Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 102 of 185
Found at i:32242684 original size:69 final size:69
Alignment explanation
Indices: 32242573--32242780 Score: 398
Period size: 69 Copynumber: 3.0 Consensus size: 69
32242563 CAATGCCATG
*
32242573 TCCCAAACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAATGCCATGTCCCAGACATGGTCT
1 TCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCT
32242638 TACA
66 TACA
32242642 TCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCT
1 TCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCT
32242707 TACA
66 TACA
*
32242711 TCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTCTCAGACATGGTCT
1 TCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCT
32242776 TACA
66 TACA
32242780 T
1 T
32242781 GGGACCTCTT
Statistics
Matches: 137, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 137 1.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (69 bp):
TCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCT
TACA
Found at i:32242720 original size:19 final size:19
Alignment explanation
Indices: 32242692--32242730 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
32242682 CAATGCCATG
*
32242692 TCCCAGACATGGTCTTACA
1 TCCCAAACATGGTCTTACA
32242711 TCCCAAACATGGTCTTACA
1 TCCCAAACATGGTCTTACA
32242730 T
1 T
32242731 GGGACCTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (19 bp):
TCCCAAACATGGTCTTACA
Found at i:32244613 original size:19 final size:19
Alignment explanation
Indices: 32244591--32244627 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
32244581 ATCACTGTCA
32244591 CCCACCGTAATCAAATTTT
1 CCCACCGTAATCAAATTTT
32244610 CCCACCGTAATCAAATTT
1 CCCACCGTAATCAAATTT
32244628 ATTATTAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.30
Consensus pattern (19 bp):
CCCACCGTAATCAAATTTT
Found at i:32245211 original size:30 final size:32
Alignment explanation
Indices: 32245169--32245229 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 32
32245159 GGGGGTGGGA
32245169 TGGGAGGGGAGTAAAAGTTTCT-GGGGAAAGG
1 TGGGAGGGGAGTAAAAGTTTCTAGGGGAAAGG
*
32245200 TGGGA-GGGAGTAAAAGTTTTTAGGGGAAAG
1 TGGGAGGGGAGTAAAAGTTTCTAGGGGAAAG
32245230 TAAGGAGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 15 0.54
31 13 0.46
ACGTcount: A:0.31, C:0.02, G:0.46, T:0.21
Consensus pattern (32 bp):
TGGGAGGGGAGTAAAAGTTTCTAGGGGAAAGG
Found at i:32245237 original size:31 final size:30
Alignment explanation
Indices: 32245175--32245237 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
32245165 GGGATGGGAG
*
32245175 GGGAGTAAAAGTTTCTGGGGAAAGGTGGGA
1 GGGAGTAAAAGTTTCTGGGGAAAGGTAGGA
*
32245205 GGGAGTAAAAGTTTTTAGGGGAAA-GTAAGGA
1 GGGAGTAAAAGTTTCT-GGGGAAAGGT-AGGA
32245236 GG
1 GG
32245238 TTTGGGAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 17 0.59
31 12 0.41
ACGTcount: A:0.33, C:0.02, G:0.44, T:0.21
Consensus pattern (30 bp):
GGGAGTAAAAGTTTCTGGGGAAAGGTAGGA
Found at i:32248038 original size:9 final size:9
Alignment explanation
Indices: 32248024--32248063 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
32248014 TTTGGTTAAA
32248024 AATTAACCG
1 AATTAACCG
32248033 AATTAACCG
1 AATTAACCG
*
32248042 AATTACCCG
1 AATTAACCG
32248051 AATTAACCG
1 AATTAACCG
32248060 AATT
1 AATT
32248064 GAATCACTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:32254860 original size:80 final size:79
Alignment explanation
Indices: 32254776--32254947 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
32254766 GGACTAAGAT
*
32254776 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
32254840 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
32254856 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
32254921 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
32254935 CCGAAGGCATTTG
1 CCGAAGGCATTTG
32254948 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:32254927 original size:39 final size:39
Alignment explanation
Indices: 32254723--32254945 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
32254713 TTGAATGCTG
* * * * *
32254723 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
32254763 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
32254802 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
32254843 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
32254883 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
32254922 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
32254946 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:32254965 original size:79 final size:80
Alignment explanation
Indices: 32254803--32254980 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
32254793 AGATACAAAT
* * * *
32254803 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
32254868 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
32254883 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
32254947 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
32254962 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
32254981 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:32262122 original size:35 final size:34
Alignment explanation
Indices: 32262049--32262181 Score: 122
Period size: 35 Copynumber: 3.8 Consensus size: 34
32262039 TGTTTCGGAG
** *
32262049 GGACTAGCTCTTATGAGCATTGACGTGCTTCGGCT
1 GGACTAGCTCTTATGAGCATTGGTGTGCTTC-GTT
*
32262084 GGACTAGCTCTTATGAGCATTGGTGTGGTTCTGTT
1 GGACTAGCTCTTATGAGCATTGGTGTGCTTC-GTT
** * *
32262119 GGACTTTCTCTTCTGAGCATTGGTGTGTTTCGATT
1 GGACTAGCTCTTATGAGCATTGGTGTGCTTCG-TT
* * * *
32262154 GGACTTGTTGTTGTGAGCATCTGGTGTG
1 GGACTAGCTCTTATGAGCAT-TGGTGTG
32262182 ATTTGGAGGG
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
34 1 0.01
35 75 0.90
36 7 0.08
ACGTcount: A:0.14, C:0.17, G:0.31, T:0.39
Consensus pattern (34 bp):
GGACTAGCTCTTATGAGCATTGGTGTGCTTCGTT
Found at i:32269962 original size:26 final size:26
Alignment explanation
Indices: 32269897--32269951 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
32269887 AATCCGATAG
32269897 TAAAACTTAAAAATGTTTGAATTGCT
1 TAAAACTTAAAAATGTTTGAATTGCT
32269923 TAAAACTTAAAAATGTTTGAATTGCT
1 TAAAACTTAAAAATGTTTGAATTGCT
32269949 TAA
1 TAA
32269952 CTGTTGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (26 bp):
TAAAACTTAAAAATGTTTGAATTGCT
Found at i:32273218 original size:18 final size:18
Alignment explanation
Indices: 32273197--32273234 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
32273187 CAACTTGGTA
32273197 ATTTGTTATCTATAGCAC
1 ATTTGTTATCTATAGCAC
32273215 ATTTGTTATCTATAGCAC
1 ATTTGTTATCTATAGCAC
32273233 AT
1 AT
32273235 ACAAACTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.45
Consensus pattern (18 bp):
ATTTGTTATCTATAGCAC
Found at i:32274246 original size:13 final size:13
Alignment explanation
Indices: 32274228--32274253 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32274218 ATATAATCTG
32274228 ATTGGGTCAGCTT
1 ATTGGGTCAGCTT
32274241 ATTGGGTCAGCTT
1 ATTGGGTCAGCTT
32274254 TGGGCTGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.31, T:0.38
Consensus pattern (13 bp):
ATTGGGTCAGCTT
Found at i:32281323 original size:27 final size:28
Alignment explanation
Indices: 32281270--32281323 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
32281260 AAAATAATTA
*
32281270 AAATTCAATATTTTAATAATTTAAGTGC
1 AAATTCAATATTTTAATAATTCAAGTGC
32281298 AAATT-AATTATTTT-ATAATTCAAGTG
1 AAATTCAA-TATTTTAATAATTCAAGTG
32281324 TGAATTTCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (28 bp):
AAATTCAATATTTTAATAATTCAAGTGC
Found at i:32291463 original size:22 final size:23
Alignment explanation
Indices: 32291437--32291479 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
32291427 GAAAATAGTC
32291437 AAAATTAATAAAAATT-AACAAT
1 AAAATTAATAAAAATTCAACAAT
*
32291459 AAAATTAATTAAAATTCAACA
1 AAAATTAATAAAAATTCAACA
32291480 TGTTCATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (23 bp):
AAAATTAATAAAAATTCAACAAT
Found at i:32306463 original size:29 final size:28
Alignment explanation
Indices: 32306430--32306495 Score: 91
Period size: 27 Copynumber: 2.3 Consensus size: 28
32306420 AAAAGTATTT
32306430 TAAAAAAATTTTAAAAAAA-A-TTTAAAA
1 TAAAAAAA-TTTAAAAAAAGATTTTAAAA
32306457 TTAAAAAAATTTAAAAAAAGTATTTTAAAA
1 -TAAAAAAATTTAAAAAAAG-ATTTTAAAA
32306487 TAAAAAAAT
1 TAAAAAAAT
32306496 AAAAATATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
27 10 0.29
28 8 0.23
29 10 0.29
30 7 0.20
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (28 bp):
TAAAAAAATTTAAAAAAAGATTTTAAAA
Found at i:32306475 original size:11 final size:11
Alignment explanation
Indices: 32306398--32306456 Score: 57
Period size: 11 Copynumber: 5.1 Consensus size: 11
32306388 AATTTATTTT
32306398 AAAAA-TTAAA
1 AAAAATTTAAA
*
32306408 ATAAAAATTAAA
1 A-AAAATTTAAA
32306420 AAAAGTATTTTAAA
1 AAAA--A-TTTAAA
*
32306434 AAAATTTTAAA
1 AAAAATTTAAA
32306445 AAAAATTTAAA
1 AAAAATTTAAA
32306456 A
1 A
32306457 TTAAAAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
10 1 0.02
11 24 0.59
12 6 0.15
13 1 0.02
14 9 0.22
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (11 bp):
AAAAATTTAAA
Found at i:32306500 original size:52 final size:54
Alignment explanation
Indices: 32306399--32306506 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 54
32306389 ATTTATTTTA
**
32306399 AAAATTAAAATAAAAATTAAAAAAAGTATTTTAAAAAAATTTTAAAAAAA-ATTT
1 AAAATTAAAATAAAAATTAAAAAAAGTATTTTAAAAAAA-TAAAAAAAAATATTT
*
32306453 AAAATT-AAA-AAAATTTAAAAAAAGTATTTTAAAATAAA-AAAATAAAAATATTT
1 AAAATTAAAATAAAAATTAAAAAAAGTATTTTAAAA-AAATAAAA-AAAAATATTT
