Period size: 102 Copynumber: 2.6 Consensus size: 103
11387899 TAACCGTTAT
* * * * * * *
11387909 CGGTGGATTCCGCACTTAGCAACCACCAATAAATGGGGGAATCAGCACACAGCAATCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACTACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGG
* * *
11387974 GAATCAGCACTTAGCAACCCCC-TTCACATTTCAGATG
66 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
**
11388011 CGGTGGAATCAGCACTTAGCAACTACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 CGGTGGAATCAGCACTTAGCAACTACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGG
11388076 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
66 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
* *
11388114 CGGTGGAATCAGCACTTAGCAACCT-CCAATGAATCGGGGAATCAACACACAGCAACCC
1 CGGTGGAATCAGCACTTAGCAA-CTACCAATGAATAGGGGAATCAGCACACAGCAACCC
11388172 ATTGATATGC
Statistics
Matches: 143, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
102 78 0.55
103 63 0.44
104 2 0.01
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.19
Consensus pattern (103 bp):
CGGTGGAATCAGCACTTAGCAACTACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGG
GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
Found at i:11395705 original size:114 final size:114
Alignment explanation
Indices: 11395491--11395705 Score: 358
Period size: 114 Copynumber: 1.9 Consensus size: 114
11395481 ATTGTTTTTG
**
11395491 GGGGGGCCGGAATTAAATTGTATATTTTTACGATAGTAAAAATGCAATTTCACCATTTTAATATC
1 GGGGGGCCAAAATTAAATTGTATATTTTTACGATAGTAAAAATGCAATTTCACCATTTTAATATC
* *
11395556 TATATATTTATAATTTTTAAATGATTAAATCAAAATTTTATCATTTTCA
66 TATATATTTATAATTTTTAAAAGATCAAATCAAAATTTTATCATTTTCA
*
11395605 GGGGGGCCAAAATTAAATTGTATATTTTTACGATAGTAAAAATGCGATTTCACCATTTTAATATC
1 GGGGGGCCAAAATTAAATTGTATATTTTTACGATAGTAAAAATGCAATTTCACCATTTTAATATC
* * *
11395670 TATATCTTTATGATTTTTAAAAGATCAAATTAAAAT
66 TATATATTTATAATTTTTAAAAGATCAAATCAAAAT
11395706 GCAATTTCAC
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 93 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (114 bp):
GGGGGGCCAAAATTAAATTGTATATTTTTACGATAGTAAAAATGCAATTTCACCATTTTAATATC
TATATATTTATAATTTTTAAAAGATCAAATCAAAATTTTATCATTTTCA
Found at i:11407001 original size:8 final size:9
Alignment explanation
Indices: 11406979--11407142 Score: 52
Period size: 9 Copynumber: 17.9 Consensus size: 9
11406969 TTATAAGTTC
11406979 AATTTTAAT
1 AATTTTAAT
*
11406988 ATTTTTAA-
1 AATTTTAAT
*
11406996 AATTTTTAT
1 AATTTTAAT
* *
11407005 AATTCTTTAC
1 AATT-TTAAT
**
11407015 AATTTTTTTT
1 AA-TTTTAAT
* *
11407025 ATTTTTAAG
1 AATTTTAAT
*
11407034 AATTCTAAT
1 AATTTTAAT
*
11407043 ACCTTTT--T
1 A-ATTTTAAT
11407051 AATTTTAA-
1 AATTTTAAT
11407059 ATATTTTAAAT
1 A-ATTTT-AAT
*
11407070 AATTTTATT
1 AATTTTAAT
11407079 AATTTT-AT
1 AATTTTAAT
*
11407087 AATTTTTTTAT
1 AA--TTTTAAT
* *
11407098 AA-ATTAGT
1 AATTTTAAT
*
11407106 AACTTTAAT
1 AATTTTAAT
*
11407115 AAATTTATAT
1 AATTTTA-AT
11407125 CAATTTTAAT
1 -AATTTTAAT
*
11407135 ATTTTTAA
1 AATTTTAA
11407143 AATATAATAT
Statistics
Matches: 114, Mismatches: 26, Indels: 30
0.67 0.15 0.18
Matches are distributed among these distances:
7 4 0.04
8 17 0.15
9 52 0.46
10 28 0.25
11 13 0.11
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.57
Consensus pattern (9 bp):
AATTTTAAT
Found at i:11407037 original size:19 final size:18
Alignment explanation
Indices: 11406981--11407037 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
11406971 ATAAGTTCAA
*
