Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 119 of 175
Found at i:37438178 original size:25 final size:26
Alignment explanation
Indices: 37438127--37438187 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
37438117 AAGAAAATCT
* **
37438127 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
37438153 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
37438178 AAAATGAATG
1 AAAA-GAATG
37438188 TAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:37440560 original size:27 final size:29
Alignment explanation
Indices: 37440524--37440605 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 29
37440514 GAATATAAAG
37440524 GGGGTTGCTAAGTGCTGATTCCC-CCA-A
1 GGGGTTGCTAAGTGCTGATTCCCACCATA
*
37440551 GGGGTTGCTAAGTGCTGATTCCCTTAACCATT
1 GGGGTTGCTAAGTGCTGATTCCC---ACCATA
37440583 GGTGGTTGCTAAGTGCTGATTCC
1 GG-GGTTGCTAAGTGCTGATTCC
37440606 ACCGTATTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 23 0.48
31 3 0.06
32 2 0.04
33 20 0.42
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (29 bp):
GGGGTTGCTAAGTGCTGATTCCCACCATA
Found at i:37440645 original size:42 final size:42
Alignment explanation
Indices: 37440586--37440689 Score: 208
Period size: 42 Copynumber: 2.5 Consensus size: 42
37440576 AACCATTGGT
37440586 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
37440628 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
37440670 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
37440690 CCAAGGGGTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
Found at i:37440702 original size:26 final size:26
Alignment explanation
Indices: 37440668--37440717 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
37440658 AAATGTGAAG
*
37440668 GGGGTTGCTAAGTGCTGATTCCCCAA
1 GGGGTTGCTAAGTGCTAATTCCCCAA
37440694 GGGGTTGCTAAGTGCTAATTCCCC
1 GGGGTTGCTAAGTGCTAATTCCCC
37440718 GAATCATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.24, G:0.30, T:0.28
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTAATTCCCCAA
Found at i:37440780 original size:143 final size:144
Alignment explanation
Indices: 37440521--37440790 Score: 479
Period size: 143 Copynumber: 1.9 Consensus size: 144
37440511 ATTGAATATA
* **
37440521 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCTTAACCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTAATTCCCCGAACCATTGGT
*
37440586 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCACC
66 GGTTGCTAAGTGCTGATTCCACCATATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCACC
37440651 GTATTTTAAATGTG
131 GTATTTTAAATGTG
*
37440665 AAGGGGGTTGCTAAGTGCTGATT-CCCCAAGGGGTTGCTAAGTGCTAATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTAATTCCCCGAACCATTGGT
*
37440729 GGTTGCTAAGTGCTGATTCCATCATATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCC
66 GGTTGCTAAGTGCTGATTCCACCATATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCC
37440791 CCCAAGGGGT
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
143 97 0.81
144 23 0.19
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (144 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTAATTCCCCGAACCATTGGT
GGTTGCTAAGTGCTGATTCCACCATATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCACC
GTATTTTAAATGTG
Found at i:37440850 original size:102 final size:101
Alignment explanation
Indices: 37440628--37440891 Score: 447
Period size: 102 Copynumber: 2.6 Consensus size: 101
37440618 ATGTGAAGGG
*
37440628 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCA
1 GGTTGCTAAGTGCTGATTCCACCATATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCA
37440693 AGGGGTTGCTAAGTGCTAATTCCCCGAATCATTGGT
66 AGGGGTTGCTAAGTGCTAATTCCCCGAATCATTGGT
*
37440729 GGTTGCTAAGTGCTGATTCCATCATATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCC
1 GGTTGCTAAGTGCTGATTCCACCATATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATT-CCCC
* * *
37440794 AAGGGGTTGCTAAGTGCTGATTCCCTGAATCATTTGT
65 AAGGGGTTGCTAAGTGCTAATTCCCCGAATCATTGGT
* *
37440831 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGAAAGGGGTTGCTAAGTGCTGATT
1 GGTTGCTAAGTGCTGATTCCACCATAT-TTTAAATGTGAAGGGGGTTGCTAAGTGCTGATT
37440892 TCCCGAATCA
Statistics
Matches: 153, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
101 58 0.38
102 64 0.42
103 31 0.20
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.33
Consensus pattern (101 bp):
GGTTGCTAAGTGCTGATTCCACCATATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCA
AGGGGTTGCTAAGTGCTAATTCCCCGAATCATTGGT
Found at i:37445740 original size:19 final size:19
Alignment explanation
Indices: 37445716--37445769 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
37445706 AATCATATCT
37445716 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
37445735 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
37445754 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
37445770 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:37445765 original size:38 final size:40
Alignment explanation
Indices: 37445693--37445769 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
37445683 GAATTAAATC
37445693 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
37445735 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
37445770 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:37448202 original size:14 final size:15
Alignment explanation
Indices: 37448185--37448222 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
37448175 TCATTTATTG
37448185 ATATATTTTT-ATAA
1 ATATATTTTTAATAA
37448199 ATATATTTTTAATAA
1 ATATATTTTTAATAA
*
37448214 AAATATTTT
1 ATATATTTT
37448223 CATTCACTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATATTTTTAATAA
Found at i:37448591 original size:88 final size:87
Alignment explanation
Indices: 37448411--37448612 Score: 248
Period size: 87 Copynumber: 2.3 Consensus size: 87
37448401 CAAACTTAAA
* *
37448411 AAAAAAAGCAATTAAGCTCCTCT-TTTTTTTTCATTCAATTGAGCACTTGAACTTTCAAAATGCA
1 AAAAAAAGCAATTAAGC-CC-CTGATTTTTTTCACTCAATTGAGCACTTGAACTTTCAAAATGCA
* ** * * *
37448475 TCAAACAGGCCCTCAGACTTCTTG
64 TCAAAAAAACCCTCAAAATTCTTC
*
37448499 AAAAAAAGCAATTAAGCCCCTGATTTTTTTCACTCAATT-AGGTACTTGAACTTTCAAAATGCAT
1 AAAAAAAGCAATTAAGCCCCTGATTTTTTTCACTCAATTGA-GCACTTGAACTTTCAAAATGCAT
*
37448563 CAAAAAAAACCCTCAAAATTTTTC
65 C-AAAAAAACCCTCAAAATTCTTC
*
37448587 -AAAAAAGCAATTAAGCCCCTGCTTTT
1 AAAAAAAGCAATTAAGCCCCTGATTTT
37448613 ATTAAAAAGT
Statistics
Matches: 100, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
86 3 0.03
87 65 0.65
88 32 0.32
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (87 bp):
AAAAAAAGCAATTAAGCCCCTGATTTTTTTCACTCAATTGAGCACTTGAACTTTCAAAATGCATC
AAAAAAACCCTCAAAATTCTTC
Found at i:37449006 original size:10 final size:9
Alignment explanation
Indices: 37448995--37449064 Score: 54
Period size: 9 Copynumber: 7.7 Consensus size: 9
37448985 ACTTTATAAT
37448995 TTTTTTATA
1 TTTTTTATA
*
37449004 -TTTCTATA
1 TTTTTTATA
*
37449012 TATTTTATAA
1 TTTTTTAT-A
*
37449022 TTTTTTACGA
1 TTTTTTA-TA
37449032 -TTTTTATA
1 TTTTTTATA
**
37449040 AATTTTATAA
1 TTTTTTAT-A
37449050 TTTTTTATA
1 TTTTTTATA
37449059 TTTTTT
1 TTTTTT
37449065 TACGATTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
8 8 0.17
9 24 0.51
10 15 0.32
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (9 bp):
TTTTTTATA
Found at i:37449035 original size:38 final size:38
Alignment explanation
Indices: 37448993--37449079 Score: 122
Period size: 38 Copynumber: 2.3 Consensus size: 38
37448983 AAACTTTATA
* *
37448993 ATTTTTTTATATTTCTAT-ATATTTTATAATTTTTTACG
1 ATTTTTATAAATTT-TATAATATTTTATAATTTTTTACG
* *
37449031 ATTTTTATAAATTTTATAATTTTTTATATTTTTTTACG
1 ATTTTTATAAATTTTATAATATTTTATAATTTTTTACG
37449069 ATTTTTATAAA
1 ATTTTTATAAA
37449080 AAAATTCTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
37 3 0.07
38 41 0.93
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.64
Consensus pattern (38 bp):
ATTTTTATAAATTTTATAATATTTTATAATTTTTTACG
Found at i:37449065 original size:10 final size:10
Alignment explanation
Indices: 37448987--37449066 Score: 62
Period size: 10 Copynumber: 8.4 Consensus size: 10
37448977 TTTATAAAAC
37448987 TTTATAATTT
1 TTTATAATTT
37448997 TTT-T-ATATT
1 TTTATAAT-TT
* *
37449006 TCTAT-ATAT
1 TTTATAATTT
37449015 TTTATAATTT
1 TTTATAATTT
**
37449025 TTTACGA-TT
1 TTTATAATTT
*
37449034 TTTATAA-AT
1 TTTATAATTT
37449043 TTTATAATTT
1 TTTATAATTT
*
37449053 TTTATATTTT
1 TTTATAATTT
37449063 TTTA
1 TTTA
37449067 CGATTTTTAT
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
8 2 0.04
9 25 0.45
10 28 0.51
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.68
Consensus pattern (10 bp):
TTTATAATTT
Found at i:37449073 original size:19 final size:19
Alignment explanation
Indices: 37449014--37449078 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 19
37449004 TTTCTATATA
37449014 TTTTATAATTTTTTACGAT
1 TTTTATAATTTTTTACGAT
*
37449033 TTTTATAAATTTTATA--ATT
1 TTTTAT-AATTTTTTACGA-T
*
37449052 TTTTATATTTTTTTACGAT
1 TTTTATAATTTTTTACGAT
37449071 TTTTATAA
1 TTTTATAA
37449079 AAAAATTCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 8 0.21
19 21 0.55
20 9 0.24
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAT
Found at i:37449073 original size:28 final size:27
Alignment explanation
Indices: 37448977--37449063 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 27
37448967 TTCTTACAAC
*
37448977 TTTATAAAACTTTATAATTTTTTTATATT
1 TTTAT-AAATTTTATAA-TTTTTTATATT
* * *
37449006 TCTATATATTTTATAATTTTTTACGATT
1 TTTATAAATTTTATAATTTTTTA-TATT
37449034 TTTATAAATTTTATAATTTTTTATATT
1 TTTATAAATTTTATAATTTTTTATATT
37449061 TTT
1 TTT
37449064 TTACGATTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 13 0.26
28 33 0.66
29 4 0.08
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTATAAATTTTATAATTTTTTATATT
Found at i:37449939 original size:18 final size:18
Alignment explanation
Indices: 37449916--37449958 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
37449906 AAATTTTAAT