32306506 A
1 A
32306507 TTATTCGGGC
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
51 2 0.04
52 29 0.60
53 11 0.23
54 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (54 bp):
AAAATTAAAATAAAAATTAAAAAAAGTATTTTAAAAAAATAAAAAAAAATATTT
Found at i:32313456 original size:43 final size:44
Alignment explanation
Indices: 32313390--32313474 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 44
32313380 CATGGCCTGG
*
32313390 TACAAGGGCATGTGGCTTAGCCGTGTGACCCAACTTC-AAAAGT
1 TACAAGGGCACGTGGCTTAGCCGTGTGACCCAACTTCGAAAAGT
* *
32313433 TACATGGGCACGTGGCTTGGCCGTGTGACCCAACTTCGAAAA
1 TACAAGGGCACGTGGCTTAGCCGTGTGACCCAACTTCGAAAA
32313475 TTGCATTGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 34 0.89
44 4 0.11
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (44 bp):
TACAAGGGCACGTGGCTTAGCCGTGTGACCCAACTTCGAAAAGT
Found at i:32317899 original size:50 final size:51
Alignment explanation
Indices: 32317811--32317943 Score: 155
Period size: 50 Copynumber: 2.6 Consensus size: 51
32317801 AAAGTGATGG
* * * * *
32317811 TCACGTGTGTAGTACTATTTGCAGGCTACTACGTGTACCAGAAT-G-ATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GAATAGCATAGA
* * * *
32317861 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCATAGA
32317912 TCACATGTGTAGTACTATGTGCA-GCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
32317944 TGAACCGATG
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
49 3 0.04
50 44 0.62
51 24 0.34
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCATAGA
Found at i:32323871 original size:50 final size:48
Alignment explanation
Indices: 32323806--32324003 Score: 171
Period size: 51 Copynumber: 4.0 Consensus size: 48
32323796 AAAGTGAAAG
*
32323806 TGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAA
* * * * *
32323855 TGATAGGTCGCATGTGTAGTACTCTGTGCAGGCTACTATGCGTACCGGA
1 TGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
* * * * * *
32323904 TAGCTTCGATCACGTGTGTAGTACTATGTGCAGGCTAATACATGTATCGGATA
1 T-G-AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCGA-A
* * * * *
32323957 GTGATGGTCACATCTGTAGTATTATATGCAGGCTACTATGTGAACCG
1 -TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
32324004 GTGTCATTAA
Statistics
Matches: 114, Mismatches: 29, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
49 7 0.06
50 39 0.34
51 62 0.54
52 3 0.03
53 2 0.02
54 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (48 bp):
TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
Found at i:32323933 original size:101 final size:102
Alignment explanation
Indices: 32323812--32323996 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 102
32323802 AAAGTGATGG
* * * *
32323812 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTAATACATGTACCAGATAGTGAT-GGTCACATCTGTAGT
* *
32323875 ACTCTGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
65 ACTATATGCAGGCTACTATGCGTACCGGATAGCTTCGA
* *
32323913 TCACGTGTGTAGTACTATGTGCAGGCTAATACATGTATCGGATAGTGATGGTCACATCTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTAATACATGTACCAGATAGTGATGGTCACATCTGTAGTA
*
32323978 TTATATGCAGGCTACTATG
66 CTATATGCAGGCTACTATG
32323997 TGAACCGGTG
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 38 0.52
102 31 0.42
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTAATACATGTACCAGATAGTGATGGTCACATCTGTAGTA
CTATATGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:32323937 original size:51 final size:50
Alignment explanation
Indices: 32323812--32323940 Score: 152
Period size: 50 Copynumber: 2.6 Consensus size: 50
32323802 AAAGTGATGG
* *
32323812 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGA
* * * * * * *
32323862 TCGCATGTGTAGTACTCTGTGCAGGCTACTATGCGTACC-GGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAAT-G-ATAGA
32323913 TCACGTGTGTAGTACTATGTGCAGGCTA
1 TCACGTGTGTAGTACTATGTGCAGGCTA
32323941 ATACATGTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
49 3 0.05
50 35 0.54
51 27 0.42
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGA
Found at i:32330228 original size:42 final size:42
Alignment explanation
Indices: 32330161--32330248 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
32330151 CTTAACACAC
* *
32330161 GGCCTGACACATGGGCATGTAAGGCAATTTCGAGAGTTACAT
1 GGCCCGACACATGGGCATGTAAGGCAATTTCAAGAGTTACAT
** *
32330203 GGCCCGACACATGGGTGTGTGAGGCAATTTCAAGAGTTACAT
1 GGCCCGACACATGGGCATGTAAGGCAATTTCAAGAGTTACAT
32330245 GGCC
1 GGCC
32330249 TAGCACACAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (42 bp):
GGCCCGACACATGGGCATGTAAGGCAATTTCAAGAGTTACAT
Found at i:32330265 original size:42 final size:41
Alignment explanation
Indices: 32330182--32330266 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 41
32330172 TGGGCATGTA
* * **
32330182 AGGCAATTTCGAGAGTTACATGGCCCGACACATGGGTGTGTG
1 AGGCAATTTCAAGAGTTACATGGCCAGACACA-GGCCGTGTG
32330224 AGGCAATTTCAAGAGTTACATGGCCTAGCACACA-GCCGTGTG
1 AGGCAATTTCAAGAGTTACATGGCC-AG-ACACAGGCCGTGTG
32330266 A
1 A
32330267 CCCTACTCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 31 0.84
43 1 0.03
44 5 0.14
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.22
Consensus pattern (41 bp):
AGGCAATTTCAAGAGTTACATGGCCAGACACAGGCCGTGTG
Found at i:32336449 original size:7 final size:8
Alignment explanation
Indices: 32336432--32336463 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
32336422 AGTGAGATGC
32336432 ATTGAAAA
1 ATTGAAAA
32336440 ATTG-AAA
1 ATTGAAAA
32336447 ATTGAAAA
1 ATTGAAAA
32336455 ATTGAAAA
1 ATTGAAAA
32336463 A
1 A
32336464 AAATTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (8 bp):
ATTGAAAA
Found at i:32336452 original size:15 final size:15
Alignment explanation
Indices: 32336432--32336462 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32336422 AGTGAGATGC
32336432 ATTGAAAAATTGAAA
1 ATTGAAAAATTGAAA
32336447 ATTGAAAAATTGAAA
1 ATTGAAAAATTGAAA
32336462 A
1 A
32336463 AAAATTCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (15 bp):
ATTGAAAAATTGAAA
Found at i:32336490 original size:26 final size:26
Alignment explanation
Indices: 32336410--32336546 Score: 151
Period size: 26 Copynumber: 5.4 Consensus size: 26
32336400 TGAGACAGCA
32336410 AAAAAATTCATGAGTGAGATGCATTG
1 AAAAAATTCATGAGTGAGATGCATTG
* ** * **
32336436 -AAAAATTGAAAATTGA-A-AAATTG
1 AAAAAATTCATGAGTGAGATGCATTG
32336459 AAAAAAAATTCATGAGTGAGATGCATTG
1 --AAAAAATTCATGAGTGAGATGCATTG
32336487 AAAAAATTCATGAGTGAGATGCATTG
1 AAAAAATTCATGAGTGAGATGCATTG
*
32336513 -AAAAATTCATGAGTGAGATGCA--A
1 AAAAAATTCATGAGTGAGATGCATTG
32336536 AAAAAATTCAT
1 AAAAAATTCAT
32336547 TGTGTTCTCG
Statistics
Matches: 92, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
23 4 0.04
24 11 0.12
25 34 0.37
26 38 0.41
27 1 0.01
28 4 0.04
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.26
Consensus pattern (26 bp):
AAAAAATTCATGAGTGAGATGCATTG
Found at i:32336517 original size:51 final size:50
Alignment explanation
Indices: 32336410--32336546 Score: 147
Period size: 51 Copynumber: 2.7 Consensus size: 50
32336400 TGAGACAGCA
* * *
32336410 AAAAAATTCATGAGTGAGATGCATTG-AAAAATTGAAAATTGAAAAATTG
1 AAAAAATTCATGAGTGAGATGCATTGAAAAAATTCATAAGTGAAAAATTG
* **
32336459 AAAAAAAATTCATGAGTGAGATGCATTGAAAAAATTCATGAGTGAGATGCATTG
1 --AAAAAATTCATGAGTGAGATGCATTGAAAAAATTCATAAGTGA-A-AAATTG
*
32336513 -AAAAATTCATGAGTGAGATGCA--AAAAAAATTCAT
1 AAAAAATTCATGAGTGAGATGCATTGAAAAAATTCAT
32336547 TGTGTTCTCG
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
49 11 0.14
51 48 0.63
52 12 0.16
53 1 0.01
54 4 0.05
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.26
Consensus pattern (50 bp):
AAAAAATTCATGAGTGAGATGCATTGAAAAAATTCATAAGTGAAAAATTG
Found at i:32346351 original size:29 final size:29
Alignment explanation
Indices: 32346318--32346380 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
32346308 TGCACTGTGA
* * *
32346318 TACTTAGTCTGACATTGAACTATGCTTTC
1 TACTTAGGCTAACATTAAACTATGCTTTC
32346347 TACTTAGGCTAACATTAAACTATGCTTTC
1 TACTTAGGCTAACATTAAACTATGCTTTC
32346376 TACTT
1 TACTT
32346381 GTGAAACAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.41
Consensus pattern (29 bp):
TACTTAGGCTAACATTAAACTATGCTTTC
Found at i:32354547 original size:17 final size:17
Alignment explanation
Indices: 32354525--32354567 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
32354515 TATCCGTGTG
32354525 GGGCCCACAAGCCCATT
1 GGGCCCACAAGCCCATT
32354542 GGGCCCACAAGCCCATT
1 GGGCCCACAAGCCCATT
32354559 GGGCCCACA
1 GGGCCCACA
32354568 TGACCTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.23, C:0.42, G:0.26, T:0.09
Consensus pattern (17 bp):
GGGCCCACAAGCCCATT
Found at i:32368286 original size:23 final size:23
Alignment explanation
Indices: 32368260--32368304 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
32368250 GTTCAAAATT
*
32368260 TTAAAATAAACAATATATATGAG
1 TTAAAACAAACAATATATATGAG
*
32368283 TTAAAACAAATAATATATATGA
1 TTAAAACAAACAATATATATGA
32368305 ATGTACAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (23 bp):
TTAAAACAAACAATATATATGAG
Found at i:32368393 original size:24 final size:24
Alignment explanation
Indices: 32368353--32368604 Score: 181
Period size: 24 Copynumber: 10.8 Consensus size: 24
32368343 TGAATTGGAT
* *
32368353 AATTTACAATAACTAATATATAATA
1 AATTTAAAATAA-TAATATATGATA
*
32368378 AATTTGAAATAATAATATAT-ATAA
1 AATTTAAAATAATAATATATGAT-A
32368402 AATTTAAAA-AAT--T-TGATGAT-
1 AATTTAAAATAATAATAT-ATGATA
*
32368422 AATTCTAAAATAATCATACT-TGATA
1 AATT-TAAAATAATAATA-TATGATA
** * *
32368447 AATCCAAAATAATAGTATATAATA