11406981 TTTTAATATTTTTAAAAT
1 TTTTATTATTTTTAAAAT
* *
11406999 TTTTATAATTCTTTACAAT
1 TTTTATTATT-TTTAAAAT
*
11407018 TTTTTTTATTTTTAAGAAT
1 TTTTATTATTTTTAA-AAT
11407037 T
1 T
11407038 CTAATACCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 12 0.39
19 19 0.61
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTATTATTTTTAAAAT
Found at i:11423338 original size:21 final size:23
Alignment explanation
Indices: 11423305--11423346 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
11423295 TTGTGTATAA
11423305 ATAAATAATTATATTAATTTAAT
1 ATAAATAATTATATTAATTTAAT
*
11423328 ATAAA-AA-TATATTTATTTA
1 ATAAATAATTATATTAATTTA
11423347 TTTATCTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 2 0.11
23 5 0.28
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAAATAATTATATTAATTTAAT
Found at i:11461240 original size:46 final size:46
Alignment explanation
Indices: 11461183--11461365 Score: 294
Period size: 46 Copynumber: 4.0 Consensus size: 46
11461173 ACAATGCTAT
* * *
11461183 AACTCAGTATGGTTTCCTTCACTGGAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
11461229 AACACAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
11461275 AACTCTGTATGGTTTTCTTCACTGAAACACCATATCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
11461321 AACTTAGTATGGCTTTCTTCACTGAAACACCATACCTACTTTTCA
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCA
11461366 AAATTTTTCC
Statistics
Matches: 126, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 126 1.00
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:11462141 original size:17 final size:17
Alignment explanation
Indices: 11462111--11462158 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
11462101 AAATTCTTTT
*
11462111 TAAATTACAAAATTCAC
1 TAAATCACAAAATTCAC
*
11462128 TAAATCACAGAATTCAC
1 TAAATCACAAAATTCAC
*
11462145 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
11462159 TTCTAAATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 6 0.22
17 21 0.78
ACGTcount: A:0.50, C:0.19, G:0.02, T:0.29
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:11465545 original size:20 final size:20
Alignment explanation
Indices: 11465520--11465557 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11465510 AAAGGTTAAC
11465520 TTAGTAAAATAATAATAATG
1 TTAGTAAAATAATAATAATG
* *
11465540 TTAGTATAATGATAATAA
1 TTAGTAAAATAATAATAA
11465558 AATAAAACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAGTAAAATAATAATAATG
Found at i:11466496 original size:41 final size:41
Alignment explanation
Indices: 11466418--11466516 Score: 130
Period size: 41 Copynumber: 2.4 Consensus size: 41
11466408 CTATATGATT
* * *
11466418 AGCACTAAGTGTGCG-AATTAAATGATGAGGTTGAATAACG
1 AGCACTAGGTGTGCGAAATTAAATAATGAGGTTAAATAACG
*
11466458 AGCACTAGGTGTGCGAAATTAAATAATGATGTTAAATAACG
1 AGCACTAGGTGTGCGAAATTAAATAATGAGGTTAAATAACG
*
11466499 GGCACT-GAGTGTGCGAAA
1 AGCACTAG-GTGTGCGAAA
11466517 CCGAGATCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
40 15 0.29
41 37 0.71
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.24
Consensus pattern (41 bp):
AGCACTAGGTGTGCGAAATTAAATAATGAGGTTAAATAACG
Found at i:11467776 original size:13 final size:13
Alignment explanation
Indices: 11467758--11467789 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11467748 TTTCCAGCAA
11467758 TTATGAATTTATT
1 TTATGAATTTATT
11467771 TTATGAATTTATT
1 TTATGAATTTATT
*
11467784 TGATGA
1 TTATGA
11467790 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Done.