37449916 TTATAAAAATAAAAATAA
1 TTATAAAAATAAAAATAA
*
37449934 TTATAAAAATTAAAATAA
1 TTATAAAAATAAAAATAA
*
37449952 ATATAAA
1 TTATAAA
37449959 TATTCAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
TTATAAAAATAAAAATAA
Found at i:37450733 original size:19 final size:19
Alignment explanation
Indices: 37450709--37450749 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
37450699 CTTTCTTTGA
*
37450709 TTTTCTTT-TTCTCCATTTT
1 TTTTCTTTGTT-TCAATTTT
37450728 TTTTCTTTGTTTCAATTTT
1 TTTTCTTTGTTTCAATTTT
37450747 TTT
1 TTT
37450750 ATAGTTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTCTTTGTTTCAATTTT
Found at i:37452381 original size:19 final size:19
Alignment explanation
Indices: 37452345--37452382 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
37452335 TTTTTATAAT
*
37452345 TTATTAATTATAACTTAAA
1 TTATTAATGATAACTTAAA
37452364 TTATGTAATGATAA-TTAAA
1 TTAT-TAATGATAACTTAAA
37452383 ACATATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (19 bp):
TTATTAATGATAACTTAAA
Found at i:37458136 original size:18 final size:20
Alignment explanation
Indices: 37458096--37458163 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 20
37458086 TATATAAATA
* *
37458096 ATAAATATATATTATATTTT
1 ATAAATATATATTATAGTAT
37458116 ATAAATAT-T-TTATAGTAT
1 ATAAATATATATTATAGTAT
* * *
37458134 ATAATATAAATATTTTAATAAT
1 ATAA-ATATATATTATAGT-AT
37458156 ATAAATAT
1 ATAAATAT
37458164 GAGTATTTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
18 11 0.29
19 4 0.11
20 9 0.24
21 8 0.21
22 6 0.16
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (20 bp):
ATAAATATATATTATAGTAT
Found at i:37458171 original size:23 final size:23
Alignment explanation
Indices: 37458115--37458163 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
37458105 TATTATATTT
*
37458115 TATAAATATTTTATAGTATATAA
1 TATAAATATTTTATAATATATAA
37458138 TATAAATATTTTAATAATATA-AA
1 TATAAATATTTT-ATAATATATAA
37458161 TAT
1 TAT
37458164 GAGTATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATAAATATTTTATAATATATAA
Found at i:37458310 original size:17 final size:18
Alignment explanation
Indices: 37458288--37458323 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
37458278 TATTAACTAT
*
37458288 TTATAAAATTTTAT-TTA
1 TTATAAAATATTATCTTA
37458305 TTATAAAATATTATCTTA
1 TTATAAAATATTATCTTA
37458323 T
1 T
37458324 GATATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATAAAATATTATCTTA
Found at i:37458332 original size:18 final size:17
Alignment explanation
Indices: 37458290--37458332 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
37458280 TTAACTATTT
* *
37458290 ATAAAATTTTATTTATT
1 ATAAAATATTATTTATG
37458307 ATAAAATATTATCTTATG
1 ATAAAATATTAT-TTATG
*
37458325 ATATAATA
1 ATAAAATA
37458333 AATTTTGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
ATAAAATATTATTTATG
Found at i:37464038 original size:19 final size:20
Alignment explanation
Indices: 37464009--37464053 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
37463999 CACCTAATTA
*
37464009 AATTAATTTAAT-CATACTTT
1 AATTAACTTAATCCAT-CTTT
37464029 -ATTAACTTAATCCATCTTT
1 AATTAACTTAATCCATCTTT
37464048 AATTAA
1 AATTAA
37464054 TATAAGTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTAACTTAATCCATCTTT
Found at i:37465555 original size:24 final size:24
Alignment explanation
Indices: 37465515--37465568 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
37465505 TTGCACAGCT
* *
37465515 GTGTGACAGCCCATGTC-CTAGGTC
1 GTGTGACAACCCATGTCTC-AGGCC
*
37465539 GTGTGACAACCCGTGTCTCAGGCC
1 GTGTGACAACCCATGTCTCAGGCC
37465563 GTGTGA
1 GTGTGA
37465569 TCCATAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.17, C:0.28, G:0.31, T:0.24
Consensus pattern (24 bp):
GTGTGACAACCCATGTCTCAGGCC
Found at i:37469342 original size:23 final size:23
Alignment explanation
Indices: 37469314--37469362 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
37469304 AAGAAAATAA
*
37469314 GCACATCAACTAATGATGTACGT
1 GCACATCAACTAATGATATACGT
*
37469337 GCACATCAACTAATGATATAGGT
1 GCACATCAACTAATGATATACGT
37469360 GCA
1 GCA
37469363 AAGTTTAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (23 bp):
GCACATCAACTAATGATATACGT
Found at i:37473705 original size:25 final size:26
Alignment explanation
Indices: 37473648--37473699 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
37473638 CTATCAAATT
* *
37473648 AATATTAATTTTTAAATTCAATGTAA
1 AATATTAATATTTAAATTAAATGTAA
*
37473674 AATATTAATATTT-AATTAAATTTAA
1 AATATTAATATTTAAATTAAATGTAA
37473699 A
1 A
37473700 CAATTATTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
AATATTAATATTTAAATTAAATGTAA
Found at i:37475940 original size:21 final size:21
Alignment explanation
Indices: 37475914--37475955 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
37475904 GCTAAGATTT
37475914 TAAGCCATGGTTTCACCATTG
1 TAAGCCATGGTTTCACCATTG
37475935 TAAGCCATGGTTTCACCATTG
1 TAAGCCATGGTTTCACCATTG
37475956 GTGTTAGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (21 bp):
TAAGCCATGGTTTCACCATTG
Found at i:37479204 original size:13 final size:13
Alignment explanation
Indices: 37479186--37479222 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
37479176 TTTTTATCGC
*
37479186 ACACGGGTGTGTG
1 ACACGGGCGTGTG
37479199 ACACGGGCGTGTG
1 ACACGGGCGTGTG
*
37479212 ACACGGCCGTG
1 ACACGGGCGTG
37479223 AGGTCCAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.16, C:0.24, G:0.43, T:0.16
Consensus pattern (13 bp):
ACACGGGCGTGTG
Found at i:37479657 original size:24 final size:25
Alignment explanation
Indices: 37479616--37479685 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
37479606 TTTATATTTC
*
37479616 TTTTGATTCTTG-TGTTATTTTTT-G
1 TTTT-ATTCTTGTTATTATTTTTTAG
37479640 TTTTATTCTTGTTATTATTTTTTTAG
1 TTTTATTCTTGTTATTA-TTTTTTAG
*
37479666 TTTTAGT-TT-TTATTATTTTT
1 TTTTATTCTTGTTATTATTTTT
37479686 ATTCATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
23 12 0.29
24 14 0.34
25 8 0.20
26 7 0.17
ACGTcount: A:0.13, C:0.03, G:0.10, T:0.74
Consensus pattern (25 bp):
TTTTATTCTTGTTATTATTTTTTAG
Found at i:37479661 original size:23 final size:23
Alignment explanation
Indices: 37479607--37479661 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
37479597 GTTATATAAT
* *
37479607 TTATATTTCTTTTGATTCTTGTG
1 TTATTTTTCTTTTGATTCTTGTA
*
37479630 TTATTTTT-TGTTTTATTCTTGTTA
1 TTATTTTTCT-TTTGATTCTTG-TA
37479654 TTATTTTT
1 TTATTTTT
37479662 TTAGTTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.04
23 17 0.63
24 9 0.33
ACGTcount: A:0.13, C:0.05, G:0.09, T:0.73
Consensus pattern (23 bp):
TTATTTTTCTTTTGATTCTTGTA
Found at i:37479693 original size:10 final size:9
Alignment explanation
Indices: 37479640--37479699 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
37479630 TTATTTTTTG
*
37479640 TTTTATTCT
1 TTTTATTAT
*
37479649 TGTTATTAT
1 TTTTATTAT
*
37479658 TTTT-TTAG
1 TTTTATTAT
*
37479666 TTTTA--GT
1 TTTTATTAT
37479673 TTTTATTAT
1 TTTTATTAT
37479682 TTTTATTCAT
1 TTTTATT-AT
37479692 TTTTATTA
1 TTTTATTA
37479700 GTATTTTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
7 5 0.12
8 7 0.17
9 19 0.47
10 9 0.22
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.73
Consensus pattern (9 bp):
TTTTATTAT
Found at i:37479709 original size:33 final size:32
Alignment explanation
Indices: 37479640--37479709 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 32
37479630 TTATTTTTTG
* *
37479640 TTTTATTCTTGTTATTATTTTTTTAGTTTTAGT
1 TTTTATTATTGTTATTATTTTTTTAGTATTA-T
*
37479673 TTTTATTATTTTTATTCATTTTTATTAGTATT-T
1 TTTTATTATTGTTATT-ATTTTT-TTAGTATTAT
37479706 TTTT
1 TTTT
37479710 CTTCTCGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 19 0.59
34 6 0.19
35 7 0.22
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.74
Consensus pattern (32 bp):
TTTTATTATTGTTATTATTTTTTTAGTATTAT
Found at i:37487537 original size:69 final size:69
Alignment explanation
Indices: 37487420--37487570 Score: 203
Period size: 69 Copynumber: 2.2 Consensus size: 69
37487410 ACCTTTGATG
* * * * *
37487420 TCCAACACAATTAGCGAGAGCAAAGCTCCCAGCTGACATATTAAGGCTCGTAGGTGAAGAGCCGC
1 TCCAACACAGTTAGCAAGAGCAAACCTCCCAACTGACAAATTAAGGCTCGTAGGTGAAGAGCCGC
*
37487485 GGCC
66 AGCC
* * * *
37487489 TCCAACACAGTTAGCAAGAGCAAACCTCCCAACTGTCAAATTATGGCTCGTAGGTGAAGAGTCGT
1 TCCAACACAGTTAGCAAGAGCAAACCTCCCAACTGACAAATTAAGGCTCGTAGGTGAAGAGCCGC
37487554 AGCC
66 AGCC
*
37487558 TCCAACACTGTTA
1 TCCAACACAGTTA
37487571 ATGAGAGCAA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (69 bp):
TCCAACACAGTTAGCAAGAGCAAACCTCCCAACTGACAAATTAAGGCTCGTAGGTGAAGAGCCGC
AGCC
Found at i:37490546 original size:69 final size:68
Alignment explanation
Indices: 37490358--37490562 Score: 239
Period size: 69 Copynumber: 3.0 Consensus size: 68
37490348 ACACTTCCAG
* * ** * * *
37490358 TTGTCATAGTAAGGCTCGCAGGTGAAGAGCCGTAGCGTCCAACACAGTTAACGAGAGCAAAACTC
1 TTGTCATATTAAGGCTCGTAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
*
37490423 TCA
66 CCA
** * *
37490426 GCGATCATATTAAGGCTCGTAGGTGAAAAGCCACAGCCTCCAACATAGTTAGCGAGAGCAAAGCT
1 TTG-TCATATTAAGGCTCGTAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCT
37490491 CCCAA
65 CCC-A
* * * * *
37490496 TTGTCATATTAAGGCTTGTAGGTGAAGAGCCACAACCTTCAACACAGTTAGTGTGAGCAAAGCTC
1 TTGTCATATTAAGGCTCGTAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
37490561 CC
66 CC
37490563 GCAGGTGAAG
Statistics
Matches: 114, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
68 1 0.01
69 111 0.97
70 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.20
Consensus pattern (68 bp):
TTGTCATATTAAGGCTCGTAGGTGAAGAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTC
CCA
Found at i:37490590 original size:50 final size:50
Alignment explanation
Indices: 37490515--37490659 Score: 184
Period size: 50 Copynumber: 2.9 Consensus size: 50
37490505 TAAGGCTTGT
** *
37490515 AGGTGAAGAGCCACAACCTTCAACACAGTTAGTGTGAGCAAAGCTCCCGC
1 AGGTGAAGAGCTGCAGCCTTCAACACAGTTAGTGTGAGCAAAGCTCCCGC
* * *
37490565 AGGTGAAGAGCTGCAGCCTTCAACACAATTAGTGTGAGTAAAGTTCCCGC