1 AATTTAAAATAATAATATATGATA
*
32368471 AATTT-AAA-AATATTA-ATGATA
1 AATTTAAAATAATAATATATGATA
* *
32368492 AATTTGAAATAGAT-ATACATGATA
1 AATTTAAAATA-ATAATATATGATA
** **
32368516 AATTTAAAATAATGTTA-ACAATA
1 AATTTAAAATAATAATATATGATA
32368539 AATTTAAAATAATAATAT-TGATA
1 AATTTAAAATAATAATATATGATA
* *
32368562 AA-TTACAAATAATAAAACATGATA
1 AATTTA-AAATAATAATATATGATA
*
32368586 AATCTAAAATAATAATATA
1 AATTTAAAATAATAATATA
32368605 CAATACACTT
Statistics
Matches: 181, Mismatches: 26, Indels: 41
0.73 0.10 0.17
Matches are distributed among these distances:
20 5 0.03
21 18 0.10
22 17 0.09
23 48 0.27
24 77 0.43
25 15 0.08
26 1 0.01
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (24 bp):
AATTTAAAATAATAATATATGATA
Found at i:32368448 original size:69 final size:69
Alignment explanation
Indices: 32368375--32368609 Score: 214
Period size: 69 Copynumber: 3.4 Consensus size: 69
32368365 CTAATATATA
* *
32368375 ATAAATTTGAAATAATAATATAT-ATAAAATTTAAAAA-ATTTGATGAT-AATTCTAAAATA-AT
1 ATAAATTTAAAATAATAATATATAAT-AAATTTAAAAATA-TTAATGATAAATT-TAAAATAGAT
*
32368436 CATACTTG
63 -ATACATG
** * *
32368444 ATAAATCCAAAATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATATA
1 ATAAATTTAAAATAATAATATATAATAAATTTAAAAATATTAATGATAAATTTAAAATAGATATA
32368509 CATG
66 CATG
** * * *
32368513 ATAAATTTAAAATAATGTTA-ACAATAAATTTAAAATAATAATATTGATAAA-TTACAAATA-AT
1 ATAAATTTAAAATAATAATATATAATAAATTT-AAA-AATATTAATGATAAATTTA-AAATAGAT
*
32368575 AAAACATG
63 -ATACATG
* *
32368583 ATAAATCTAAAATAATAATATACAATA
1 ATAAATTTAAAATAATAATATATAATA
32368610 CACTTAGATA
Statistics
Matches: 138, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
68 10 0.07
69 72 0.52
70 50 0.36
71 6 0.04
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (69 bp):
ATAAATTTAAAATAATAATATATAATAAATTTAAAAATATTAATGATAAATTTAAAATAGATATA
CATG
Found at i:32368587 original size:47 final size:48
Alignment explanation
Indices: 32368353--32368603 Score: 129
Period size: 45 Copynumber: 5.4 Consensus size: 48
32368343 TGAATTGGAT
* * * * *
32368353 AATTTACAATAACTAATATATAATAAATTTGAAATAAT-AATATAT-ATAA
1 AATTTAAAATAA-TAATAT-TGATAAATTTAAAATAATGAAAACATGAT-A
* * * *
32368402 AATTTAAAA-AAT-TTGA-TGAT-AATTCTAAAATAAT-CATACTTGATA
1 AATTTAAAATAATAAT-ATTGATAAATT-TAAAATAATGAAAACATGATA
** * * **
32368447 AATCCAAAATAATAGTATATAATAAATTT-AAA-AAT-ATTA-ATGATA
1 AATTTAAAATAATAATAT-TGATAAATTTAAAATAATGAAAACATGATA
* * **
32368492 AATTTGAAATAGAT-ATACATGATAAATTTAAAATAATGTTAACA--ATA
1 AATTTAAAATA-ATAATA-TTGATAAATTTAAAATAATGAAAACATGATA
32368539 AATTTAAAATAATAATATTGATAAA-TTACAAATAAT-AAAACATGATA
1 AATTTAAAATAATAATATTGATAAATTTA-AAATAATGAAAACATGATA
*
32368586 AATCTAAAATAATAATAT
1 AATTTAAAATAATAATAT
32368604 ACAATACACT
Statistics
Matches: 157, Mismatches: 27, Indels: 38
0.71 0.12 0.17
Matches are distributed among these distances:
44 4 0.03
45 54 0.34
46 33 0.21
47 45 0.29
48 8 0.05
49 13 0.08
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (48 bp):
AATTTAAAATAATAATATTGATAAATTTAAAATAATGAAAACATGATA
Found at i:32368621 original size:70 final size:69
Alignment explanation
Indices: 32368442--32368609 Score: 187
Period size: 70 Copynumber: 2.4 Consensus size: 69
32368432 TAATCATACT
* * * * * **
32368442 TGATAAATCCAAAATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAGATA
1 TGATAAATCTAAAATAATAATATACAATAAATTTAATAATAATAATGATAAATTACAAATAGATA
*
32368507 TACA
66 AACA
* ** *
32368511 TGATAAATTTAAAATAATGTTA-ACAATAAATTTAAAATAATAATATTGATAAATTACAAATA-A
1 TGATAAATCTAAAATAATAATATACAATAAATTT--AATAATAATAATGATAAATTACAAATAGA
32368574 TAAAACA
64 T-AAACA
32368581 TGATAAATCTAAAATAATAATATACAATA
1 TGATAAATCTAAAATAATAATATACAATA
32368610 CACTTAGATA
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
68 10 0.12
69 20 0.25
70 45 0.56
71 6 0.07
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (69 bp):
TGATAAATCTAAAATAATAATATACAATAAATTTAATAATAATAATGATAAATTACAAATAGATA
AACA
Found at i:32369466 original size:23 final size:22
Alignment explanation
Indices: 32369439--32369483 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
32369429 AATTTAAATC
32369439 TCTAAGATTACAAAATCTTATCT
1 TCTAAGATTAC-AAATCTTATCT
* *
32369462 TCTAAGATTGCATATCTTATCT
1 TCTAAGATTACAAATCTTATCT
32369484 AAGATTGCAT
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:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (22 bp):
TCTAAGATTACAAATCTTATCT
Found at i:32369486 original size:19 final size:19
Alignment explanation
Indices: 32369462--32369517 Score: 103
Period size: 19 Copynumber: 2.9 Consensus size: 19
32369452 AATCTTATCT
*
32369462 TCTAAGATTGCATATCTTA
1 TCTAAGATTGCATATCCTA
32369481 TCTAAGATTGCATATCCTA
1 TCTAAGATTGCATATCCTA
32369500 TCTAAGATTGCATATCCT
1 TCTAAGATTGCATATCCT
32369518 TTTTCAAGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCCTA
Found at i:32369923 original size:51 final size:50
Alignment explanation
Indices: 32369833--32369959 Score: 130
Period size: 51 Copynumber: 2.5 Consensus size: 50
32369823 CAATGAGATG
* * *
32369833 AGATTCGTTGCCTTCAACTTTAATCTGCTCTGCTACAACGCCAGGGAAATA
1 AGATTCGCTGCCTTCAGCTTTAATCTGCTCT-CTACAACGCCAAGGAAATA
* * *
32369884 AGATTCGCTGCCTTCAGCTTTAATCTG-TTTCATTGCAACGCCAAGGAGATA
1 AGATTCGCTGCCTTCAGCTTTAATCTGCTCTC--TACAACGCCAAGGAAATA
* * **
32369935 GGATTTGCTGTATTCAGCTTTAATC
1 AGATTCGCTGCCTTCAGCTTTAATC
32369960 CACTCCACTT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 1 0.02
50 2 0.03
51 61 0.95
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (50 bp):
AGATTCGCTGCCTTCAGCTTTAATCTGCTCTCTACAACGCCAAGGAAATA
Found at i:32369973 original size:21 final size:21
Alignment explanation
Indices: 32369947--32369989 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
32369937 ATTTGCTGTA
*
32369947 TTCAGCTTTAATCCACTCCAC
1 TTCAGCTTTAACCCACTCCAC
*
32369968 TTCAGCTTTAACCCATTCCAC
1 TTCAGCTTTAACCCACTCCAC
32369989 T
1 T
32369990 GCAACACTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.37, G:0.05, T:0.35
Consensus pattern (21 bp):
TTCAGCTTTAACCCACTCCAC
Found at i:32370076 original size:123 final size:123
Alignment explanation
Indices: 32369875--32370097 Score: 275
Period size: 123 Copynumber: 1.8 Consensus size: 123
32369865 CTACAACGCC
* * * * * *
32369875 AGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTTCATTGCAACGCCAAGGAGATAGGATT
1 AGGGAAACAAGATTCGCTACCTTCAGCTTTAATCTGTTCCACTACAACGCCAAAGAGATAGGATT
* * ** *
32369940 TGCTGTATTCAGCTTTAATCCACTCCACTTCAGCTTTAACCCATTCCACTGCAACACT
66 CGCTGCACACAGCTTTAATCCACTCCACCTCAGCTTTAACCCATTCCACTGCAACACT
* * * * *
32369998 AGGGAAACAAGATTCGCTACCTTTATCTTTAATTTGTTCCACTATAATGCCAAAGAGATAGGATT
1 AGGGAAACAAGATTCGCTACCTTCAGCTTTAATCTGTTCCACTACAACGCCAAAGAGATAGGATT
* **
32370063 CGCTGCCCACAGCTTTAATCTGCTCCACCTCAGCT
66 CGCTGCACACAGCTTTAATCCACTCCACCTCAGCT
32370098 ATTCCAAGTC
Statistics
Matches: 81, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
123 81 1.00
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.30
Consensus pattern (123 bp):
AGGGAAACAAGATTCGCTACCTTCAGCTTTAATCTGTTCCACTACAACGCCAAAGAGATAGGATT
CGCTGCACACAGCTTTAATCCACTCCACCTCAGCTTTAACCCATTCCACTGCAACACT
Found at i:32370374 original size:46 final size:46
Alignment explanation
Indices: 32370302--32370471 Score: 268
Period size: 46 Copynumber: 3.7 Consensus size: 46
32370292 CCACTGCAAT
* * *
32370302 GCCAAGGAAATGAGATTCACAACCCTCAGCTTTAATCTACTACGAC
1 GCCATGGAAATGAGATTCGCTACCCTCAGCTTTAATCTACTACGAC
* *
32370348 GTCATGGAAATGAGATTCGCTGCCCTCAGCTTTAATCTACTACGAC
1 GCCATGGAAATGAGATTCGCTACCCTCAGCTTTAATCTACTACGAC
* *
32370394 GCCATGGAAATGAGACTCGCTGCCCTCAGCTTTAATCTACTACGAC
1 GCCATGGAAATGAGATTCGCTACCCTCAGCTTTAATCTACTACGAC
*
32370440 GCCATGGAAATGAGATTCGCTACCCACAGCTT
1 GCCATGGAAATGAGATTCGCTACCCTCAGCTT
32370472 CAATTTATTC
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 114 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (46 bp):
GCCATGGAAATGAGATTCGCTACCCTCAGCTTTAATCTACTACGAC
Found at i:32371314 original size:12 final size:12
Alignment explanation
Indices: 32371297--32371321 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32371287 TGACAACAAA
32371297 ATCTGAAGGGAT
1 ATCTGAAGGGAT
32371309 ATCTGAAGGGAT
1 ATCTGAAGGGAT
32371321 A
1 A
32371322 GTCTCAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.32, T:0.24
Consensus pattern (12 bp):
ATCTGAAGGGAT
Found at i:32372852 original size:16 final size:17
Alignment explanation
Indices: 32372827--32372864 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
32372817 TGGCCTCTCA
*
32372827 TTTTCCTTTTCTTTT-T
1 TTTTCATTTTCTTTTCT
32372843 TTTTCATTTTCTTTTCT
1 TTTTCATTTTCTTTTCT
32372860 TTTTC
1 TTTTC
32372865 CATCATTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCATTTTCTTTTCT
Found at i:32372876 original size:6 final size:6
Alignment explanation
Indices: 32372824--32372888 Score: 52
Period size: 6 Copynumber: 11.7 Consensus size: 6
32372814 CCTTGGCCTC
* * *
32372824 TCATTT TCCTTT TC-TTT T-TTTT TCATTT TC-TTT TCTTTT TCCA---
1 TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT T-CATTT
32372867 TCATTT TCATTT TCATTT TCAT
1 TCATTT TCATTT TCATTT TCAT
32372889 ATTTTTGATT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
3 2 0.04
4 1 0.02
5 13 0.27
6 32 0.65
7 1 0.02
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.69
Consensus pattern (6 bp):
TCATTT
Found at i:32372879 original size:22 final size:20
Alignment explanation
Indices: 32372824--32372893 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
32372814 CCTTGGCCTC
**
32372824 TCATTTTCCTTTTCTTTTTTTT
1 TCATTTT-CTTTTC-TTTTTCA
32372846 TCATTTTCTTTTCTTTTTCCA
1 TCATTTTCTTTTCTTTTT-CA
*
32372867 TCATTTTCATTTTCATTTTCA
1 TCATTTTC-TTTTCTTTTTCA
32372888 T-ATTTT
1 TCATTTT
32372894 TGATTTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
20 10 0.23
21 17 0.40
22 16 0.37
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.70
Consensus pattern (20 bp):
TCATTTTCTTTTCTTTTTCA
Found at i:32375047 original size:19 final size:19
Alignment explanation
Indices: 32375002--32375049 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
32374992 TTAATGGATT
* *
32375002 TTAATGCATATGAAGTAAT
1 TTAATGCAAATGAAGTAAA
*
32375021 TTAGTGCAAATGAA-TGAAA
1 TTAATGCAAATGAAGT-AAA
32375040 TTAATGCAAA
1 TTAATGCAAA
32375050 AAAAAACGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (19 bp):
TTAATGCAAATGAAGTAAA
Found at i:32375506 original size:16 final size:16
Alignment explanation
Indices: 32375481--32375515 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
32375471 TTCTATGATG
*
32375481 AAATGCCATGCAGTCA
1 AAATGCCATGCAGCCA
*
32375497 AAATGTCATGCAGCCA
1 AAATGCCATGCAGCCA
32375513 AAA
1 AAA
32375516 CAAAACATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.17
Consensus pattern (16 bp):
AAATGCCATGCAGCCA
Found at i:32377015 original size:23 final size:23
Alignment explanation
Indices: 32376989--32377042 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
32376979 GTTCAAAATT
*
32376989 TTAAAATAAACAATATATATGAG
1 TTAAAATAAACAATATATATGAA
* * *
32377012 TTAAAACAAATAATTTATATGAA
1 TTAAAATAAACAATATATATGAA
32377035 TGTAAAAT
1 T-TAAAAT
32377043 TTAATACAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (23 bp):
TTAAAATAAACAATATATATGAA
Found at i:32377122 original size:24 final size:24
Alignment explanation
Indices: 32377082--32377333 Score: 154
Period size: 24 Copynumber: 10.8 Consensus size: 24
32377072 TGAATTGCAT
* *
32377082 AATTTACAATAACTAATATATAATA
1 AATTTAAAATAA-TAATATATGATA
* *
32377107 AATTTGAAATAATAATACAT-ATAA
1 AATTTAAAATAATAATATATGAT-A
32377131 AATTTAAAA-AAT--T-TGATGAT-
1 AATTTAAAATAATAATAT-ATGATA
*
32377151 AATTCTAAAATAATCATACT-TGATA
1 AATT-TAAAATAATAATA-TATGATA
** * *
32377176 AATCCAAAATAATAGTATATAATA
1 AATTTAAAATAATAATATATGATA
* *
32377200 AATTT-AAA-AATATTA-ATTATA
1 AATTTAAAATAATAATATATGATA
* *
32377221 AATTTGAAATAGAT-ATACATGATA
1 AATTTAAAATA-ATAATATATGATA
** **
32377245 AATTTAAAATAATGTTA-AAAATA
1 AATTTAAAATAATAATATATGATA
32377268 AATTTAAAATAATAATAT-TGATA
1 AATTTAAAATAATAATATATGATA
* * *
32377291 AATTACAAAAT-ATAAAACATGATA
1 AATT-TAAAATAATAATATATGATA
*
32377315 AATCTAAAATAATAATATA
1 AATTTAAAATAATAATATA
32377334 CAATACACTT
Statistics
Matches: 176, Mismatches: 31, Indels: 41
0.71 0.12 0.17
Matches are distributed among these distances:
20 4 0.02
21 18 0.10
22 14 0.08
23 50 0.28
24 76 0.43
25 13 0.07
26 1 0.01
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (24 bp):
AATTTAAAATAATAATATATGATA
Found at i:32377177 original size:69 final size:69
Alignment explanation
Indices: 32377104--32377331 Score: 189
Period size: 69 Copynumber: 3.3 Consensus size: 69
32377094 CTAATATATA
* *
32377104 ATAAATTTGAAATAATAATACAT-ATAAAATTTAAAAA-ATTTGATGAT-AATTCTAAAATA-AT
1 ATAAATTTAAAATAATAATACATAAT-AAATTTAAAAATA-TTAATGATAAATT-TAAAATAGAT
*
32377165 CATACTTG
63 -ATACATG
** * * * *
32377173 ATAAATCCAAAATAATAGTATATAATAAATTTAAAAATATTAATTATAAATTTGAAATAGATATA
1 ATAAATTTAAAATAATAATACATAATAAATTTAAAAATATTAATGATAAATTTAAAATAGATATA
32377238 CATG
66 CATG
** * * * * *
32377242 ATAAATTTAAAATAATGTTA-AAAATAAATTTAAAATAATAATATTGATAAATTACAAAATATA-
1 ATAAATTTAAAATAATAATACATAATAAATTT-AAA-AATATTAATGATAAATT-TAAAATAGAT
*
32377305 AAACATG
63 ATACATG
*
32377312 ATAAATCTAAAATAATAATA
1 ATAAATTTAAAATAATAATA
32377332 TACAATACAC
Statistics
Matches: 128, Mismatches: 24, Indels: 13
0.78 0.15 0.08
Matches are distributed among these distances:
68 10 0.08
69 66 0.52
70 46 0.36
71 6 0.05
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (69 bp):
ATAAATTTAAAATAATAATACATAATAAATTTAAAAATATTAATGATAAATTTAAAATAGATATA
CATG
Found at i:32377278 original size:47 final size:44
Alignment explanation
Indices: 32377181--32377331 Score: 126
Period size: 47 Copynumber: 3.3 Consensus size: 44
32377171 TGATAAATCC
* * **
32377181 AAAATAATAGTATATAATAAATTTAAAAATATTAATTATAAATTT
1 AAAATAATAATA-ATGATAAATTTAAAAATATTAAAAATAAATTT
* *
32377226 GAAATAGAT-ATACATGATAAATTTAAAATAATGTTAAAAATAAATTT
1 AAAATA-ATAATA-ATGATAAATTT-AAA-AATATTAAAAATAAATTT
* * *
32377273 AAAATAATAATATTGATAAA-TTACAAAATATAAAACATGATAAATCT
1 AAAATAATAATAATGATAAATTTA-AAAATATTAAA-A--ATAAATTT
32377320 AAAATAATAATA
1 AAAATAATAATA
32377332 TACAATACAC
Statistics
Matches: 86, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
44 8 0.09
45 22 0.26
46 14 0.16
47 42 0.49
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.34
Consensus pattern (44 bp):
AAAATAATAATAATGATAAATTTAAAAATATTAAAAATAAATTT
Found at i:32378236 original size:19 final size:19
Alignment explanation
Indices: 32378192--32378244 Score: 90
Period size: 18 Copynumber: 2.8 Consensus size: 19
32378182 AATCTTATCT
*
32378192 TCTAAGATTGCATATCTTA
1 TCTAAGATTGCATATCCTA
32378211 T-TAAGATTGCATATCCTA
1 TCTAAGATTGCATATCCTA
32378229 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
32378245 ATTTTTCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 17 0.53
19 15 0.47
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCCTA
Found at i:32388654 original size:272 final size:272
Alignment explanation
Indices: 32388168--32388720 Score: 1063
Period size: 272 Copynumber: 2.0 Consensus size: 272
32388158 ATAGTAGGGG
*
32388168 TTAAATTATAAAATCTCAAGATTTTGAGGAGAGAGAGAGAGACTATTTTGCAAATTGTGCAAATT
1 TTAAATTATAAAATCTCAAGATTTTGAAGAGAGAGAGAGAGACTATTTTGCAAATTGTGCAAATT
32388233 GAGATTTAAGATTGAACTGAAAATAAAAATATAGAAAATATGATTCCTAGGGATTGAATTGTAAA
66 GAGATTTAAGATTGAACTGAAAATAAAAATATAGAAAATATGATTCCTAGGGATTGAATTGTAAA
*
32388298 ATGTGTAAATTTTGGACTTCAACGACTAAATCATAAAAACTGCAAAACTAGAATTTTCGGGAATA
131 ATGTGTAAATTTTGGACTTCAACGACTAAATCATAAAAACTGCAAAACTAGAATTTTAGGGAATA
32388363 TTTTTTAAATTCTGTAATATTGAAAAATAGGGGTTGTTTAATGAATTTGCAAAAATATAAGAGTG
196 TTTTTTAAATTCTGTAATATTGAAAAATAGGGGTTGTTTAATGAATTTGCAAAAATATAAGAGTG
32388428 AAAATGAGCAAA
261 AAAATGAGCAAA
32388440 TTAAATTATAAAATCTCAAGATTTTGAAGAGAGAGAGAGAGACTATTTTGCAAATTGTGCAAATT
1 TTAAATTATAAAATCTCAAGATTTTGAAGAGAGAGAGAGAGACTATTTTGCAAATTGTGCAAATT
*
32388505 GAGATTTAAGATTGAATTGAAAATAAAAATATAGAAAATATGATTCCTAGGGATTGAATTGTAAA
66 GAGATTTAAGATTGAACTGAAAATAAAAATATAGAAAATATGATTCCTAGGGATTGAATTGTAAA
32388570 ATGTGTAAATTTTGGACTTCAACGACTAAATCATAAAAACTGCAAAACTAGAATTTTAGGGAATA
131 ATGTGTAAATTTTGGACTTCAACGACTAAATCATAAAAACTGCAAAACTAGAATTTTAGGGAATA
*
32388635 TTTTTTAAATTCTGTAATATTGAAAAATAGGGGTTGTTTAATGAATTTGCAAAAATATAGGAGTG
196 TTTTTTAAATTCTGTAATATTGAAAAATAGGGGTTGTTTAATGAATTTGCAAAAATATAAGAGTG
32388700 AAAATGAGCAAA
261 AAAATGAGCAAA
32388712 TT-AATTATA
1 TTAAATTATA
32388721 TAAGTGTTTA
Statistics
Matches: 277, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
271 7 0.03
272 270 0.97
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (272 bp):
TTAAATTATAAAATCTCAAGATTTTGAAGAGAGAGAGAGAGACTATTTTGCAAATTGTGCAAATT
GAGATTTAAGATTGAACTGAAAATAAAAATATAGAAAATATGATTCCTAGGGATTGAATTGTAAA
ATGTGTAAATTTTGGACTTCAACGACTAAATCATAAAAACTGCAAAACTAGAATTTTAGGGAATA
TTTTTTAAATTCTGTAATATTGAAAAATAGGGGTTGTTTAATGAATTTGCAAAAATATAAGAGTG
AAAATGAGCAAA
Found at i:32389975 original size:16 final size:16
Alignment explanation
Indices: 32389954--32389987 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
32389944 ATTGGTATTT
32389954 GATTCTGTTTTGATTG
1 GATTCTGTTTTGATTG
32389970 GATTCTGTTTTGATTG
1 GATTCTGTTTTGATTG
32389986 GA
1 GA
32389988 ATTTGATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.15, C:0.06, G:0.26, T:0.53
Consensus pattern (16 bp):
GATTCTGTTTTGATTG
Found at i:32390540 original size:20 final size:19
Alignment explanation
Indices: 32390499--32390541 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
32390489 GCTTTTATGC
*
32390499 GCCAGTATGCGCTTCGTTT
1 GCCAGTATGCGCTTCGTAT
* *
32390518 GCCAGGTATGCGTTTTGTAT
1 GCCA-GTATGCGCTTCGTAT
32390538 GCCA
1 GCCA
32390542 AGATGCACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.14, C:0.23, G:0.28, T:0.35
Consensus pattern (19 bp):
GCCAGTATGCGCTTCGTAT
Found at i:32391400 original size:16 final size:16
Alignment explanation
Indices: 32391379--32391412 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
32391369 ATTGGTATTT
*
32391379 GATTCTGTTTTGATTG
1 GATTCTATTTTGATTG
32391395 GATTCTATTTTGATTG
1 GATTCTATTTTGATTG
32391411 GA
1 GA
32391413 ATTTGATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.24, T:0.53
Consensus pattern (16 bp):
GATTCTATTTTGATTG
Found at i:32402263 original size:41 final size:41
Alignment explanation
Indices: 32402214--32402404 Score: 303
Period size: 41 Copynumber: 4.6 Consensus size: 41
32402204 GACTTTACGT
*
32402214 CTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
*
32402255 CTAACAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
32402296 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
* *
32402337 CTAGCAGGCTAAGTGCCGGTGAACTGAATTAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
* *
32402378 TTAGCAGG-TGAAGTGCCAGTGAATCTG
1 CTAGCAGGCT-AAGTGCCGGTG-ATCTG
32402405 TTTAAATTAA
Statistics
Matches: 140, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
40 1 0.01
41 135 0.96
42 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