1 AGGTGAAGAGCTGCAGCCTTCAACACAGTTAGTGTGAGCAAAGCTCCCGC
* * * *
37490615 AGGTGAAGA-ATCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCT
1 AGGTGAAGAGCT-GCAGCCTTCAACACAGTTAGTGTGAGCAAAGCT
37490660 TCCAGCTGTC
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 1 0.01
50 80 0.99
ACGTcount: A:0.32, C:0.25, G:0.26, T:0.17
Consensus pattern (50 bp):
AGGTGAAGAGCTGCAGCCTTCAACACAGTTAGTGTGAGCAAAGCTCCCGC
Found at i:37490724 original size:69 final size:69
Alignment explanation
Indices: 37490628--37490936 Score: 293
Period size: 69 Copynumber: 4.5 Consensus size: 69
37490618 TGAAGAATCG
* *
37490628 CAGCCTCCAACACAGTTAGCGAGAGCAAAGCTTCC-AGCTGTCATATTAAGGCTGGCAGGTGAAA
1 CAGCCTCCAACACAGTTAGCGAGAGCAAAGC-TCCTAACTGTCATATTAAGGCTCGCAGGTGAAA
37490692 AGCCA
65 AGCCA
* * * *
37490697 CAGCCTCCAACATAGTTAGTGTGAGCAAAGCTCCTAACTGTCATATTAAGGCTCGCAGGTGAAGA
1 CAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCTAACTGTCATATTAAGGCTCGCAGGTGAAAA
* *
37490762 GTCG
66 GCCA
* * * * * * * *
37490766 TATCCTCTAACACAGCTA-CGAAAACAAAGCT-CTCAACTATCATATTAAGGCTCGCAGGTGAAG
1 CAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCT-AACTGTCATATTAAGGCTCGCAGGTGAAA
* *
37490829 AGTCG
65 AGCCA
* ** * *
37490834 CAGCCTCCAGCACAGTTAGCGAGAGCAAAGCTGCC-AACTGTTTTATTAAGGTTCGCAGGTGAAG
1 CAGCCTCCAACACAGTTAGCGAGAGCAAAGCT-CCTAACTGTCATATTAAGGCTCGCAGGTGAAA
**
37490898 AGCTG
65 AGCCA
* * * * *
37490903 TAACCTTCAACACAGTTAGCGTGAGCAAAACTCC
1 CAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCC
37490937 CACAGGTGAA
Statistics
Matches: 198, Mismatches: 37, Indels: 11
0.80 0.15 0.04
Matches are distributed among these distances:
67 2 0.01
68 60 0.30
69 135 0.68
71 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (69 bp):
CAGCCTCCAACACAGTTAGCGAGAGCAAAGCTCCTAACTGTCATATTAAGGCTCGCAGGTGAAAA
GCCA
Found at i:37490818 original size:68 final size:68
Alignment explanation
Indices: 37490612--37490899 Score: 299
Period size: 69 Copynumber: 4.2 Consensus size: 68
37490602 GTAAAGTTCC
* * * * *
37490612 CGCAGGTGAAGAATCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTTCCAGCTGTCATATTAA
1 CGCAGGTGAAGAGTCGCAGCCTCCAACACAGCTAGCGAAAACAAAGC-TCCAACTGTCATATTAA
37490677 GGCT
65 GGCT
* * * * * * * ** *
37490681 GGCAGGTGAAAAGCCACAGCCTCCAACATAGTTAGTGTGAGCAAAGCTCCTAACTGTCATATTAA
1 CGCAGGTGAAGAGTCGCAGCCTCCAACACAGCTAGCGAAAACAAAGCTCC-AACTGTCATATTAA
37490746 GGCT
65 GGCT
* * * *
37490750 CGCAGGTGAAGAGTCGTATCCTCTAACACAGCTA-CGAAAACAAAGCTCTCAACTATCATATTAA
1 CGCAGGTGAAGAGTCGCAGCCTCCAACACAGCTAGCGAAAACAAAGCTC-CAACTGTCATATTAA
37490814 GGCT
65 GGCT
* * * * **
37490818 CGCAGGTGAAGAGTCGCAGCCTCCAGCACAGTTAGCGAGAGCAAAGCTGCCAACTGTTTTATTAA
1 CGCAGGTGAAGAGTCGCAGCCTCCAACACAGCTAGCGAAAACAAAGCT-CCAACTGTCATATTAA
*
37490883 GGTT
65 GGCT
37490887 CGCAGGTGAAGAG
1 CGCAGGTGAAGAG
37490900 CTGTAACCTT
Statistics
Matches: 181, Mismatches: 34, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
68 59 0.33
69 121 0.67
70 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (68 bp):
CGCAGGTGAAGAGTCGCAGCCTCCAACACAGCTAGCGAAAACAAAGCTCCAACTGTCATATTAAG
GCT
Found at i:37490860 original size:137 final size:138
Alignment explanation
Indices: 37490612--37490899 Score: 357
Period size: 137 Copynumber: 2.1 Consensus size: 138
37490602 GTAAAGTTCC
* * * * * *
37490612 CGCAGGTGAAGAATCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTTCCAGCTGTCATATTAA
1 CGCAGGTGAAGAGTCGCAGCCTCCAACACAGCTAGCGAAAACAAAGCTTCCAACTATCATATTAA
* * * *
37490677 GGCTGGCAGGTGAAAAGCCACAGCCTCCAACATAGTTAGTGTGAGCAAAGCT-CCTAACTGTCAT
66 GGCTCGCAGGTGAAAAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTGCC-AACTGTCAT
37490741 ATTAAGGCT
130 ATTAAGGCT
* * *
37490750 CGCAGGTGAAGAGTCGTATCCTCTAACACAGCTA-CGAAAACAAAGC-TCTCAACTATCATATTA
1 CGCAGGTGAAGAGTCGCAGCCTCCAACACAGCTAGCGAAAACAAAGCTTC-CAACTATCATATTA
* * * * **
37490813 AGGCTCGCAGGTGAAGAGTCGCAGCCTCCAGCACAGTTAGCGAGAGCAAAGCTGCCAACTGTTTT
65 AGGCTCGCAGGTGAAAAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTGCCAACTGTCAT
*
37490878 ATTAAGGTT
130 ATTAAGGCT
37490887 CGCAGGTGAAGAG
1 CGCAGGTGAAGAG
37490900 CTGTAACCTT
Statistics
Matches: 128, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
136 2 0.02
137 95 0.74
138 31 0.24
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (138 bp):
CGCAGGTGAAGAGTCGCAGCCTCCAACACAGCTAGCGAAAACAAAGCTTCCAACTATCATATTAA
GGCTCGCAGGTGAAAAGCCACAGCCTCCAACACAGTTAGCGAGAGCAAAGCTGCCAACTGTCATA
TTAAGGCT
Found at i:37497784 original size:42 final size:42
Alignment explanation
Indices: 37497714--37497796 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
37497704 AATCCTAATT
* *
37497714 GGAAAATAATTCCTTTATTCTAATAAACTACTAAAACATAAG
1 GGAAAATAATTCCATTATTCTAAGAAACTACTAAAACATAAG
* * *
37497756 GGAAAATAATTCCATTCTTTTAAGAAACTACTAAAAGATAA
1 GGAAAATAATTCCATTATTCTAAGAAACTACTAAAACATAA
37497797 AATAAAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.30
Consensus pattern (42 bp):
GGAAAATAATTCCATTATTCTAAGAAACTACTAAAACATAAG
Found at i:37497804 original size:42 final size:42
Alignment explanation
Indices: 37497715--37497809 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
37497705 ATCCTAATTG
* * **
37497715 GAAAATAATTCCTTTATTCTAATAAACTACTAAAACATAAGG
1 GAAAATAATTCCATTATTCTAAGAAACTACTAAAACATAAAA
* * *
37497757 GAAAATAATTCCATTCTTTTAAGAAACTACTAAAAGATAAAA
1 GAAAATAATTCCATTATTCTAAGAAACTACTAAAACATAAAA
*
37497799 TAAAAT-ATTCC
1 GAAAATAATTCC
37497810 TAGAATATGA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 5 0.11
42 40 0.89
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (42 bp):
GAAAATAATTCCATTATTCTAAGAAACTACTAAAACATAAAA
Found at i:37497849 original size:19 final size:18
Alignment explanation
Indices: 37497827--37497866 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
37497817 TGAATAAAAC
37497827 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
37497846 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
37497864 TTA
1 TTA
37497867 AAATATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:37500819 original size:26 final size:26
Alignment explanation
Indices: 37500790--37500844 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
37500780 TAACCTTATC
37500790 AAAATCAGAAACAAAATTTAAACATA
1 AAAATCAGAAACAAAATTTAAACATA
*
37500816 AAAATTAGAAACAAAATTTAAACATA
1 AAAATCAGAAACAAAATTTAAACATA
37500842 AAA
1 AAA
37500845 TAGTTGTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.67, C:0.09, G:0.04, T:0.20
Consensus pattern (26 bp):
AAAATCAGAAACAAAATTTAAACATA
Found at i:37500844 original size:13 final size:13
Alignment explanation
Indices: 37500802--37500845 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
37500792 AATCAGAAAC
37500802 AAAATTTAAACAT
1 AAAATTTAAACAT
* *
37500815 AAAAATTAGAA-AC
1 AAAATTTA-AACAT
37500828 AAAATTTAAACAT
1 AAAATTTAAACAT
37500841 AAAAT
1 AAAAT
37500846 AGTTGTTGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 2 0.08
13 21 0.84
14 2 0.08
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (13 bp):
AAAATTTAAACAT
Found at i:37501392 original size:42 final size:42
Alignment explanation
Indices: 37501334--37501414 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
37501324 TCCTAATTGG
* *
37501334 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGGA
1 AAAATAATTCCATTATTCTAATAAACTACTAAAAAATAAGGA
37501376 AAAATAATTCCATTATTCTAATAAACTACTAAAAAATAA
1 AAAATAATTCCATTATTCTAATAAACTACTAAAAAATAA
37501415 AATAAAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.30
Consensus pattern (42 bp):
AAAATAATTCCATTATTCTAATAAACTACTAAAAAATAAGGA
Found at i:37501422 original size:42 final size:42
Alignment explanation
Indices: 37501334--37501427 Score: 138
Period size: 42 Copynumber: 2.3 Consensus size: 42
37501324 TCCTAATTGG
* * *
37501334 AAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAGGA
1 AAAATAATTCCATTATTCTAATAAACTACTAAAAAATAAGAA
37501376 AAAATAATTCCATTATTCTAATAAACTACTAAAAAATAA-AA
1 AAAATAATTCCATTATTCTAATAAACTACTAAAAAATAAGAA
37501417 TAAAAT-ATTCC
1 -AAAATAATTCC
37501428 TAGAATATGA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
41 6 0.12
42 42 0.88
ACGTcount: A:0.53, C:0.15, G:0.02, T:0.30
Consensus pattern (42 bp):
AAAATAATTCCATTATTCTAATAAACTACTAAAAAATAAGAA
Found at i:37502898 original size:20 final size:21
Alignment explanation
Indices: 37502873--37502913 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
37502863 TGAGTGAAGC
37502873 TTTCTCTCTCT-AGCTTCAAG
1 TTTCTCTCTCTAAGCTTCAAG
*
37502893 TTTCTCTTTCTAAGCTTCAAG
1 TTTCTCTCTCTAAGCTTCAAG
37502914 AACCCTAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.17, C:0.27, G:0.10, T:0.46
Consensus pattern (21 bp):
TTTCTCTCTCTAAGCTTCAAG
Found at i:37503415 original size:40 final size:40
Alignment explanation
Indices: 37503308--37503415 Score: 105
Period size: 40 Copynumber: 2.7 Consensus size: 40
37503298 GTTGAGCTTT
*
37503308 ATTG-GCTTTAGTGGCGC-TTACTAAAAAACGCCGCAATAG
1 ATTGAGCTTTAGTGGCGCTTTA-TAAGAAACGCCGCAATAG
* * * * * * *
37503347 ATCGAACATTAGCGACGCTAGT-TGAGAAACGCCGCAATAG
1 ATTGAGCTTTAGTGGCGCT-TTATAAGAAACGCCGCAATAG
37503387 ATTGAGCTTTAGTGGCGCTTTATAAGAAA
1 ATTGAGCTTTAGTGGCGCTTTATAAGAAA
37503416 TGCCAATAAA
Statistics
Matches: 50, Mismatches: 15, Indels: 7
0.69 0.21 0.10
Matches are distributed among these distances:
39 4 0.08
40 45 0.90
42 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (40 bp):
ATTGAGCTTTAGTGGCGCTTTATAAGAAACGCCGCAATAG
Found at i:37503550 original size:195 final size:187
Alignment explanation
Indices: 37503230--37503743 Score: 552
Period size: 195 Copynumber: 2.7 Consensus size: 187
37503220 ATGCCGCAAT
* * * * * * *
37503230 AGATCGAGAATTAGCGGCGCTATATGTAAAGC-GCCGCAAAAATGTTGAGCAAAACGACTTTGTT
1 AGATCAAGAATTAGCGGCACTTTTTGTAAAACAG-CACAAAAAAGTTGAGCAAAACGACTTT-TT
* ** *
37503294 TTTTGTTGAGCTTTATTGGCTTTAGTGGCGCTTACTAAAAAACGCCGCAATAGATCGAACATTAG
64 TTTTGTTGAGCTTTATTGGCTTTAGTGACGCTTTTTAAAAAATGCCGCAATAGATCGAACATTAG
* * * *
37503359 CGACGCTAGTTGAGAAACGCCGCAATAGATTGAGCTTTAGTGGCGCTTTATAAGAAATGCCAATA