Found at i:32410663 original size:28 final size:28
Alignment explanation
Indices: 32410632--32410688 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
32410622 TCGATGAACA
* *
32410632 TTCCACATAAGATAGT-TTGTGGCAGACT
1 TTCCACATAAGACAATCTT-TGGCAGACT
32410660 TTCCACATAAGACAATCTTTGGCAGACT
1 TTCCACATAAGACAATCTTTGGCAGACT
32410688 T
1 T
32410689 CCTTTTTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 24 0.92
29 2 0.08
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (28 bp):
TTCCACATAAGACAATCTTTGGCAGACT
Found at i:32411211 original size:38 final size:36
Alignment explanation
Indices: 32411135--32411229 Score: 104
Period size: 38 Copynumber: 2.6 Consensus size: 36
32411125 TCTTTCGAGG
* * *
32411135 TGTCACTCC-TAGAGCCTATAG-ACTATTTTTATGC
1 TGTCGCTCCGTAGAGCCTATAGAACCATTTTCATGC
* *
32411169 TGTCGCTTCGTAGAGCCTATAGATAACCATTTTCATGG
1 TGTCGCTCCGTAGAGCCTATAG--AACCATTTTCATGC
*
32411207 TGTCGCTCCGTAGAACCTATAGA
1 TGTCGCTCCGTAGAGCCTATAGA
32411230 CAATCTTCTT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
34 7 0.14
35 12 0.24
36 1 0.02
38 30 0.60
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (36 bp):
TGTCGCTCCGTAGAGCCTATAGAACCATTTTCATGC
Found at i:32413381 original size:35 final size:35
Alignment explanation
Indices: 32413322--32413447 Score: 123
Period size: 35 Copynumber: 3.6 Consensus size: 35
32413312 GTGCATCGAA
* *
32413322 AATCCAACC-AAACACACTAGATGCTCCAAAGAG-T
1 AATCCAACCGAAACACACCA-ATGCTCGAAAGAGCT
*
32413356 CAATCCATCCGAAACACACCAATGCTCGGAAA-AGCT
1 -AATCCAACCGAAACACACCAATGCTC-GAAAGAGCT
** * * *
32413392 AATCCCTCCGGAACACACCAATGCTTGTAAGAGCT
1 AATCCAACCGAAACACACCAATGCTCGAAAGAGCT
*
32413427 AATCCAACCGAAACATACCAA
1 AATCCAACCGAAACACACCAA
32413448 AATAGAGACT
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
34 3 0.04
35 60 0.79
36 13 0.17
ACGTcount: A:0.40, C:0.32, G:0.13, T:0.15
Consensus pattern (35 bp):
AATCCAACCGAAACACACCAATGCTCGAAAGAGCT
Found at i:32414061 original size:31 final size:31
Alignment explanation
Indices: 32414023--32414084 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
32414013 AAAAAGTCCT
32414023 TAATGAATGTTAAATTCACTATCAAACCCTA
1 TAATGAATGTTAAATTCACTATCAAACCCTA
32414054 TAATGAATGTTAAATTCACTATCAAACCCTA
1 TAATGAATGTTAAATTCACTATCAAACCCTA
32414085 ATATTTTGAC
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:0.42, C:0.19, G:0.06, T:0.32
Consensus pattern (31 bp):
TAATGAATGTTAAATTCACTATCAAACCCTA
Found at i:32415446 original size:18 final size:18
Alignment explanation
Indices: 32415420--32415454 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32415410 TATCGCTACC
*
32415420 TATCAATACCGAAAATGT
1 TATCAATACCAAAAATGT
*
32415438 TATCGATACCAAAAATG
1 TATCAATACCAAAAATG
32415455 CATTTTGGCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (18 bp):
TATCAATACCAAAAATGT
Found at i:32417020 original size:19 final size:19
Alignment explanation
Indices: 32416996--32417035 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32416986 CATATATTAT
* *
32416996 TTTATTTTTTAATATATTC
1 TTTATTTATCAATATATTC
*
32417015 TTTATTTATCAATATTTTC
1 TTTATTTATCAATATATTC
32417034 TT
1 TT
32417036 GTAAATTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTATTTATCAATATATTC
Found at i:32417322 original size:18 final size:17
Alignment explanation
Indices: 32417301--32417344 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
32417291 AATAATTAGT
32417301 TAATAATAGTAAAAATAA
1 TAATAATA-TAAAAATAA
*
32417319 TAATAAT-TAAATATAA
1 TAATAATATAAAAATAA
32417335 T-ATAATATAA
1 TAATAATATAA
32417345 TAGTATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 5 0.21
16 12 0.50
18 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
TAATAATATAAAAATAA
Found at i:32418632 original size:34 final size:34
Alignment explanation
Indices: 32418589--32418666 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
32418579 GTTATTTATA
* *
32418589 TATAATATATATTTACGTTCATGGGTGTTATATC
1 TATAATATATATTTACGTGCATGGATGTTATATC
** *
32418623 TATAATATATATTTGGGTGCATGGATGTTATATG
1 TATAATATATATTTACGTGCATGGATGTTATATC
32418657 TATAATATAT
1 TATAATATAT
32418667 TTGACTGGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.46
Consensus pattern (34 bp):
TATAATATATATTTACGTGCATGGATGTTATATC
Found at i:32425727 original size:50 final size:51
Alignment explanation
Indices: 32425651--32425823 Score: 215
Period size: 50 Copynumber: 3.3 Consensus size: 51
32425641 GGTGCCCATG
** *
32425651 CATGGTCTTACGGGGGACCTCC-CATCTCGGTGCCAACGCCATGTCCCAGA
1 CATGGTCTTACATGGGACCTCCTCATCTCGGTGCCAATGCCATGTCCCAGA
32425701 CATGGTCTTACATGGGACC-CCTCATCTCGGTGCCAATGCCATGTCCCAGA
1 CATGGTCTTACATGGGACCTCCTCATCTCGGTGCCAATGCCATGTCCCAGA
* * * * *
32425751 CATGGTCTTAAATTGGACCTCTCATAATCTCAATGATGCCAATGTCATGTCCCAGA
1 CATGGTCTTACATGGGACCTC-C-TCATCTC---GGTGCCAATGCCATGTCCCAGA
32425807 CATGGTCTTACATGGGA
1 CATGGTCTTACATGGGA
32425824 TCTCATCCTC
Statistics
Matches: 106, Mismatches: 10, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
49 2 0.02
50 61 0.58
51 1 0.01
52 1 0.01
53 6 0.06
56 35 0.33
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (51 bp):
CATGGTCTTACATGGGACCTCCTCATCTCGGTGCCAATGCCATGTCCCAGA
Found at i:32427587 original size:34 final size:34
Alignment explanation
Indices: 32427526--32427608 Score: 105
Period size: 34 Copynumber: 2.5 Consensus size: 34
32427516 TTGGTGTTAT
* *
32427526 TAATATA-ATAATATATATATGCATGCATGGGTG
1 TAATATATATAATATAAATATACATGCATGGGTG
* *
32427559 TAATATATATAATATAAATTTACGTGCATGGGTG
1 TAATATATATAATATAAATATACATGCATGGGTG
* *
32427593 TTATATGTATAATATA
1 TAATATATATAATATA
32427609 TTTGAGTGGG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 7 0.16
34 36 0.84
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.40
Consensus pattern (34 bp):
TAATATATATAATATAAATATACATGCATGGGTG
Found at i:32429082 original size:43 final size:43
Alignment explanation
Indices: 32429021--32429106 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
32429011 TCGAGTTTGG
32429021 GACGTCATAATTTCACTTATATTATTTCCAACACATATAATTT
1 GACGTCATAATTTCACTTATATTATTTCCAACACATATAATTT
*
32429064 GACGTCATAATTTCACTTATATTATTTCCACCACATATAATTT
1 GACGTCATAATTTCACTTATATTATTTCCAACACATATAATTT
32429107 TTAAGTCTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.42
Consensus pattern (43 bp):
GACGTCATAATTTCACTTATATTATTTCCAACACATATAATTT
Found at i:32429168 original size:41 final size:41
Alignment explanation
Indices: 32429122--32429203 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
32429112 TCTTTCAATT
32429122 TAGTCCTTGTTTCTATAAAAATTTATATTTTTCATAGTTTC
1 TAGTCCTTGTTTCTATAAAAATTTATATTTTTCATAGTTTC
32429163 TAGTCCTTGTTTCTATAAAAATTTATATTTTTCATAGTTTC
1 TAGTCCTTGTTTCTATAAAAATTTATATTTTTCATAGTTTC
32429204 ACTTATTCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.27, C:0.12, G:0.07, T:0.54
Consensus pattern (41 bp):
TAGTCCTTGTTTCTATAAAAATTTATATTTTTCATAGTTTC
Found at i:32430357 original size:18 final size:18
Alignment explanation
Indices: 32430334--32430387 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
32430324 AAAATGGAAG
32430334 AATGTATATGTATTATAA
1 AATGTATATGTATTATAA
*
32430352 AATGTAAATGTA-TAT-A
1 AATGTATATGTATTATAA
* *
32430368 TATATATATGTATATATAA
1 AATGTATATGTAT-TATAA
32430387 A
1 A
32430388 CTATATATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
16 10 0.36
17 3 0.11
18 14 0.50
19 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (18 bp):
AATGTATATGTATTATAA
Found at i:32431355 original size:40 final size:40
Alignment explanation
Indices: 32431311--32431390 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
32431301 CCAGAGAGAA
32431311 AGAAAACCTTTGTCTTTCAAAAAGAAAAATCTATTTGCCT
1 AGAAAACCTTTGTCTTTCAAAAAGAAAAATCTATTTGCCT
32431351 AGAAAACCTTTGTCTTTCAAAAAGAAAAATCTATTTGCCT
1 AGAAAACCTTTGTCTTTCAAAAAGAAAAATCTATTTGCCT
32431391 TTGAATTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (40 bp):
AGAAAACCTTTGTCTTTCAAAAAGAAAAATCTATTTGCCT
Found at i:32431579 original size:14 final size:14
Alignment explanation
Indices: 32431560--32431586 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32431550 GTGGAAGCGC
32431560 GCGACGAGTGCGGA
1 GCGACGAGTGCGGA
32431574 GCGACGAGTGCGG
1 GCGACGAGTGCGG
32431587 CGTGTGGGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.22, G:0.52, T:0.07
Consensus pattern (14 bp):
GCGACGAGTGCGGA
Found at i:32439026 original size:14 final size:15
Alignment explanation
Indices: 32438992--32439030 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
32438982 AAAAAATTTA
*
32438992 AAATTTATAATAATTT
1 AAATTTA-AATAATCT
32439008 AAATTTAAA-AATCT
1 AAATTTAAATAATCT
32439022 AAATTTAAA
1 AAATTTAAA
32439031 CTCAAGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
15 2 0.09
16 7 0.32
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATTTAAATAATCT
Found at i:32442857 original size:3 final size:3
Alignment explanation
Indices: 32442849--32442878 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
32442839 GGAGAAGACG
32442849 AGA AGA AGA AGA AG- AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
32442879 AGAAAGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:32442886 original size:14 final size:13
Alignment explanation
Indices: 32442829--32442882 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 13
32442819 GAGAAAAAAA
*
32442829 AAGAGAGAAAGGAG
1 AAGA-AGAAAGAAG
*
32442843 AAGACGAGAAGAAG
1 AAGAAGA-AAGAAG
32442857 AAGAAGAGAAGAAG
1 AAGAAGA-AAGAAG
32442871 AAGAAGAAAGAA
1 AAGAAGAAAGAA
32442883 AGAAAAAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
13 7 0.19
14 29 0.81
ACGTcount: A:0.63, C:0.02, G:0.35, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAG
Found at i:32442886 original size:17 final size:17
Alignment explanation
Indices: 32442849--32442882 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
32442839 GGAGAAGACG
32442849 AGAAGAAGAAGAAGAGA
1 AGAAGAAGAAGAAGAGA
32442866 AGAAGAAGAAGAA-AGA
1 AGAAGAAGAAGAAGAGA
32442882 A
1 A
32442883 AGAAAAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (17 bp):
AGAAGAAGAAGAAGAGA
Found at i:32442971 original size:12 final size:12
Alignment explanation
Indices: 32442954--32442979 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32442944 TTTGTGAATT
32442954 TTTTAGAAGATA
1 TTTTAGAAGATA
32442966 TTTTAGAAGATA
1 TTTTAGAAGATA
32442978 TT
1 TT
32442980 GTGAATTTTT
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:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTTAGAAGATA
Found at i:32443141 original size:101 final size:101
Alignment explanation
Indices: 32443027--32443291 Score: 321
Period size: 101 Copynumber: 2.7 Consensus size: 101
32443017 CTATTTAGTG
*
32443027 TTTATAG-TTTGGATTAGAATTTTGTATGAATATTCTATTTTTTTGTATGAATATTGTAATTTTT
1 TTTATAGTTTTGGATTAGAATTTTGTATGAATATTCTATTTTTTTGTATGAATATTGTAATTTTG
32443091 TATGAATATTGTAATTATTTTATAATTAAAT-TTGT-A
66 TATGAATATTGTAATTATTTTAT-A-TAAATATTGTAA
* * * * *
32443127 TTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAATTTTTTGTATGAATATCGTAATTCTG
1 TTTATAGTTTTGGATTAGAATTTTGTATGAATATTCTATTTTTTTGTATGAATATTGTAATTTTG
* * *
32443192 TATGAATATTGTAATTTTTTTGTATGAATATTGTAA
66 TATGAATATTGTAATTATTTTATATAAATATTGTAA
* * * *
32443228 TATTATAATTTT--A-T--AATTTTATATGAATATTGCAATATTTTTGTATGAATATTGTAATTT
1 T-TTATAGTTTTGGATTAGAATTTTGTATGAATATT-CTATTTTTTTGTATGAATATTGTAATTT
32443288 TGTA
64 TGTA
32443292 ATTTTGTATG
Statistics
Matches: 142, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
97 15 0.11
98 26 0.18
99 5 0.04
100 13 0.09
101 74 0.52
102 9 0.06
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.55
Consensus pattern (101 bp):
TTTATAGTTTTGGATTAGAATTTTGTATGAATATTCTATTTTTTTGTATGAATATTGTAATTTTG
TATGAATATTGTAATTATTTTATATAAATATTGTAA
Found at i:32443194 original size:40 final size:41
Alignment explanation
Indices: 32443150--32443228 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
32443140 ATTAGTATTT
32443150 TGTATGAATATTGTAA-TTTTTTGTATGAATATCGTAATTC
1 TGTATGAATATTGTAATTTTTTTGTATGAATATCGTAATTC
*
32443190 TGTATGAATATTGTAATTTTTTTGTATGAATATTGTAAT
1 TGTATGAATATTGTAATTTTTTTGTATGAATATCGTAAT
32443229 ATTATAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 16 0.43
41 21 0.57
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (41 bp):
TGTATGAATATTGTAATTTTTTTGTATGAATATCGTAATTC
Found at i:32443237 original size:49 final size:53
Alignment explanation
Indices: 32443184--32443313 Score: 151
Period size: 57 Copynumber: 2.5 Consensus size: 53
32443174 ATGAATATCG
* *
32443184 TAATTCTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAATTTTA
1 TAATTTTGTATGAATATTGTAATATTTTTGTATGAATATTG--ATA-TATAA-TTTA
* * *
32443241 TAATTTTATATGAATATTGCAATATTTTTGTATGAATATTG-TA-AT--TTTG
1 TAATTTTGTATGAATATTGTAATATTTTTGTATGAATATTGATATATAATTTA
32443290 TAATTTTGTATGAATATTGTAATA
1 TAATTTTGTATGAATATTGTAATA
32443314 CTGTTGAGGA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
49 25 0.38
52 2 0.03
54 2 0.03
57 37 0.56
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.53
Consensus pattern (53 bp):
TAATTTTGTATGAATATTGTAATATTTTTGTATGAATATTGATATATAATTTA
Found at i:32443256 original size:27 final size:27
Alignment explanation
Indices: 32443184--32443312 Score: 103
Period size: 27 Copynumber: 4.9 Consensus size: 27
32443174 ATGAATATCG
*
32443184 TAATTCTGTATGAATATTGTAATTTT-
1 TAATTTTGTATGAATATTGTAATTTTA
*
32443210 T--TTGTATGAATATTGTAATATTATAATTTTA
1 TAATT-T-TG--TA-TG-AATATTGTAATTTTA
* *
32443241 TAATTTTATATGAATATTGCAA---TA
1 TAATTTTGTATGAATATTGTAATTTTA
*
32443265 T--TTTTGTATGAATATTGTAATTTTG
1 TAATTTTGTATGAATATTGTAATTTTA
32443290 TAATTTTGTATGAATATTGTAAT
1 TAATTTTGTATGAATATTGTAAT
32443313 ACTGTTGAGG
Statistics
Matches: 81, Mismatches: 8, Indels: 27
0.70 0.07 0.23
Matches are distributed among these distances:
22 17 0.21
24 5 0.06
25 2 0.02
26 3 0.04
27 28 0.35
28 4 0.05
29 4 0.05
30 13 0.16
31 2 0.02
32 1 0.01
33 2 0.02
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (27 bp):
TAATTTTGTATGAATATTGTAATTTTA
Found at i:32443312 original size:19 final size:19
Alignment explanation
Indices: 32443044--32443291 Score: 159
Period size: 19 Copynumber: 12.5 Consensus size: 19
32443034 TTTGGATTAG
*
32443044 AATTTTGTATGAATATTCT
1 AATTTTGTATGAATATTGT
*
32443063 ATTTTTTTGTATGAATATTGT
1 A--ATTTTGTATGAATATTGT
*
32443084 AATTTTTTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
32443103 AATTATTTTAT-AATTAAATTTGT
1 AATT-TTGTATGAA-T--A-TTGT
* * *
32443126 -ATTTATAGTTTTGGAT-TAGT
1 AATTT-T-G-TATGAATATTGT
32443146 -ATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
32443164 AATTTTTTGTATGAATATCGT
1 AA--TTTTGTATGAATATTGT
*
32443185 AATTCTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
32443204 AATTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGT
* * *
32443226 AA-TAT-TAT-AATTTTAT
1 AATTTTGTATGAATATTGT
*
32443242 AATTTTATATGAATATTGCAAT
1 AATTTTGTATGAATATTG---T
*
32443264 ATTTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
32443283 AATTTTGTA
1 AATTTTGTA
32443292 ATTTTGTATG
Statistics
Matches: 181, Mismatches: 24, Indels: 48
0.72 0.09 0.19
Matches are distributed among these distances:
16 8 0.04
17 10 0.06
18 9 0.05
19 56 0.31
20 14 0.08
21 36 0.20
22 40 0.22
23 4 0.02
24 3 0.02
25 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:32446586 original size:27 final size:27
Alignment explanation
Indices: 32446538--32446617 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
32446528 ATCAGACCAT
*
32446538 TGGCGCCTCTCA-ATATGACACCAATAA
1 TGGCGCCTCTCAGATA-GGCACCAATAA
* ** *
32446565 TGGCGCCTCCCAGATAGGCACCACCAT
1 TGGCGCCTCTCAGATAGGCACCAATAA
* *
32446592 TGGCGCCTCTGAGATAGGCGCCAATA
1 TGGCGCCTCTCAGATAGGCACCAATA
32446618 CTATGTATTA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
27 39 0.93
28 3 0.07
ACGTcount: A:0.26, C:0.33, G:0.23, T:0.19
Consensus pattern (27 bp):
TGGCGCCTCTCAGATAGGCACCAATAA
Found at i:32447931 original size:21 final size:22
Alignment explanation
Indices: 32447898--32447945 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
32447888 ATTTTTAAAC
32447898 TAATAATTCTAAATTAAATTA-
1 TAATAATTCTAAATTAAATTAG
* * *
32447919 TAATTATTTTAAATTAATTTAG
1 TAATAATTCTAAATTAAATTAG
32447941 TAATA
1 TAATA
32447946 TGATGAAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TAATAATTCTAAATTAAATTAG
Found at i:32457871 original size:13 final size:13
Alignment explanation
Indices: 32457853--32457926 Score: 69
Period size: 13 Copynumber: 5.7 Consensus size: 13
32457843 CTCAAATTTT
32457853 TCAAAAGCACTTC
1 TCAAAAGCACTTC
* *
32457866 TCAAAAGTAATTC
1 TCAAAAGCACTTC
* *
32457879 TCAAAAGCAGTTT
1 TCAAAAGCACTTC
*
32457892 TCCACAA-CACTTC
1 T-CAAAAGCACTTC
* *
32457905 TCAAAAGTACTTT
1 TCAAAAGCACTTC
32457918 TCAAAAGCA
1 TCAAAAGCA
32457927 ATGAAGAACT
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
12 4 0.09
13 39 0.83
14 4 0.09
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:32459805 original size:28 final size:28
Alignment explanation
Indices: 32459742--32459839 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
32459732 ATATTAAGTC
*
32459742 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
32459769 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
32459797 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
32459826 CGCACACTTAGTGC
1 CGCACACTTAGTGC
32459840 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:32468058 original size:27 final size:28
Alignment explanation
Indices: 32468028--32468097 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
32468018 ATATTAAGTC
* *
32468028 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAAAT
32468055 CGCACACTTAGTGCTATATAATCAAAAT
1 CGCACACTTAGTGCTATATAATCAAAAT
32468083 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
32468098 GAACAATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAAAT
Found at i:32472315 original size:63 final size:63
Alignment explanation
Indices: 32472233--32472411 Score: 216
Period size: 63 Copynumber: 2.8 Consensus size: 63
32472223 TAGCACACAT
** * ** *
32472233 CCGTGTCTCTAGCTTGTGTGACTTTAATTCCAAAACAATGAGTTATATGGCTTGGACACACGC
1 CCGTGTCTCTAGCCCGTGTGACTTTAATTCCAAAACAATGAGTTACACAGCCTGGACACACGC
* * *
32472296 CCGTGTCTTTGGCCCGTGTGA-TTCTAATTCCAAAACAGTGAGTTACACAGCCTGGACACACGC
1 CCGTGTCTCTAGCCCGTGTGACTT-TAATTCCAAAACAATGAGTTACACAGCCTGGACACACGC
* * * * *
32472359 TCGTGTCTCTAGCTCGTGTGACTCTAATTCCAAAATAATGAGTTACACGGCCT
1 CCGTGTCTCTAGCCCGTGTGACTTTAATTCCAAAACAATGAGTTACACAGCCT
32472412 TGCGCACGGT
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
62 2 0.02
63 94 0.97
64 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (63 bp):
CCGTGTCTCTAGCCCGTGTGACTTTAATTCCAAAACAATGAGTTACACAGCCTGGACACACGC
Found at i:32472939 original size:21 final size:21
Alignment explanation
Indices: 32472915--32472954 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32472905 AGAGTTATCA
32472915 AAAAGAAAAAGAAAAAGAACC
1 AAAAGAAAAAGAAAAAGAACC
* *
32472936 AAAAGAAGAAGAAGAAGAA
1 AAAAGAAAAAGAAAAAGAA