129 CGACGCAACTTGAGAAACGCCACAATAGA-T---C---AGTGGCGCTTTATAAGAAACGCCAATA
37503424 A
187 A
* * *
37503425 AGATCAAGAATTAGCGGCGCTTGTTT-TAAAACA-CAGTAAAAAAGTTGAGCAAAACAACTTCTT
1 AGATCAAGAATTAGCGGCACTT-TTTGTAAAACAGCA-CAAAAAAGTTGAGCAAAACGACTT-TT
**
37503488 TTTTTGTTGAGCTTTATTGGCTTTAGTGACGCTTTTTAAAAAATGTTGCAATAGATCGAACATTA
63 TTTTTGTTGAGCTTTATTGGCTTTAGTGACGCTTTTTAAAAAATGCCGCAATAGATCGAACATTA
* * * ** *
37503553 GCGGCGCAACTTGAGAAATGCCACAATAGATCGGTGGCGCTTTATAAGAAACGCCGCTAT
128 GCGACGCAACTTGAGAAACGCCACAATAGATCAGTGGCGCTTTATAAGAAACGCCAATAA
* *
37503613 AGATCAGGAATTAGCGGCACTTTTTGTAAAACAGCACAAAAAATTTGAGCAAAACGACTTTTTTT
1 AGATCAAGAATTAGCGGCACTTTTTGTAAAACAGCACAAAAAAGTTGAGCAAAACGACTTTTTTT
* * * * * *
37503678 TTGTTTAGCTTTAGTGGCATTAG-CAGTGCTTTTTCAAAAAATGCCACAATAGATCGATA-ATTA
66 TTGTTGAGCTTTATTGGCTTTAGTGA-CGCTTTTT-AAAAAATGCCGCAATAGATCGA-ACATTA
37503741 GCG
128 GCG
37503744 GCGTTTTTGG
Statistics
Matches: 273, Mismatches: 37, Indels: 25
0.81 0.11 0.07
Matches are distributed among these distances:
186 1 0.00
187 35 0.13
188 97 0.36
189 3 0.01
191 1 0.00
194 2 0.01
195 131 0.48
196 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (187 bp):
AGATCAAGAATTAGCGGCACTTTTTGTAAAACAGCACAAAAAAGTTGAGCAAAACGACTTTTTTT
TTGTTGAGCTTTATTGGCTTTAGTGACGCTTTTTAAAAAATGCCGCAATAGATCGAACATTAGCG
ACGCAACTTGAGAAACGCCACAATAGATCAGTGGCGCTTTATAAGAAACGCCAATAA
Found at i:37503719 original size:188 final size:189
Alignment explanation
Indices: 37503267--37503746 Score: 549
Period size: 188 Copynumber: 2.5 Consensus size: 189
37503257 AAAGCGCCGC
* **
37503267 AAAAATGTTGAGCAAAACGACTTTGTTTTTTGTTGAGCTTTATTGGCTTTAGTGGCGCTTACTAA
1 AAAAAT-TTGAGCAAAACGACTTT-TTTTTTGTTGAGCTTTATTGGCTTTAG-AGCGCTTTTTAA
* * * * *
37503332 AAAACGCCGCAATAGATCGAACATTAGCGACGCTAGTTGAGAAACGCCGCAATAGATTGAGCTTT
63 AAAATGCCGCAATAGATCGAACATTAGCGGCGCAACTTGAGAAACGCCACAATAGATT--GC--T
* * *
37503397 AGTGGCGCTTTATAAGAAATGCCAATAAAGATCAAGAATTAGCGGCGCTTGTTTTAAAACACAGT
124 AGTGGCGCTTTATAAGAAACGCCAATAAAGATCAAGAATTAGCGGCACTTGTTTTAAAACACAGC
37503462 A
189 A
* * *
37503463 AAAAAGTTGAGCAAAACAACTTCTTTTTTTGTTGAGCTTTATTGGCTTTAGTGACGCTTTTTAAA
1 AAAAATTTGAGCAAAACGACTT-TTTTTTTGTTGAGCTTTATTGGCTTTAGAG-CGCTTTTTAAA
** * *
37503528 AAATGTTGCAATAGATCGAACATTAGCGGCGCAACTTGAGAAATGCCACAATAGA-T-C-GGTGG
64 AAATGCCGCAATAGATCGAACATTAGCGGCGCAACTTGAGAAACGCCACAATAGATTGCTAGTGG
** * *
37503590 CGCTTTATAAGAAACGCCGCTATAGATCAGGAATTAGCGGCACTT-TTTGTAAAACAGCA-CA
129 CGCTTTATAAGAAACGCCAATAAAGATCAAGAATTAGCGGCACTTGTTT-TAAAACA-CAGCA
* * * *
37503651 AAAAATTTGAGCAAAACGACTTTTTTTTTGTTTAGCTTTAGTGGCATTAGCAGTGCTTTTTCAAA
1 AAAAATTTGAGCAAAACGACTTTTTTTTTGTTGAGCTTTATTGGCTTTAG-AGCGCTTTTT-AAA
*
37503716 AAATGCCACAATAGATCGATA-ATTAGCGGCG
64 AAATGCCGCAATAGATCGA-ACATTAGCGGCG
37503747 TTTTTGGGAA
Statistics
Matches: 246, Mismatches: 31, Indels: 22
0.82 0.10 0.07
Matches are distributed among these distances:
187 35 0.14
188 101 0.41
189 3 0.01
191 1 0.00
194 2 0.01
195 98 0.40
196 6 0.02
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (189 bp):
AAAAATTTGAGCAAAACGACTTTTTTTTTGTTGAGCTTTATTGGCTTTAGAGCGCTTTTTAAAAA
ATGCCGCAATAGATCGAACATTAGCGGCGCAACTTGAGAAACGCCACAATAGATTGCTAGTGGCG
CTTTATAAGAAACGCCAATAAAGATCAAGAATTAGCGGCACTTGTTTTAAAACACAGCA
Found at i:37504576 original size:21 final size:20
Alignment explanation
Indices: 37504533--37504585 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
37504523 GAGTTTTAAT
*
37504533 TTTAGTGTTTAGGGTATAGG
1 TTTAGAGTTTAGGGTATAGG
* *
37504553 TTTAGAGTTTGGGGTTTAAGG
1 TTTAGAGTTTAGGGTAT-AGG
*
37504574 TTTAGGGTTTAG
1 TTTAGAGTTTAG
37504586 TGTTAAGAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.45
Consensus pattern (20 bp):
TTTAGAGTTTAGGGTATAGG
Found at i:37504733 original size:7 final size:7
Alignment explanation
Indices: 37504533--37504733 Score: 84
Period size: 7 Copynumber: 28.3 Consensus size: 7
37504523 GAGTTTTAAT
*
37504533 TTTAGTG
1 TTTAGGG
37504540 TTTAGGG
1 TTTAGGG
*
37504547 TATA-GG
1 TTTAGGG
*
37504553 TTTAGAG
1 TTTAGGG
*
37504560 TTTGGGG
1 TTTAGGG
*
37504567 TTTAAGG
1 TTTAGGG
37504574 TTTAGGG
1 TTTAGGG
*
37504581 TTTAGTG
1 TTTAGGG
* *
37504588 TTAAGAG
1 TTTAGGG
*
37504595 TTTAGTG
1 TTTAGGG
*
37504602 TTTATGGC
1 TTTA-GGG
* *
37504610 TTATAAGA
1 TT-TAGGG
** *
37504618 CCTAGAAG
1 TTTAG-GG
37504626 TTTAGGG
1 TTTAGGG
*
37504633 TTTTAAGG
1 -TTTAGGG
37504641 TTT-GGTG
1 TTTAGG-G
*
37504648 TTTATGG
1 TTTAGGG
*
37504655 TTTATGG
1 TTTAGGG
*
37504662 TATAGGG
1 TTTAGGG
**
37504669 TTTATAG
1 TTTAGGG
*
37504676 TTTATGG
1 TTTAGGG
37504683 TTTAGGG
1 TTTAGGG
*
37504690 TTTTAGGT
1 -TTTAGGG
37504698 TTTA-GG
1 TTTAGGG
*
37504704 TGTAGGG
1 TTTAGGG
*
37504711 TTCAGGG
1 TTTAGGG
* *
37504718 TCTACGG
1 TTTAGGG
37504725 TTTAGGG
1 TTTAGGG
37504732 TT
1 TT
37504734 GCAATATATC
Statistics
Matches: 139, Mismatches: 46, Indels: 18
0.68 0.23 0.09
Matches are distributed among these distances:
6 10 0.07
7 107 0.77
8 20 0.14
9 2 0.01
ACGTcount: A:0.19, C:0.03, G:0.33, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:37505762 original size:7 final size:7
Alignment explanation
Indices: 37505733--37505944 Score: 59
Period size: 7 Copynumber: 29.7 Consensus size: 7
37505723 AGAGTTTTAA
*
37505733 GTTTAGT
1 GTTTAGG
*
37505740 GTTTATG
1 GTTTAGG
*
37505747 GTGTA-G
1 GTTTAGG
37505753 GTTTAGG
1 GTTTAGG
*
37505760 GTTTGGG
1 GTTTAGG
*
37505767 GTTTAAG
1 GTTTAGG
**
37505774 GTTTATA
1 GTTTAGG
*
37505781 ATTTAGG
1 GTTTAGG
**
37505788 GTTTAAT
1 GTTTAGG
* *
37505795 GTTAAGA
1 GTTTAGG
*
37505802 GTTTAGT
1 GTTTAGG
37505809 GTTTATGG
1 GTTTA-GG
* *
37505817 CTTATAAG
1 GTT-TAGG
** *
37505825 ACTTAGAA
1 GTTTAG-G
37505833 GTTTAGG
1 GTTTAGG
37505840 GTTTTAGG
1 G-TTTAGG
37505848 GTTT-GG
1 GTTTAGG
* *
37505854 TATTTATG
1 -GTTTAGG
*
37505862 GTTTATG
1 GTTTAGG
* *
37505869 GTATAGT
1 GTTTAGG
*
37505876 GTTTATG
1 GTTTAGG
** *
37505883 GAATAAG
1 GTTTAGG
*
37505890 GTTTACG
1 GTTTAGG
* *
37505897 ATTTATG
1 GTTTAGG
37505904 GTTTAGG
1 GTTTAGG
*
37505911 GTTTAAG
1 GTTTAGG
*
37505918 GTCTAGG
1 GTTTAGG
*
37505925 ATTTAGG
1 GTTTAGG
37505932 GTTTTAGG
1 G-TTTAGG
37505940 GTTTA
1 GTTTA
37505945 ATTACTTTTG
Statistics
Matches: 142, Mismatches: 55, Indels: 16
0.67 0.26 0.08
Matches are distributed among these distances:
6 7 0.05
7 109 0.77
8 24 0.17
9 2 0.01
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:37506694 original size:15 final size:15
Alignment explanation
Indices: 37506674--37506704 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37506664 AGAGGACTTG
37506674 TTTTGGTGCTTCGAT
1 TTTTGGTGCTTCGAT
*
37506689 TTTTGGTTCTTCGAT
1 TTTTGGTGCTTCGAT
37506704 T
1 T
37506705 CTTCATTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (15 bp):
TTTTGGTGCTTCGAT
Found at i:37507891 original size:9 final size:9
Alignment explanation
Indices: 37507873--37507903 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
37507863 TTTCGTTAAA
37507873 AATTAACCG
1 AATTAACCG
*
37507882 AATTACCCG
1 AATTAACCG
37507891 AATTAACCG
1 AATTAACCG
37507900 AATT
1 AATT
37507904 GAATCCCCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:37508946 original size:21 final size:20
Alignment explanation
Indices: 37508921--37508973 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
37508911 TTATATATAT
*
37508921 TATATTTTAAATATTAAAATC
1 TATATTTTAAATA-TAAAACC
* *
37508942 TATATTTTTAATATATAACC
1 TATATTTTAAATATAAAACC
*
37508962 TATATTTCAAAT
1 TATATTTTAAAT
37508974 TCATTACTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (20 bp):
TATATTTTAAATATAAAACC
Found at i:37509042 original size:21 final size:20
Alignment explanation
Indices: 37509018--37509060 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
37509008 TTATATATAT
37509018 TATATTTTAAATATTAAAACC
1 TATATTTTAAATA-TAAAACC
* *
37509039 TATATTTTTAATATATAACC
1 TATATTTTAAATATAAAACC
37509059 TA
1 TA
37509061 AATTAGTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATTTTAAATATAAAACC
Found at i:37509090 original size:120 final size:120
Alignment explanation
Indices: 37508952--37509271 Score: 568
Period size: 120 Copynumber: 2.7 Consensus size: 120
37508942 TATATTTTTA
37508952 ATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTATACATAATTATATATA
1 ATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTATACATAATTATATATA
37509017 TTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTAAATTAGTATGG
66 TTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTAAATTAGTATGG
* *
37509072 ATATCTAACCTATATTTCAAATTCATTACTAATAAATTTTTAAATTTTATACATAATTATATATA
1 ATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTATACATAATTATATATA
*
37509137 TTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTATATTAGTATGG
66 TTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTAAATTAGTATGG
* * * *
37509192 ATATGTTACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATAAATA
1 ATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTATACATAATTATATATA
37509257 TTATATTTTTAAATA
66 TTATA-TTTTAAATA
37509272 ACTTATTACT
Statistics
Matches: 191, Mismatches: 8, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
120 182 0.95
121 9 0.05
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (120 bp):
ATATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTATACATAATTATATATA
TTATATTTTAAATATTAAAACCTATATTTTTAATATATAACCTAAATTAGTATGG
Found at i:37509180 original size:20 final size:21
Alignment explanation
Indices: 37509138--37509184 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
37509128 TTATATATAT
37509138 TATATTTTAAATATTAAAACC
1 TATATTTTAAATATTAAAACC
* *
37509159 TATATTTTTAATA-TATAACC
1 TATATTTTAAATATTAAAACC
37509179 TATATT
1 TATATT
37509185 AGTATGGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTTTAAATATTAAAACC
Found at i:37509380 original size:9 final size:9
Alignment explanation
Indices: 37509368--37509579 Score: 195
Period size: 9 Copynumber: 24.0 Consensus size: 9
37509358 TATATCATAT
37509368 CATAACTTA