32472955 GAAGAAGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.75, C:0.05, G:0.20, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAGAAAAAGAACC
Found at i:32472946 original size:3 final size:3
Alignment explanation
Indices: 32472938--32472963 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32472928 AAAGAACCAA
32472938 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
32472964 CAGACGCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:32475078 original size:30 final size:30
Alignment explanation
Indices: 32475021--32475078 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
32475011 ACACGTGTAT
* ***
32475021 AGAAAACTTGCCCAGTTGGATGCGCTTTGC
1 AGAAAACTCGCCCAGTTGGACAAGCTTTGC
*
32475051 AGAAAGCTCGCCCAGTTGGACAAGCTTT
1 AGAAAACTCGCCCAGTTGGACAAGCTTT
32475079 CCCTAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (30 bp):
AGAAAACTCGCCCAGTTGGACAAGCTTTGC
Found at i:32475134 original size:29 final size:30
Alignment explanation
Indices: 32475102--32475161 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
32475092 CTTATTTCCT
*
32475102 TAAAT-AATTTTAAAACCGGCCTAAAAGCC
1 TAAATAAATTTCAAAACCGGCCTAAAAGCC
** *
32475131 TAAATAAATTTCAAAATGGGCCTATAAGCC
1 TAAATAAATTTCAAAACCGGCCTAAAAGCC
32475161 T
1 T
32475162 TATTTAGCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (30 bp):
TAAATAAATTTCAAAACCGGCCTAAAAGCC
Found at i:32476401 original size:9 final size:9
Alignment explanation
Indices: 32476367--32476407 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
32476357 ATAATAATAC
32476367 TTAAGTTAA
1 TTAAGTTAA
32476376 TTAA-TTAAA
1 TTAAGTT-AA
*
32476385 TCAAGTTAA
1 TTAAGTTAA
32476394 TTAAGTTAA
1 TTAAGTTAA
32476403 TTAAG
1 TTAAG
32476408 GTATATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 2 0.07
9 24 0.86
10 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.41
Consensus pattern (9 bp):
TTAAGTTAA
Found at i:32477242 original size:28 final size:28
Alignment explanation
Indices: 32477207--32477264 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
32477197 AAAAAAAAAG
32477207 TATGATATAAATGATAAATAATTTGTGA
1 TATGATATAAATGATAAATAATTTGTGA
*
32477235 TATGATATAAATGATAGATAATTTGTGA
1 TATGATATAAATGATAAATAATTTGTGA
32477263 TA
1 TA
32477265 CAAAATGACG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.40
Consensus pattern (28 bp):
TATGATATAAATGATAAATAATTTGTGA
Found at i:32482348 original size:18 final size:18
Alignment explanation
Indices: 32482307--32482348 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
32482297 AATGAAGAAG
32482307 AGGAAAAGGAAAAAAAGA
1 AGGAAAAGGAAAAAAAGA
* * *
32482325 AAGAAAATGAAAAAAGGA
1 AGGAAAAGGAAAAAAAGA
32482343 AGGAAA
1 AGGAAA
32482349 GAATAACGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.02
Consensus pattern (18 bp):
AGGAAAAGGAAAAAAAGA
Found at i:32490182 original size:29 final size:29
Alignment explanation
Indices: 32490140--32490197 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
32490130 CACAAAGTTA
32490140 TTCCACTACAGTATCGTGGCTTAGATCTC
1 TTCCACTACAGTATCGTGGCTTAGATCTC
* *
32490169 TTCCACTATAGTATCGTGGTTTAGATCTC
1 TTCCACTACAGTATCGTGGCTTAGATCTC
32490198 CTTAATAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (29 bp):
TTCCACTACAGTATCGTGGCTTAGATCTC
Found at i:32499711 original size:15 final size:15
Alignment explanation
Indices: 32499691--32499730 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
32499681 TTTTAAGCAT
32499691 TGCATTATGTATATG
1 TGCATTATGTATATG
32499706 TGCATTATGTATATG
1 TGCATTATGTATATG
32499721 TGCATTATGT
1 TGCATTATGT
32499731 TGATCTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.47
Consensus pattern (15 bp):
TGCATTATGTATATG
Found at i:32506068 original size:13 final size:13
Alignment explanation
Indices: 32506050--32506074 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32506040 CCGAAACTAG
32506050 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
32506063 AAAGAAAAAAAA
1 AAAGAAAAAAAA
32506075 ATGCTCATCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:32507274 original size:70 final size:77
Alignment explanation
Indices: 32507198--32507399 Score: 278
Period size: 79 Copynumber: 2.7 Consensus size: 77
32507188 GGACTAAGAT
32507198 CCGAAGGCATTTGTGCGAGATACTAATT-C-GGCTAAG-CCGAAGGCATTTGTGCGA-TACT-AA
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTACTAAA
32507258 TCCGGG-TAAG-
66 TCCGGGTTAAGC
32507268 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAG-TACTAA
32507333 ATCCGGGTTAAGTC
65 ATCCGGGTTAAG-C
* *
32507347 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCATTTG
32507400 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 2, Indels: 14
0.88 0.01 0.10
Matches are distributed among these distances:
70 28 0.24
71 1 0.01
72 7 0.06
73 18 0.15
75 4 0.03
76 8 0.07
77 4 0.03
78 3 0.03
79 31 0.26
80 14 0.12
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (77 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTACTAAA
TCCGGGTTAAGC
Found at i:32507361 original size:40 final size:39
Alignment explanation
Indices: 32507184--32507399 Score: 254
Period size: 40 Copynumber: 5.7 Consensus size: 39
32507174 AAGTGACAAT
* *
32507184 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACT-A
1 ATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAA
*
32507223 ATTC-GGCTAAG-CCGAAGGCATTTGTGC--GATACT-A
1 ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
32507257 ATCCGGG-TAAG-CCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
* *
32507294 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
*
32507333 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA
1 ATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-A
*
32507374 A-CCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGGCTAAG-CCCGAAGGCATTTG
32507400 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 10, Indels: 17
0.85 0.05 0.09
Matches are distributed among these distances:
34 30 0.19
35 2 0.01
36 22 0.14
37 7 0.04
38 10 0.06
39 38 0.24
40 47 0.30
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
Found at i:32507413 original size:40 final size:39
Alignment explanation
Indices: 32507148--32507399 Score: 212
Period size: 40 Copynumber: 6.6 Consensus size: 39
32507138 TGAATGATGT
* * *
32507148 CCGGGCTAAGTCCCGAAGG---TTGTGCTAAGTGACAATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
32507186 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
32507225 TC-GGCTAAG--CCGAAGGCATTTGTGCGA-TACTA-AT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
*
32507259 CCGGG-TAAG--CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-A
32507296 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
32507334 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
32507375 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
32507400 AACGAGGAGC
Statistics
Matches: 187, Mismatches: 12, Indels: 28
0.82 0.05 0.12
Matches are distributed among these distances:
34 30 0.16
35 2 0.01
36 24 0.13
37 6 0.03
38 26 0.14
39 38 0.20
40 51 0.27
41 10 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:32507421 original size:79 final size:79
Alignment explanation
Indices: 32507198--32507432 Score: 235
Period size: 79 Copynumber: 3.1 Consensus size: 79
32507188 GGACTAAGAT
* **
32507198 CCGAAGGCATTTGTGCGAGATACTAAT-TC-GGCTAAG-CCGAAGGCATTTGTGCGA-T-ACT-A
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
32507257 ATCCGGG-T-AA-G
66 ATCCGGGTTAAATC
* ** *
32507268 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
32507333 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
32507347 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
32507409 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
32507426 CCGAAGG
1 CCGAAGG
32507433 TACGTGATTT
Statistics
Matches: 141, Mismatches: 11, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
70 27 0.19
71 1 0.01
72 7 0.05
73 18 0.13
74 1 0.01
75 3 0.02
76 8 0.06
77 1 0.01
78 4 0.03
79 46 0.33
80 25 0.18
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:32515168 original size:40 final size:40
Alignment explanation
Indices: 32515079--32515382 Score: 422
Period size: 40 Copynumber: 7.7 Consensus size: 40
32515069 TTGAATGCTG
* * *
32515079 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
** * *
32515118 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
32515158 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
32515197 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTAATAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
32515237 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
32515277 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
32515317 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
32515358 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
32515383 AATGAGGAGC
Statistics
Matches: 244, Mismatches: 14, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
39 53 0.22
40 181 0.74
41 10 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:32527097 original size:40 final size:40
Alignment explanation
Indices: 32527014--32527316 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
32527004 TTGAATGCTG
* * * * * *
32527014 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
32527054 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
32527094 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
32527134 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
32527174 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
32527214 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