1 CATAACTTA
*
37509377 CATAACTCA
1 CATAACTTA
37509386 CATAACTTA
1 CATAACTTA
*
37509395 CATAA-ATA
1 CATAACTTA
* * *
37509403 TATATCATA
1 CATAACTTA
37509412 TCATAACTTA
1 -CATAACTTA
*
37509422 CATAACTCA
1 CATAACTTA
37509431 CATAACTTA
1 CATAACTTA
37509440 CATAACTTA
1 CATAACTTA
37509449 CATAACTTA
1 CATAACTTA
37509458 CATAA--TA
1 CATAACTTA
*
37509465 CATAA-ATA
1 CATAACTTA
* * *
37509473 TATATCATA
1 CATAACTTA
37509482 TCATAACTTA
1 -CATAACTTA
*
37509492 CATAACTCA
1 CATAACTTA
37509501 CATAACTTA
1 CATAACTTA
*
37509510 CATAACTCA
1 CATAACTTA
*
37509519 CTTAACTTA
1 CATAACTTA
37509528 CATAACTTA
1 CATAACTTA
37509537 CATAA--TA
1 CATAACTTA
*
37509544 CATAA-ATA
1 CATAACTTA
* * *
37509552 TATATCATA
1 CATAACTTA
37509561 TCATAACTTA
1 -CATAACTTA
37509571 CATAACTTA
1 CATAACTTA
37509580 ATTATACTTA
Statistics
Matches: 169, Mismatches: 26, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
7 14 0.08
8 15 0.09
9 122 0.72
10 18 0.11
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:37509412 original size:45 final size:45
Alignment explanation
Indices: 37509355--37509444 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
37509345 ATAATAACTT
37509355 ATATATATCATATCATAACTTACATAACTCACATAACTTACATAA
1 ATATATATCATATCATAACTTACATAACTCACATAACTTACATAA
37509400 ATATATATCATATCATAACTTACATAACTCACATAACTTACATAA
1 ATATATATCATATCATAACTTACATAACTCACATAACTTACATAA
37509445 CTTACATAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (45 bp):
ATATATATCATATCATAACTTACATAACTCACATAACTTACATAA
Found at i:37509490 original size:70 final size:74
Alignment explanation
Indices: 37509368--37509577 Score: 320
Period size: 79 Copynumber: 2.8 Consensus size: 74
37509358 TATATCATAT
*
37509368 CATAACTTACATAACTCACATAACTTACATAAATATATATCATATCATAACTTACATAACTCACA
1 CATAACTTACATAACTTACATAA--TACATAAATATATATCATATCATAACTTACATAACTCACA
37509433 TAAC-T-T-A-
64 TAACTTATAAC
37509440 CATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTCACATA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTCACATA
37509505 ACTTACATAAC
66 ACTT--ATAAC
37509516 TCACTTAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACT
1 -CA--TAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACT
37509578 TAATTATACT
Statistics
Matches: 128, Mismatches: 1, Indels: 11
0.91 0.01 0.08
Matches are distributed among these distances:
70 44 0.34
71 1 0.01
72 22 0.17
74 1 0.01
75 1 0.01
77 2 0.02
79 57 0.45
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (74 bp):
CATAACTTACATAACTTACATAATACATAAATATATATCATATCATAACTTACATAACTCACATA
ACTTATAAC
Found at i:37514623 original size:13 final size:14
Alignment explanation
Indices: 37514607--37514635 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
37514597 TTTTAAATAT
37514607 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
37514620 TTATAATGGTTTAA
1 TTATAATGGTTTAA
37514634 TT
1 TT
37514636 CTTTGTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:37516850 original size:20 final size:19
Alignment explanation
Indices: 37516825--37516941 Score: 73
Period size: 20 Copynumber: 6.0 Consensus size: 19
37516815 TGTTTAAGCT
*
37516825 TAAAAATTATTTAAATATTA
1 TAAAAATTATTGAAA-ATTA
* **
37516845 TAAAAATT-TAGAAAAGGA
1 TAAAAATTATTGAAAATTA
37516863 TAAAAATT-TATGAAATATTA
1 TAAAAATTAT-TGAAA-ATTA
*
37516883 TAAAATATTA-TGAAAAATA
1 TAAAA-ATTATTGAAAATTA
*
37516902 TGAAAATATTA-T-AAAATAA
1 T-AAAA-ATTATTGAAAATTA
37516921 TAAAAATTATTAGAAACATTA
1 TAAAAATTATT-GAAA-ATTA
37516942 ATTACATGTT
Statistics
Matches: 77, Mismatches: 11, Indels: 17
0.73 0.10 0.16
Matches are distributed among these distances:
17 4 0.05
18 16 0.21
19 18 0.23
20 33 0.43
21 6 0.08
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (19 bp):
TAAAAATTATTGAAAATTA
Found at i:37516888 original size:10 final size:10
Alignment explanation
Indices: 37516865--37516930 Score: 63
Period size: 10 Copynumber: 7.0 Consensus size: 10
37516855 GAAAAGGATA
37516865 AAAAT-TTAT
1 AAAATATTAT
*
37516874 GAAATATTAT
1 AAAATATTAT
37516884 AAAATATTAT
1 AAAATATTAT
37516894 GAAAA-A-TAT
1 -AAAATATTAT
37516903 GAAAATATTAT
1 -AAAATATTAT
37516914 AAAATA--AT
1 AAAATATTAT
37516922 AAAA-ATTAT
1 AAAATATTAT
37516931 TAGAAACATT
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
7 1 0.02
8 6 0.12
9 14 0.29
10 21 0.43
11 7 0.14
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.35
Consensus pattern (10 bp):
AAAATATTAT
Found at i:37516901 original size:12 final size:11
Alignment explanation
Indices: 37516865--37516919 Score: 68
Period size: 10 Copynumber: 5.5 Consensus size: 11
37516855 GAAAAGGATA
37516865 AAAAT-TTATG
1 AAAATATTATG
37516875 -AAATATTAT-
1 AAAATATTATG
37516884 AAAATATTATG
1 AAAATATTATG
37516895 AAAA-A-TATG
1 AAAATATTATG
37516904 AAAATATTAT-
1 AAAATATTATG
37516914 AAAATA
1 AAAATA
37516920 ATAAAAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
9 12 0.30
10 21 0.52
11 7 0.17
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (11 bp):
AAAATATTATG
Found at i:37517423 original size:8 final size:8
Alignment explanation
Indices: 37517410--37517442 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
37517400 TACTTTGATA
37517410 AATTTTAT
1 AATTTTAT
37517418 AATTTTAT
1 AATTTTAT
37517426 AATTTTA-
1 AATTTTAT
37517433 AATTTT-T
1 AATTTTAT
37517440 AAT
1 AAT
37517443 CATTTAACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 9 0.38
8 15 0.62
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
AATTTTAT
Found at i:37521667 original size:23 final size:22
Alignment explanation
Indices: 37521610--37521679 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 22
37521600 AAAAGTAAAA
*
37521610 TAAATTCAAATCATATATAT-T
1 TAAATTCAAATAATATATATCT
*
37521631 TCAATT--AATAATATATATCT
1 TAAATTCAAATAATATATATCT
* *
37521651 TAATATTCAAATTATATTTATCT
1 TAA-ATTCAAATAATATATATCT
37521674 TAAATT
1 TAAATT
37521680 TAATATTCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.28
20 3 0.08
21 8 0.20
22 3 0.08
23 15 0.38
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAATTCAAATAATATATATCT
Found at i:37522754 original size:22 final size:23
Alignment explanation
Indices: 37522726--37522776 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
37522716 AACAGAAAGT
*
37522726 TTAAAATAT-TTTTATAAAATAA
1 TTAAAATATGTTTTAGAAAATAA
* *
37522748 TTAAAATATGTTTTAGACAATAT
1 TTAAAATATGTTTTAGAAAATAA
37522771 TTAAAA
1 TTAAAA
37522777 CTTTAAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (23 bp):
TTAAAATATGTTTTAGAAAATAA
Found at i:37527717 original size:30 final size:28
Alignment explanation
Indices: 37527673--37527728 Score: 69
Period size: 27 Copynumber: 1.9 Consensus size: 28
37527663 ATACATTTAA
37527673 ACCACAATCAAAGTTTCATAAGTATAATTGC
1 ACCACAATCAAAG-TTCAT--GTATAATTGC
*
37527704 ACCA-AATTAAAGTTCATGTATAATT
1 ACCACAATCAAAGTTCATGTATAATT
37527729 TTCAGATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
29 5 0.21
30 7 0.29
31 4 0.17
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (28 bp):
ACCACAATCAAAGTTCATGTATAATTGC
Found at i:37536431 original size:13 final size:13
Alignment explanation
Indices: 37536415--37536456 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
37536405 CTTTTTCAGT
37536415 AGTGCTTTTTAAA
1 AGTGCTTTTTAAA
37536428 AGTGCTTTTTAAA
1 AGTGCTTTTTAAA
*
37536441 AGTGCTTTTGAAA
1 AGTGCTTTTTAAA
37536454 AGT
1 AGT
37536457 CAAAAATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (13 bp):
AGTGCTTTTTAAA
Found at i:37537296 original size:34 final size:34
Alignment explanation
Indices: 37537150--37537280 Score: 138
Period size: 34 Copynumber: 3.8 Consensus size: 34
37537140 TTTTAAAAAA
* * *
37537150 TAAATTAGGATTTAGTGTTCTTTTTTAAAAATTAAT
1 TAAATTAGGGTTTA--GTTATTTTTAAAAAATTAAT
* *** *
37537186 TAAATTAGGGCTTAG-GGGTTTTAAATAAATAAAT
1 TAAATTAGGGTTTAGTTATTTTTAAA-AAATTAAT
*
37537220 AAAATTAGGGTTTAGTTATTTTTAAAAAATTAAT
1 TAAATTAGGGTTTAGTTATTTTTAAAAAATTAAT
*
37537254 TAAATTAGGGTTTAGTTTTTTTTAAAA
1 TAAATTAGGGTTTAGTTATTTTTAAAA
37537281 TAATATTGTG
Statistics
Matches: 78, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
33 6 0.08
34 53 0.68
35 7 0.09
36 12 0.15
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.45
Consensus pattern (34 bp):
TAAATTAGGGTTTAGTTATTTTTAAAAAATTAAT
Found at i:37537488 original size:125 final size:124
Alignment explanation
Indices: 37537350--37537596 Score: 320
Period size: 125 Copynumber: 2.0 Consensus size: 124
37537340 TTTTTTACAA
* * * * *
37537350 TAGTTCCTGAAAAATAATTTTGAGAATACGGTT-CTGAACAAATAATGTGAAAAATGCTTCAAGC
1 TAGTTCCTAAAAAATAATTTTGAGAAGAC-GTTCCTGAACAAATAATGTCAAAAAAGCTTCAACC
* * * *
37537414 AGGATGCACTGTCAGTAAAATTTCA-GAAAAAAGCT-CTCATGTGGACACTCTTTTTCTACTG
65 AAGATGCACTGTCAGCAAAA-TTCATGAAAAAA-CTCCT-ACGTCGACACTCTTTTTCTACTG
*
37537475 TAGTTCCTAAAAAATAATTTTGAGAAGACGTTCCTGAACAAATAGTGTCAAAAAAGCTTCAACCA
1 TAGTTCCTAAAAAATAATTTTGAGAAGACGTTCCTGAACAAATAATGTCAAAAAAGCTTCAACCA
* * *
37537540 AGATGCATTGTTAGCAAAATTGATGAAAAAACTCCTACGTCGACACTCTTTTTCTAC
66 AGATGCACTGTCAGCAAAATTCATGAAAAAACTCCTACGTCGACACTCTTTTTCTAC
37537597 AATAGTTCAT
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
124 27 0.25
125 79 0.75
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (124 bp):
TAGTTCCTAAAAAATAATTTTGAGAAGACGTTCCTGAACAAATAATGTCAAAAAAGCTTCAACCA
AGATGCACTGTCAGCAAAATTCATGAAAAAACTCCTACGTCGACACTCTTTTTCTACTG
Found at i:37540725 original size:25 final size:26
Alignment explanation
Indices: 37540662--37540724 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
37540652 AAAGAACTTC
37540662 TATTTTATTAAAAATATAAAAATAATT
1 TATTTTATT-AAAATATAAAAATAATT
*
37540689 TA--CTATTAAAATAGTAAAAA-AATT
1 TATTTTATTAAAATA-TAAAAATAATT
37540713 TATTTTATTAAA
1 TATTTTATTAAA
37540725 TGAAACAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
24 12 0.39
25 10 0.32
26 7 0.23
27 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (26 bp):
TATTTTATTAAAATATAAAAATAATT
Found at i:37541144 original size:18 final size:18
Alignment explanation
Indices: 37541121--37541157 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
37541111 GGAAAAGAAA
* *
37541121 ACATATAAGGGTTAGGAT
1 ACATATAAAGGCTAGGAT
37541139 ACATATAAAGGCTAGGAT
1 ACATATAAAGGCTAGGAT
37541157 A
1 A
37541158 TGCACCTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.08, G:0.24, T:0.24
Consensus pattern (18 bp):
ACATATAAAGGCTAGGAT
Found at i:37542734 original size:10 final size:10
Alignment explanation
Indices: 37542721--37542747 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
37542711 TACATAAATG
37542721 AAAAAATATT
1 AAAAAATATT
37542731 AAAAAATATT
1 AAAAAATATT
37542741 AAAAAAT
1 AAAAAAT
37542748 TAAAATTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAAATATT
Found at i:37542970 original size:30 final size:30
Alignment explanation
Indices: 37542905--37542973 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
37542895 ATTAATTAAA
*
37542905 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
1 GAGAGTTTTGAGAAATTTAAGGAGAAATTT
* **
37542935 GAGAGTTTTGAGAAATTTAGGGAGAGGTTT
1 GAGAGTTTTGAGAAATTTAAGGAGAAATTT
37542965 GAGAGTTTT
1 GAGAGTTTT
37542974 TTGTCAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.33, C:0.01, G:0.32, T:0.33
Consensus pattern (30 bp):
GAGAGTTTTGAGAAATTTAAGGAGAAATTT
Found at i:37549280 original size:22 final size:21
Alignment explanation
Indices: 37549255--37549304 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
37549245 CTTTTCCTGT
*
37549255 TTTTATTTTTTATTTTATAATA
1 TTTTATTTTATATTTTA-AATA
* *
37549277 TTTTAAATTTATATTTTAAATG
1 TTTT-ATTTTATATTTTAAATA
37549299 TTTTAT
1 TTTTAT
37549305 AATATTTGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.04
22 11 0.48
23 11 0.48
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTATTTTATATTTTAAATA
Found at i:37549381 original size:10 final size:10
Alignment explanation
Indices: 37549366--37549399 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
37549356 GTTTATTATT
37549366 TATTTTATAA
1 TATTTTATAA
37549376 TATTTTA-AA
1 TATTTTATAA
37549385 TATTTTATAA
1 TATTTTATAA
37549395 TATTT
1 TATTT
37549400 GTTTATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TATTTTATAA
Found at i:37549594 original size:15 final size:15
Alignment explanation
Indices: 37549576--37549606 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37549566 AAATGTTATA
*
37549576 AAATAAATAATAAAT
1 AAATAAATAAAAAAT
37549591 AAATAAATAAAAAAT
1 AAATAAATAAAAAAT
37549606 A
1 A
37549607 GGAAAATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAAATAAAAAAT
Found at i:37558621 original size:10 final size:10
Alignment explanation
Indices: 37558606--37558634 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
37558596 ATTACGTGTT
37558606 TGAATAGAAA
1 TGAATAGAAA
37558616 TGAATAG-AA
1 TGAATAGAAA
37558625 TGAATAGAAA
1 TGAATAGAAA
37558635 ATGAGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:37558733 original size:6 final size:6
Alignment explanation
Indices: 37558722--37558760 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
37558712 AGGTTTCCAA
* *
37558722 AAATGG AAATGG AAATGG AAATGA AAATGA AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAA
37558761 CTTGCAATCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:37562844 original size:33 final size:32
Alignment explanation
Indices: 37562807--37562944 Score: 114
Period size: 33 Copynumber: 4.1 Consensus size: 32
37562797 ATAGCTGGAC
37562807 TATGGCATTCTGATGATAAGACCATAATTGGGT
1 TATGGCATTCTGATG-TAAGACCATAATTGGGT
* * * ** *
37562840 TATGGCACTATGAACGTAAGACCATGGTTGGAT
1 TATGGCATTCTG-ATGTAAGACCATAATTGGGT
* * * ** *
37562873 CATGGCAGTGTTTATATGTAAGACCATAGCTGGGC
1 TATGGCA-T-TCT-GATGTAAGACCATAATTGGGT
37562908 TATGGCATTCTGATGATAAGACCATAATTGGGT
1 TATGGCATTCTGATG-TAAGACCATAATTGGGT
37562941 TATG
1 TATG
37562945 TCACTACGAA
Statistics
Matches: 79, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
32 3 0.04
33 50 0.63
34 3 0.04
35 23 0.29
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (32 bp):
TATGGCATTCTGATGTAAGACCATAATTGGGT
Found at i:37562929 original size:101 final size:100
Alignment explanation
Indices: 37562755--37562959 Score: 338
Period size: 101 Copynumber: 2.0 Consensus size: 100
37562745 GTGATTTCGT
*
37562755 GTAAGACCATGGTGGACCATGACAGTGTTTATATGTAAGACTATAGCTGGACTATGGCATTCTGA
1 GTAAGACCATGGTGGACCATGACAGTGTTTATATGTAAGACCATAGCTGGACTATGGCATTCTGA
*
37562820 TGATAAGACCATAATTGGGTTATGGCACTATGAAC
66 TGATAAGACCATAATTGGGTTATGGCACTACGAAC
* * *
37562855 GTAAGACCATGGTTGGATCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTCTG
1 GTAAGACCATGG-TGGACCATGACAGTGTTTATATGTAAGACCATAGCTGGACTATGGCATTCTG
* *
37562920 ATGATAAGACCATAATTGGGTTATGTCACTACGAAT
65 ATGATAAGACCATAATTGGGTTATGGCACTACGAAC
37562956 GTAA
1 GTAA
37562960 ATGATGAATT
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
100 12 0.12
101 85 0.88
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (100 bp):
GTAAGACCATGGTGGACCATGACAGTGTTTATATGTAAGACCATAGCTGGACTATGGCATTCTGA
TGATAAGACCATAATTGGGTTATGGCACTACGAAC
Found at i:37563888 original size:16 final size:17
Alignment explanation
Indices: 37563867--37563899 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
37563857 TAAACATAAA
*
37563867 AAACAAGCAAA-CATAT
1 AAACAAACAAACCATAT
37563883 AAACAAACAAACCATAT
1 AAACAAACAAACCATAT
37563900 CTTCGTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.21, G:0.03, T:0.12
Consensus pattern (17 bp):
AAACAAACAAACCATAT
Found at i:37583881 original size:19 final size:19
Alignment explanation
Indices: 37583837--37583878 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
37583827 GAATTGAATT
37583837 TAAAGTTATGAATTATATA
1 TAAAGTTATGAATTATATA
37583856 TAAAGTT-TGAATGTATGATA
1 TAAAGTTATGAAT-TAT-ATA
37583876 TAA
1 TAA
37583879 GTTCTTGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 10 0.48
20 6 0.29
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.40
Consensus pattern (19 bp):
TAAAGTTATGAATTATATA
Found at i:37584020 original size:64 final size:60
Alignment explanation
Indices: 37583872--37584027 Score: 181
Period size: 62 Copynumber: 2.5 Consensus size: 60
37583862 TTGAATGTAT
*
37583872 GATAT-AAGTTCTTGAGCTGAATTTAATGTATGAATTTTACATACATATGGTTCGAATATA
1 GATATCAA-TTCTTGAGCTGAATTTAATGTATGAATTTCACATACATATGGTTCGAATATA
* *
37583932 TATATTTCAGTTCTTGAGCTGAATTTAATGTATGAATTTCACATACATATGTGGTTCGAATATA
1 GATA--TCAATTCTTGAGCTGAATTTAATGTATGAATTTCACATACATA--TGGTTCGAATATA
*
37583996 GGCTA-CAAATTCTTTGAGCTGAATTTTAATGT
1 -GATATC-AATTC-TTGAGCTGAA-TTTAATGT
37584028 TGTAAATTAT
Statistics
Matches: 81, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
60 3 0.04
62 40 0.49
63 5 0.06
64 23 0.28
65 10 0.12
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (60 bp):
GATATCAATTCTTGAGCTGAATTTAATGTATGAATTTCACATACATATGGTTCGAATATA
Found at i:37584307 original size:40 final size:41
Alignment explanation
Indices: 37584168--37584323 Score: 172
Period size: 41 Copynumber: 3.8 Consensus size: 41
37584158 TTTGAGATTT
* * * * *
37584168 TCAGGCTTAATGCCTAGCAGAC-TTGATGTCGGTGGATTACA
1 TCAGGCTTTATGCCTAGCAGGCTTTG-TGCCGGTGAATTATA
** *
37584209 TCAGGCTTTATGCCTAGCAGGCTCAGTGCCAGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
* * *
37584250 TCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAA-TGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
* *
37584290 TCAGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTG
37584324 TTTTATACAA
Statistics
Matches: 96, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
40 33 0.34
41 62 0.65
42 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
Found at i:37585613 original size:21 final size:22
Alignment explanation
Indices: 37585584--37585625 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
37585574 AGGCGCAAGC
37585584 TTTGTTC-TTTTATAATGAGTTA
1 TTTGTTCTTTTTA-AATGAGTTA
37585606 TTTG-TCTTTTTAAATGAGTT
1 TTTGTTCTTTTTAAATGAGTT
37585626 TAATAGGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.21, C:0.05, G:0.14, T:0.60
Consensus pattern (22 bp):
TTTGTTCTTTTTAAATGAGTTA
Found at i:37586664 original size:49 final size:49
Alignment explanation
Indices: 37586607--37586710 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
37586597 TCATGTGTTA
*** *
37586607 TAATTTTATAAAGTGTTGTGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
37586656 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
37586705 TAATTT
1 TAATTT
37586711 GTTTTTTTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:37588128 original size:21 final size:21
Alignment explanation
Indices: 37588087--37588129 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
37588077 AATAAAGTAG
*
37588087 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
37588108 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
37588129 A
1 A
37588130 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:37588209 original size:26 final size:27
Alignment explanation
Indices: 37588146--37588455 Score: 110
Period size: 28 Copynumber: 10.7 Consensus size: 27
37588136 TATAAGAATA
* *
37588146 ATTATTTTAAATTTTATTAAATTATAT
1 ATTATTTTAAATTATATTTAATTATAT
*
37588173 ATTTTTATTAAATTATATTTAA-TA-AT
1 ATTATT-TTAAATTATATTTAATTATAT
37588199 GATTATTTTAAATTATATTTTATAGTATTATAT
1 -ATTATTTTAAATTATA--TT-TA--ATTATAT
* * * * * *
37588232 ATTATGATTT-TAGTAAATTCATATAAGAAT
1 ATTAT--TTTAAATTATATTTA-ATTA-TAT
* *
37588262 ATTTATTATTAAGAATTTTATTAAATTATAT
1 A-TTATT-TT-A-AATTATATTTAATTATAT
* *
37588293 ATTTTTATTAAATTATATTTAATAATA-
1 ATTATT-TTAAATTATATTTAATTATAT
*
37588320 ATTATTTTAAATTATATTTTA-TAGTATT
1 ATTATTTTAAATTATATTTAATTA-TA-T
* * * * *
37588348 ATATATTATAATTTTAGTAATTCATATAAAAT
1 AT-TATTTTAA-ATTA-T-ATTTA-ATTATAT
* * *
37588380 ATTTATATTAAGAATTTTATTAAATTATAT
1 A-TTAT-TTTA-AATTATATTTAATTATAT
* * *
37588410 ATTTTTATTAAATTATATTTACTAATA-
1 ATTATT-TTAAATTATATTTAATTATAT
37588437 ATTATTTTAAATTATATTT
1 ATTATTTTAAATTATATTT
37588456 TATAGTATTA
Statistics
Matches: 209, Mismatches: 44, Indels: 61