32527254 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
32527293 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
32527317 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:32535060 original size:40 final size:40
Alignment explanation
Indices: 32534977--32535279 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
32534967 TTGAATGCTG
* * * * * *
32534977 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
32535017 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
32535057 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
32535097 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
32535137 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
32535177 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
32535217 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
32535256 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
32535280 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:32542040 original size:23 final size:23
Alignment explanation
Indices: 32541981--32542042 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 23
32541971 TTTAAAGAGG
*
32541981 TATAATGCTCTCCTTTTTAATTGATA
1 TATAATGCT-TCC--TTTAACTGATA
32542007 TA-ACA-GC-TCCTTTAACTGATA
1 TATA-ATGCTTCCTTTAACTGATA
32542028 TATAATGCTTCCTTT
1 TATAATGCTTCCTTT
32542043 GTATGTAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
21 13 0.42
22 3 0.10
23 9 0.29
25 3 0.10
26 3 0.10
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.45
Consensus pattern (23 bp):
TATAATGCTTCCTTTAACTGATA
Found at i:32542152 original size:14 final size:14
Alignment explanation
Indices: 32542135--32542174 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
32542125 CACCTGCAAT
32542135 CAAACACATTAAAA
1 CAAACACATTAAAA
32542149 CAAACACATTAAAA
1 CAAACACATTAAAA
32542163 CAAACACATTAA
1 CAAACACATTAA
32542175 TCACATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (14 bp):
CAAACACATTAAAA
Found at i:32545757 original size:20 final size:19
Alignment explanation
Indices: 32545732--32545771 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
32545722 CCCTCATGAT
32545732 CCACTTTTCATGCC-TTTTTC
1 CCACTTTT--TGCCATTTTTC
32545752 CCACTTTTTGCCATTTTTC
1 CCACTTTTTGCCATTTTTC
32545771 C
1 C
32545772 TTCCCTTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.10, C:0.35, G:0.05, T:0.50
Consensus pattern (19 bp):
CCACTTTTTGCCATTTTTC
Found at i:32546943 original size:18 final size:18
Alignment explanation
Indices: 32546916--32546958 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
32546906 TATGATTTGC
*
32546916 ATGTTAAGCATATTGACT
1 ATGTTGAGCATATTGACT
*
32546934 ATGTTGAGCATGTTGACT
1 ATGTTGAGCATATTGACT
*
32546952 GTGTTGA
1 ATGTTGA
32546959 CTATAAATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (18 bp):
ATGTTGAGCATATTGACT
Found at i:32547262 original size:63 final size:63
Alignment explanation
Indices: 32547095--32547292 Score: 175
Period size: 63 Copynumber: 3.1 Consensus size: 63
32547085 GCAATATTTA
* * * * * * * ** * *
32547095 GCTTGGCCACAACGTTATTCAGTTGCTTGTCCACAACATATAGCTTATCTAAAATATTGAGTG
1 GCTTAGCCACAACATTATTGAATAGCTTATCCACAACGTGCAGCTTGTCTATAATATTGAGTG
* * *
32547158 GCTTGGCCACAACATTATTGAATGGCTTATCCAGAACGTGCAGCTTGTCTATAATATTGAGTG
1 GCTTAGCCACAACATTATTGAATAGCTTATCCACAACGTGCAGCTTGTCTATAATATTGAGTG
* * * * * *
32547221 GCTTAGCCCCAACATTATTGAGTAGTTTGA-CCACAATGTGCAGCTTGTCTGCT-ATATTTAGTG
1 GCTTAGCCACAACATTATTGAATAGCTT-ATCCACAACGTGCAGCTTGTCT-ATAATATTGAGTG
*
32547284 GCTTGGCCA
1 GCTTAGCCA
32547293 TAATGTGGTG
Statistics
Matches: 111, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
63 109 0.98
64 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (63 bp):
GCTTAGCCACAACATTATTGAATAGCTTATCCACAACGTGCAGCTTGTCTATAATATTGAGTG
Found at i:32549413 original size:60 final size:59
Alignment explanation
Indices: 32549299--32549482 Score: 208
Period size: 60 Copynumber: 3.1 Consensus size: 59
32549289 GTAATGGGAA
* * * * *
32549299 TGAT-CCTGGTCTCAATGATAATATGAATGGCCAAGATGTTAATCCCCCTGTTCGTAGGG
1 TGATACCTGGTCTAAATGATAAT-TGAATGGTCAAGATGTTGATCCTCCTATTCGTAGGG
* * * * *
32549358 TGATACCTGGTGTGAATGATAACTTGAATGGTCAAGACGCTGATCCTCCTATTCGTAGCG
1 TGATACCTGGTCTAAATGATAA-TTGAATGGTCAAGATGTTGATCCTCCTATTCGTAGGG
* * * *
32549418 TGATACCTAGTCTAAAGGATAATTTGAATGGTCAGGATGTTGATCCTCCTATTCATAGGG
1 TGATACCTGGTCTAAATGATAA-TTGAATGGTCAAGATGTTGATCCTCCTATTCGTAGGG
32549478 TGATA
1 TGATA
32549483 GATGGCTGAG
Statistics
Matches: 104, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
59 4 0.04
60 99 0.95
61 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (59 bp):
TGATACCTGGTCTAAATGATAATTGAATGGTCAAGATGTTGATCCTCCTATTCGTAGGG
Found at i:32558446 original size:30 final size:30
Alignment explanation
Indices: 32558391--32558465 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
32558381 ATGATTTAAT
* * *
32558391 GCTCAGA-GAAAATTTTTGTTGATAAATTA
1 GCTCAGATGAAAGTATTTGTTCATAAATTA
32558420 GCTCAGATGAAAGTATTTGTTCATAAATTA
1 GCTCAGATGAAAGTATTTGTTCATAAATTA
*
32558450 GCTCATATGAAAGTAT
1 GCTCAGATGAAAGTAT
32558466 AATTTCTGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 7 0.17
30 34 0.83
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.36
Consensus pattern (30 bp):
GCTCAGATGAAAGTATTTGTTCATAAATTA
Found at i:32566154 original size:18 final size:18
Alignment explanation
Indices: 32566125--32566257 Score: 77
Period size: 18 Copynumber: 7.6 Consensus size: 18
32566115 GTGCGAGCGA
32566125 GAAAATGAAAAAGAAATT
1 GAAAATGAAAAAGAAATT
32566143 GCAAAA-GAAAAAGAAATT
1 G-AAAATGAAAAAGAAATT
*
32566161 GAAAAACTGAGAGAA-AAA--
1 G-AAAA-TGA-AAAAGAAATT
*
32566179 GAAAATG---AAGAAA-A
1 GAAAATGAAAAAGAAATT
32566193 GAAAATTGAAAAAGAAATT
1 GAAAA-TGAAAAAGAAATT
* *
32566212 GAGATTGAGAAAA-AAATT
1 GAAAATGA-AAAAGAAATT
* **
32566230 GAAAAAGAAAAAGATGTT
1 GAAAATGAAAAAGAAATT
*
32566248 GAAAAAGAAA
1 GAAAATGAAA
32566258 CGAAAGGAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
12 2 0.02
13 3 0.03
14 5 0.05
15 2 0.02
16 2 0.02
17 8 0.09
18 51 0.55
19 11 0.12
20 5 0.05
21 3 0.03
ACGTcount: A:0.65, C:0.02, G:0.20, T:0.14
Consensus pattern (18 bp):
GAAAATGAAAAAGAAATT
Found at i:32566164 original size:12 final size:12
Alignment explanation
Indices: 32566149--32566213 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
32566139 AATTGCAAAA
32566149 GAAAAAGAAATT
1 GAAAAAGAAATT
*
32566161 GAAAAACTGAGA--
1 GAAAAA--GAAATT
*
32566173 GAAAAAGAAAAT
1 GAAAAAGAAATT
32566185 GAAGAAAAGAAAATT
1 G-A-AAAAG-AAATT
32566200 GAAAAAGAAATT
1 GAAAAAGAAATT
32566212 GA
1 GA
32566214 GATTGAGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
10 3 0.07
12 20 0.47
13 6 0.14
14 9 0.21
15 5 0.12
ACGTcount: A:0.66, C:0.02, G:0.20, T:0.12
Consensus pattern (12 bp):
GAAAAAGAAATT
Found at i:32568191 original size:16 final size:16
Alignment explanation
Indices: 32568170--32568200 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
32568160 TGTGTCTTGC
32568170 TGCTGTTGTTTAATGT
1 TGCTGTTGTTTAATGT
32568186 TGCTGTTGTTTAATG
1 TGCTGTTGTTTAATG
32568201 CAGAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.06, G:0.26, T:0.55
Consensus pattern (16 bp):
TGCTGTTGTTTAATGT
Found at i:32571867 original size:23 final size:23
Alignment explanation
Indices: 32571807--32571868 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 23
32571797 TTTAAAGAGG
*
32571807 TATAATGCTCTCCTTTTTAATTGATA
1 TATAATGCTC-CC--TTTAAATGATA
32571833 TA-ACA-GCT-CCTTTAAATGATA
1 TATA-ATGCTCCCTTTAAATGATA
32571854 TATAATGCTCCCTTT
1 TATAATGCTCCCTTT
32571869 GTATGTAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
21 13 0.42
22 4 0.13
23 7 0.23
25 4 0.13
26 3 0.10
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (23 bp):
TATAATGCTCCCTTTAAATGATA
Found at i:32573995 original size:18 final size:18
Alignment explanation
Indices: 32573973--32574018 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
32573963 CTCTCACTCT
*
32573973 CTTTTTCTTTTTCACTTTG
1 CTTTTTCTTTTTCA-ATTG
*
32573992 -TTTTTCATTTTCAATTG
1 CTTTTTCTTTTTCAATTG
32574009 CTTTTTCTTT
1 CTTTTTCTTT
32574019 ATTTTCTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.09, C:0.17, G:0.04, T:0.70
Consensus pattern (18 bp):
CTTTTTCTTTTTCAATTG
Found at i:32574003 original size:57 final size:55
Alignment explanation
Indices: 32573906--32574014 Score: 143
Period size: 57 Copynumber: 1.9 Consensus size: 55
32573896 CTTTTTCTTT
*
32573906 TTCTCTCATTTCTTTTTTTTCTTACTTTTTATTTCATTTTCAATCT-CTTTTTGCA
1 TTCTCTCATCTCTTTTTTTTCTTACTTTTTATTTCATTTTCAAT-TGCTTTTTGCA
32573961 TTCTCTCACTCTCTTTTTCTTT-TTCACTTTGTT-TTTCATTTTCAATTGCTTTTT
1 TTCTCTCA-TCTCTTTTT-TTTCTT-ACTTT-TTATTTCATTTTCAATTGCTTTTT
32574015 CTTTATTTTC
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
55 8 0.17
56 11 0.23
57 27 0.56
58 2 0.04
ACGTcount: A:0.11, C:0.21, G:0.03, T:0.65
Consensus pattern (55 bp):
TTCTCTCATCTCTTTTTTTTCTTACTTTTTATTTCATTTTCAATTGCTTTTTGCA
Found at i:32574861 original size:23 final size:23
Alignment explanation
Indices: 32574802--32574861 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 23
32574792 TTTAAGGAGG
* *
32574802 TATAATGCTCTCCTTTTAATTGATA
1 TATAATGCTC-CC-TTCAAATGATA
32574827 TA-ACA-GCT-CCTTCAAATGATA
1 TATA-ATGCTCCCTTCAAATGATA
32574848 TATAATGCTCCCTT
1 TATAATGCTCCCTT
32574862 TGTATGTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
21 12 0.41
22 6 0.21
23 4 0.14
24 4 0.14
25 3 0.10
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (23 bp):
TATAATGCTCCCTTCAAATGATA
Done.