0.67 0.14 0.19
Matches are distributed among these distances:
25 1 0.00
26 41 0.20
27 22 0.11
28 45 0.22
29 20 0.10
30 22 0.11
31 15 0.07
32 19 0.09
33 19 0.09
34 5 0.02
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (27 bp):
ATTATTTTAAATTATATTTAATTATAT
Found at i:37588283 original size:15 final size:16
Alignment explanation
Indices: 37588255--37588284 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37588245 TAAATTCATA
37588255 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
37588271 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
37588285 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:37588324 original size:120 final size:119
Alignment explanation
Indices: 37588094--37588559 Score: 820
Period size: 117 Copynumber: 4.0 Consensus size: 119
37588084 TAGATTATAT
*
37588094 ATTAT-TTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATTATT-TT-A-
1 ATTATATTTTATAGTATTATATATTATGATTTTAGT-AATTCATATAAGAATATTTATTATTAAG
*
37588155 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATGATTATTTTAA
65 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
37588210 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGT-AATTCATATAAGAATATTTATTATTAAG
37588275 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
65 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
37588330 ATTATATTTTATAGTATTATATATTATAATTTTAGTAATTCATATAA-AATATTTA-TATTAAGA
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAATTCATATAAGAATATTTATTATTAAGA
*
37588393 ATTTTATTAAATTATATATTTTTATTAAATTATATTTACTAATAATTATTTTAA
66 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
37588447 ATTATATTTTATAGTATTATATATTATGATTTTAGTAATTCATATAAGAATATTTAATATTAAGA
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAATTCATATAAGAATATTTATTATTAAGA
37588512 ATTTTATTAAATTATAT-TTTTTATTAAATTATATTTAATAATAATTAT
66 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT
37588560 GTTACAATAT
Statistics
Matches: 338, Mismatches: 6, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
116 5 0.01
117 159 0.47
118 48 0.14
119 37 0.11
120 89 0.26
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (119 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAATTCATATAAGAATATTTATTATTAAGA
ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
Found at i:37588374 original size:23 final size:22
Alignment explanation
Indices: 37588330--37588375 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
37588320 ATTATTTTAA
*
37588330 ATTATATTTTATAGTATTATAT
1 ATTATAATTTATAGTATTATAT
37588352 ATTATAATTT-TAGTAATTCATAT
1 ATTATAATTTATAGT-ATT-ATAT
37588375 A
1 A
37588376 AAATATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 12 0.57
23 5 0.24
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (22 bp):
ATTATAATTTATAGTATTATAT
Found at i:37588533 original size:17 final size:17
Alignment explanation
Indices: 37588513--37588547 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
37588503 ATATTAAGAA
37588513 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
37588530 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
37588547 T
1 T
37588548 AATAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATTAAATTATATT
Found at i:37592105 original size:60 final size:59
Alignment explanation
Indices: 37591971--37592117 Score: 165
Period size: 60 Copynumber: 2.5 Consensus size: 59
37591961 ATAAAAAATC
* * ***
37591971 TTTTAATATAATT-TAATATAAAAATAATTATATTAAGAATGTTATTAAATTATATATTAT
1 TTTTATTA-AATTATAAT-TAATAATAATTATATTAAGAATAAGATTAAATTATATATTAT
*
37592031 TTTTATTAAATTAT-ATGTAATAATAATTATATTAA-AATAAGATTAAATTATTTATTTTAT
1 TTTTATTAAATTATAAT-TAATAATAATTATATTAAGAATAAGATTAAATTA--TATATTAT
*
37592091 TTTTATTAACTTATAATTAATAATAAT
1 TTTTATTAAATTATAATTAATAATAAT
37592118 GTTCTTAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
58 12 0.16
59 23 0.31
60 38 0.51
61 2 0.03
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (59 bp):
TTTTATTAAATTATAATTAATAATAATTATATTAAGAATAAGATTAAATTATATATTAT
Found at i:37598960 original size:5 final size:5
Alignment explanation
Indices: 37598950--37598998 Score: 61
Period size: 5 Copynumber: 10.4 Consensus size: 5
37598940 TTGCCCTATT
37598950 TTTTA TTTTA TTTTA TTTTA --TTA TTTTAA TTTTA -TTTA -TTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA
37598997 TT
1 TT
37598999 CCTATGCTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
3 3 0.08
4 8 0.20
5 24 0.60
6 5 0.12
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:37598975 original size:13 final size:13
Alignment explanation
Indices: 37598957--37598998 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
37598947 ATTTTTTATT
37598957 TTATTTTATTTTA
1 TTATTTTATTTTA
37598970 TTATTTTAATTTTA
1 TTATTTT-ATTTTA
37598984 TT-TATTTATTTTA
1 TTAT-TTTATTTTA
37598997 TT
1 TT
37598999 CCTATGCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:37598975 original size:18 final size:18
Alignment explanation
Indices: 37598946--37598998 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 18
37598936 CTCCTTGCCC
37598946 TATTTT-TTATTTTATTT
1 TATTTTATTATTTTATTT
37598963 TATTTTATTATTTTAATTT
1 TATTTTATTATTTT-ATTT
37598982 TA-TTTATTTATTTTATT
1 TATTTTA-TTATTTTATT
37598999 CCTATGCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.18
18 14 0.42
19 13 0.39
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
TATTTTATTATTTTATTT
Found at i:37598981 original size:24 final size:21
Alignment explanation
Indices: 37598946--37598995 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
37598936 CTCCTTGCCC
37598946 TATTTTTTATTTTATTTTATTT
1 TATTTTTTATTTTA-TTTATTT
37598968 TATTATTTTAATTTTATTTA-TT
1 TATT-TTTT-ATTTTATTTATTT
37598990 TATTTT
1 TATTTT
37598996 ATTCCTATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 2 0.08
22 10 0.38
23 8 0.31
24 6 0.23
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (21 bp):
TATTTTTTATTTTATTTATTT
Found at i:37598983 original size:19 final size:19
Alignment explanation
Indices: 37598946--37598996 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
37598936 CTCCTTGCCC
37598946 TATTTT-TTATTTT-ATTT
1 TATTTTATTATTTTAATTT
37598963 TATTTTATTATTTTAATTT
1 TATTTTATTATTTTAATTT
37598982 TA-TTTATTTATTTTA
1 TATTTTA-TTATTTTA
37598997 TTCCTATGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.19
18 11 0.35
19 14 0.45
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TATTTTATTATTTTAATTT
Found at i:37599155 original size:3 final size:3
Alignment explanation
Indices: 37599147--37599202 Score: 55
Period size: 3 Copynumber: 19.7 Consensus size: 3
37599137 TTTTATCTGT
* * *
37599147 TTA TTA TTA CTA TTA TTA -TC TTA TTA TTA TT- TT- TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
37599192 TTA TGA TTA TT
1 TTA TTA TTA TT
37599203 TCATTATTTG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 5 0.12
3 38 0.88
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:37600753 original size:17 final size:17
Alignment explanation
Indices: 37600733--37600794 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
37600723 TTTGTTTTCT
37600733 TTTAGTTTTAGTTTTA-G
1 TTTAGTTTTA-TTTTATG
37600750 TTTAGTTTTATTTTATG
1 TTTAGTTTTATTTTATG
*
37600767 TTTA-TGTTTATGTTTATT
1 TTTAGT-TTTAT-TTTATG
*
37600785 TTTATTTTTA
1 TTTAGTTTTA
37600795 GTTGTTTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
16 6 0.15
17 20 0.50
18 13 0.32
19 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (17 bp):
TTTAGTTTTATTTTATG
Found at i:37600807 original size:5 final size:5
Alignment explanation
Indices: 37600717--37600812 Score: 61
Period size: 6 Copynumber: 18.0 Consensus size: 5
37600707 AGGATCATTG
* * *
37600717 ATTTT A-TTT GTTTT CTTTT AGTTTT AGTTTT AGTTT AGTTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT A-TTTT A-TTTT ATTTT A-TTTT ATTTT
* *
37600764 ATGTTT ATGTTT ATGTTT ATTTTT ATTTT -TAGTT GTTTT ATTTT ATTTT
1 AT-TTT AT-TTT AT-TTT A-TTTT ATTTT AT-TTT ATTTT ATTTT ATTTT
37600813 CTTAGGCTTA
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
4 4 0.05
5 35 0.46
6 36 0.47
7 1 0.01
ACGTcount: A:0.16, C:0.01, G:0.10, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:37617955 original size:132 final size:132
Alignment explanation
Indices: 37617443--37617959 Score: 773
Period size: 132 Copynumber: 4.0 Consensus size: 132
37617433 TCGGTAACCA
** * *
37617443 GTAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGCGAATATTATCTTTCCAAG
1 GTAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAG
*
37617507 ATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTT----
65 ATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAG
37617568 A--
130 ATT
* * *
37617569 -TAGA-CTTATCTCCCTAAGCAGCAGTGGAGCAGATCGAAGACGGCAAATTTTATCTTTCCAAGA
1 GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGA
* * * *
37617632 TAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCTTGAGCAGTAGCGGAGAAGGCTAAAGA
66 TAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGA
37617697 TT
131 TT
* *
37617699 GTAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAGGGCGAATCTTATCTTTCCAAGA
1 GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGA
37617764 TAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGA
66 TAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGA
37617829 TT
131 TT
* * * *
37617831 GTAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATAGAAGACAGCGAATCGTATCTTTCCAAGA
1 GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGA
** *
37617896 TAGTAAGAAGCAGATTAAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAG
66 TAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAG
37617960 CTACAAGTCT
Statistics
Matches: 358, Mismatches: 24, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
124 102 0.28
125 14 0.04
128 1 0.00
131 4 0.01
132 237 0.66
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (132 bp):
GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGA
TAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGA
TT
Found at i:37620363 original size:46 final size:45
Alignment explanation
Indices: 37620279--37620536 Score: 170
Period size: 46 Copynumber: 5.4 Consensus size: 45
37620269 TTTGAGTACT
* *
37620279 TCTGATCAAGTGACAAAGT-GATAAGTGGT-AGCTTTAGCTACACTTA
1 TCTGATCAAGTGAC-AAGTGGA-AAGTGATAAG-TATAGCTACACTTA
*
37620325 TCTAATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGACTATACTTA
1 TCTGATCAAGTGACAAGTGGAAAGTGATAAGT-ATAGC-T--AC---ACTTA
*
37620377 TCTGATCAAGTGACAAAGT-GATAAGTGAT-AGCT-TCGGCTACACTTA
1 TCTGATCAAGTGAC-AAGTGGA-AAGTGATAAG-TAT-AGCTACACTTA
* *
37620423 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAGTGGAAAGTGATAAGT-ATA------GCTACACTTA
* *
37620475 TCTGATCAAGAGACAAAGT-GATAAGTGAT-AGCTTTAGCTACACTTA
1 TCTGATCAAGTGAC-AAGTGGA-AAGTGATAAG-TATAGCTACACTTA
*
37620521 TCTGATCAAGAGACAA
1 TCTGATCAAGTGACAA
37620537 AGTGATAAGT
Statistics
Matches: 174, Mismatches: 12, Indels: 53
0.73 0.05 0.22
Matches are distributed among these distances:
45 25 0.14
46 66 0.38
47 2 0.01
49 4 0.02
51 2 0.01
52 51 0.29
53 24 0.14
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (45 bp):
TCTGATCAAGTGACAAGTGGAAAGTGATAAGTATAGCTACACTTA
Found at i:37620364 original size:52 final size:48
Alignment explanation
Indices: 37620345--37620547 Score: 222
Period size: 46 Copynumber: 4.3 Consensus size: 48
37620335 TGACAAGTGG
* * *
37620345 AAAGTGATAAGTAATAGC-TTCGACTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTTAG-CTACACTTATCTGATCAAGTGACAA
**
37620391 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-A---A
** * *
37620443 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
*
37620489 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
37620535 AAAGTGATAAGTG
1 AAAGTGATAAGTG
37620548 GCTACACTTA
Statistics
Matches: 141, Mismatches: 9, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
46 95 0.67
47 2 0.01
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
Found at i:37620448 original size:98 final size:98
Alignment explanation
Indices: 37620279--37620547 Score: 439
Period size: 98 Copynumber: 2.7 Consensus size: 98
37620269 TTTGAGTACT
* *
37620279 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTAATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
37620344 GAAAGTGATAAGTAATAGCTTCGACTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGACTATACTTA
**
37620377 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
37620442 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGACTATACTTA
* *
37620475 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
37620540 GATAAGTG
65 GAAAAGTG
37620548 GCTACACTTA
Statistics
Matches: 158, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
98 147 0.93
99 11 0.07
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGACTATACTTA
Found at i:37620537 original size:46 final size:44
Alignment explanation
Indices: 37620443--37620658 Score: 199
Period size: 37 Copynumber: 5.3 Consensus size: 44
37620433 TGACAAGTGA
*
37620443 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
37620489 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
37620535 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
37620572 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
37620609 AAAGTGAT-AG-G-T-G---GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
37620645 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
37620659 CATACGTAAG
Statistics
Matches: 160, Mismatches: 5, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
35 7 0.04
36 7 0.04
37 89 0.56
38 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 51 0.32
47 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:37620555 original size:37 final size:37
Alignment explanation
Indices: 37620511--37620656 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
37620501 GATAGCTTTA
*
37620511 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
37620548 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
37620585 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
37620622 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
37620657 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:37621589 original size:18 final size:18
Alignment explanation
Indices: 37621566--37621608 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
37621556 TTGATACTTG
37621566 TATTTTCATTGT-TATATT
1 TATTTT-ATTGTATATATT
* *
37621584 TATTTTTTTGTATATTTT
1 TATTTTATTGTATATATT
37621602 TATTTTA
1 TATTTTA
37621609 CATACGTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (18 bp):
TATTTTATTGTATATATT
Found at i:37623101 original size:98 final size:98
Alignment explanation
Indices: 37622976--37623172 Score: 333
Period size: 98 Copynumber: 2.0 Consensus size: 98
37622966 TTAAAAATAA
* *
37622976 TAAAGGAAATATTCCCAGTTTGAGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTAATTTC
1 TAAAAGAAATATTCCAAGTTTGAGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTAATTTC
37623041 TTAAATCTTGGATAAGTAGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTAGATGTTCTTTTAAAG
* *
37623074 TAAAAGAAATATTTCAAGTTT-AGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTT
1 TAAAAGAAATATTCCAAGTTTGA-GATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTAATTT
*
37623138 CTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
65 CTTAAATCTTGGATAAGTAGATGTTCTTTTAAAG
37623172 T
1 T
37623173 TTTATTGCAC
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
97 1 0.01
98 92 0.99
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (98 bp):
TAAAAGAAATATTCCAAGTTTGAGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTAATTTC
TTAAATCTTGGATAAGTAGATGTTCTTTTAAAG
Found at i:37629228 original size:3 final size:3
Alignment explanation
Indices: 37629220--37629251 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
37629210 TATGGTTGTT
37629220 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
37629252 ATTTGTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.66, T:0.34
Consensus pattern (3 bp):
TGG
Found at i:37629515 original size:23 final size:23
Alignment explanation
Indices: 37629489--37629537 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
37629479 TTGTTTTTTA
37629489 TATGAAAATGCTTATGTTGTGTT
1 TATGAAAATGCTTATGTTGTGTT
*
37629512 TATGAAAATGGTTATGTTGTGTT
1 TATGAAAATGCTTATGTTGTGTT
37629535 TAT
1 TAT
37629538 TTCATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (23 bp):
TATGAAAATGCTTATGTTGTGTT
Found at i:37631334 original size:17 final size:17
Alignment explanation
Indices: 37631314--37631358 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
37631304 ATTAAAAAAA
37631314 TTATAATTTTAAAATTT
1 TTATAATTTTAAAATTT
*
37631331 TTATGATTTTTAAAATTT
1 TTAT-AATTTTAAAATTT
*
37631349 TTATGATTTT
1 TTATAATTTT
37631359 TTATGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (17 bp):
TTATAATTTTAAAATTT
Found at i:37631357 original size:9 final size:9
Alignment explanation
Indices: 37631327--37631369 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
37631317 TAATTTTAAA
37631327 ATTTTTATG
1 ATTTTTATG
**
37631336 ATTTTTAAA
1 ATTTTTATG
37631345 ATTTTTATG
1 ATTTTTATG
37631354 ATTTTTTATG
1 A-TTTTTATG
37631364 ATTTTT
1 ATTTTT
37631370 TAATAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 20 0.69
10 9 0.31
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (9 bp):
ATTTTTATG
Found at i:37631359 original size:10 final size:10
Alignment explanation
Indices: 37631328--37631371 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
37631318 AATTTTAAAA
37631328 TTTTTATGA-
1 TTTTTATGAT
* *
37631337 TTTTTA-AAA
1 TTTTTATGAT
37631346 TTTTTATGAT
1 TTTTTATGAT
37631356 TTTTTATGAT
1 TTTTTATGAT
37631366 TTTTTA
1 TTTTTA
37631372 ATAATTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
8 1 0.03
9 12 0.40
10 17 0.57
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (10 bp):
TTTTTATGAT
Found at i:37631368 original size:18 final size:18
Alignment explanation
Indices: 37631320--37631359 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
37631310 AAAATTATAA
37631320 TTTTAAAATTTTTATGAT
1 TTTTAAAATTTTTATGAT
37631338 TTTTAAAATTTTTATGAT
1 TTTTAAAATTTTTATGAT
37631356 TTTT
1 TTTT
37631360 TATGATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTTAAAATTTTTATGAT
Found at i:37637686 original size:25 final size:24
Alignment explanation
Indices: 37637551--37637688 Score: 77
Period size: 25 Copynumber: 5.5 Consensus size: 24
37637541 ACACACCTTA
*
37637551 GCTCTTAT-GAGCATCCCGATATATG
1 GCTCTT-TGGAGCTTCCCGATA-ATG
* *
37637576 ACTCTTCGTGAGCTTCCC-ATTAACTG
1 GCTCTTTG-GAGCTTCCCGA-TAA-TG
*
37637602 GCTCTTTGTGAGCTTCCTGAT-ATG
1 GCTCTTTG-GAGCTTCCCGATAATG
* * *
37637626 GCTCGCTT-GAACTTTCCGATATATG
1 GCTC-TTTGGAGCTTCCCGATA-ATG
* **
37637651 GCTATCCGGAGCTTCCCGATTAATG
1 GCTCTTTGGAGCTTCCCGA-TAATG
37637676 GCTCTTTGGAGCT
1 GCTCTTTGGAGCT
37637689 ACCTGTTATA
Statistics
Matches: 84, Mismatches: 19, Indels: 20
0.68 0.15 0.16
Matches are distributed among these distances:
23 9 0.11
24 6 0.07
25 38 0.45
26 30 0.36
27 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (24 bp):
GCTCTTTGGAGCTTCCCGATAATG
Found at i:37637741 original size:73 final size:73
Alignment explanation
Indices: 37637659--37637814 Score: 269
Period size: 73 Copynumber: 2.1 Consensus size: 73
37637649 TGGCTATCCG
*
37637659 GAGCTTCCCGATTAATGGCTCTTTGGA-GCTACCTGTTATAAGCTCGCATGAGATTCTTGAATAT
1 GAGCTTCCCGATTAATGGCTC-TTCGACGCTACCTGTTATAAGCTCGCATGAGATTCTTGAATAT
37637723 GGATCTTAT
65 GGATCTTAT
* *
37637732 GAGTTTCCCGATTAATGGCTCTTCGACGCTACCTGTTATAAGCTCGCATGAGCTTCTTGAATATG
1 GAGCTTCCCGATTAATGGCTCTTCGACGCTACCTGTTATAAGCTCGCATGAGATTCTTGAATATG
37637797 GATCTTAT
66 GATCTTAT
37637805 GAGCTTCCCG
1 GAGCTTCCCG
37637815 TTATATAGTC
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
72 4 0.05
73 74 0.95
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (73 bp):
GAGCTTCCCGATTAATGGCTCTTCGACGCTACCTGTTATAAGCTCGCATGAGATTCTTGAATATG
GATCTTAT
Done.