Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 186 of 193
Found at i:57998249 original size:179 final size:179
Alignment explanation
Indices: 57997943--57998304 Score: 661
Period size: 179 Copynumber: 2.0 Consensus size: 179
57997933 TGCTTTGATT
* * *
57997943 GGTAGTTGAATTTTGAATCTAAATTGCATGTCGAGTAGTAGTTGTTAAATGGTAAATTTTACTTA
1 GGTAGCTGAATTTTGAATCTAAATTGAATGTCAAGTAGTAGTTGTTAAATGGTAAATTTTACTTA
*
57998008 GGGGGTCACATTTTGATCCATTGTGTTTAAAAGCATGTTATATTATGTTTTAGACTTGATTTAGT
66 AGGGGTCACATTTTGATCCATTGTGTTTAAAAGCATGTTATATTATGTTTTAGACTTGATTTAGT
57998073 ATGTAAAATGTGTTAGATATGCCTTGGTACATGTTTGGTATCGGTTAGA
131 ATGTAAAATGTGTTAGATATGCCTTGGTACATGTTTGGTATCGGTTAGA
*
57998122 GGTAGCTGAATTTTGAATCTAAATTGAATGTTAAGTAGTAGTTGTTAAATGGTAAATTTTACTTA
1 GGTAGCTGAATTTTGAATCTAAATTGAATGTCAAGTAGTAGTTGTTAAATGGTAAATTTTACTTA
* *
57998187 AGGGGTCATATTTTGATCCATTGTGTTTAAAAGCATGTTATATTGTGTTTTAGACTTGATTTAGT
66 AGGGGTCACATTTTGATCCATTGTGTTTAAAAGCATGTTATATTATGTTTTAGACTTGATTTAGT
57998252 ATGTAAAATGTGTTAGATATGCCTTGGTACATGTTTGGTATCGGTTAGA
131 ATGTAAAATGTGTTAGATATGCCTTGGTACATGTTTGGTATCGGTTAGA
57998301 GGTA
1 GGTA
57998305 CTTAAGGGTA
Statistics
Matches: 176, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
179 176 1.00
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (179 bp):
GGTAGCTGAATTTTGAATCTAAATTGAATGTCAAGTAGTAGTTGTTAAATGGTAAATTTTACTTA
AGGGGTCACATTTTGATCCATTGTGTTTAAAAGCATGTTATATTATGTTTTAGACTTGATTTAGT
ATGTAAAATGTGTTAGATATGCCTTGGTACATGTTTGGTATCGGTTAGA
Found at i:57998787 original size:326 final size:326
Alignment explanation
Indices: 57998261--57998912 Score: 1268
Period size: 326 Copynumber: 2.0 Consensus size: 326
57998251 TATGTAAAAT
57998261 GTGTTAGATATGCCTTGGTACATGTTTGGTATCGGTTAGAGGTACTTAAGGGTATTGGTTAGTGG
1 GTGTTAGATATGCCTTGGTACATGTTTGGTATCGGTTAGAGGTACTTAAGGGTATTGGTTAGTGG
57998326 TTTAGAATGAATTTTTTGCAAAATTTCTTGGAATGAGGTATCAAAACCTAAATAAGAGGTATCGA
66 TTTAGAATGAATTTTTTGCAAAATTTCTTGGAATGAGGTATCAAAACCTAAATAAGAGGTATCGA
57998391 TACATTGCTATGATGTATTGGTACATAGGTGTCTATGTATCAAAACATGTGACTATAACTATCTA
131 TACATTGCTATGATGTATTGGTACATAGGTGTCTATGTATCAAAACATGTGACTATAACTATCTA
*
57998456 TTTGAAATTCTAGTATTTGTATTGATACTAGAGGCTAGGTATCGACACTTAACCTCTATTTTTGA
196 TTTGAAATTCTAGTATTGGTATTGATACTAGAGGCTAGGTATCGACACTTAACCTCTATTTTTGA
57998521 TATTTTGAGTCTCAAATGTTGTTTTTAGCTCGTTTTTGCTGTGCATTTGATCTACAGTTATATTA
261 TATTTTGAGTCTCAAATGTTGTTTTTAGCTCGTTTTTGCTGTGCATTTGATCTACAGTTATATTA
57998586 G
326 G
*
57998587 GTGTTAGATATGCCTTGGTACATGTTTGGTATTGGTTAGAGGTACTTAAGGGTATTGGTTAGTGG
1 GTGTTAGATATGCCTTGGTACATGTTTGGTATCGGTTAGAGGTACTTAAGGGTATTGGTTAGTGG
*
57998652 TTTAGAATGACTTTTTTGCAAAATTTCTTGGAATGAGGTATCAAAACCTAAATAAGAGGTATCGA
66 TTTAGAATGAATTTTTTGCAAAATTTCTTGGAATGAGGTATCAAAACCTAAATAAGAGGTATCGA
57998717 TACATTGCTATGATGTATTGGTACATAGGTGTCTATGTATCAAAACATGTGACTATAACTATCTA
131 TACATTGCTATGATGTATTGGTACATAGGTGTCTATGTATCAAAACATGTGACTATAACTATCTA
57998782 TTTGAAATTCTAGTATTGGTATTGATACTAGAGGCTAGGTATCGACACTTAACCTCTATTTTTGA
196 TTTGAAATTCTAGTATTGGTATTGATACTAGAGGCTAGGTATCGACACTTAACCTCTATTTTTGA
*
57998847 TATTTTGAGTCTCAAATGTTGTTTTTAGCTCGTTTTTGCTGTGCATTTGATCTACAGTTATGTTA
261 TATTTTGAGTCTCAAATGTTGTTTTTAGCTCGTTTTTGCTGTGCATTTGATCTACAGTTATATTA
57998912 G
326 G
57998913 ATTCGTAATA
Statistics
Matches: 322, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
326 322 1.00
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.40
Consensus pattern (326 bp):
GTGTTAGATATGCCTTGGTACATGTTTGGTATCGGTTAGAGGTACTTAAGGGTATTGGTTAGTGG
TTTAGAATGAATTTTTTGCAAAATTTCTTGGAATGAGGTATCAAAACCTAAATAAGAGGTATCGA
TACATTGCTATGATGTATTGGTACATAGGTGTCTATGTATCAAAACATGTGACTATAACTATCTA
TTTGAAATTCTAGTATTGGTATTGATACTAGAGGCTAGGTATCGACACTTAACCTCTATTTTTGA
TATTTTGAGTCTCAAATGTTGTTTTTAGCTCGTTTTTGCTGTGCATTTGATCTACAGTTATATTA
G
Found at i:58001390 original size:14 final size:14
Alignment explanation
Indices: 58001371--58001402 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
58001361 CTATATTTTT
*
58001371 TAGGGTTTAGGGTC
1 TAGGGTATAGGGTC
58001385 TAGGGTATAGGGTC
1 TAGGGTATAGGGTC
58001399 TAGG
1 TAGG
58001403 AAATATGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.44, T:0.31
Consensus pattern (14 bp):
TAGGGTATAGGGTC
Found at i:58009126 original size:21 final size:21
Alignment explanation
Indices: 58009082--58009131 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
58009072 TTAAAAAATT
*
58009082 ATTAAC-CGATTCCCGATCGA
1 ATTAACTCGATTCCCCATCGA
58009102 ATTAACTCGATTACCCCATCG-
1 ATTAACTCGATT-CCCCATCGA
58009123 ATTAA-TCGA
1 ATTAACTCGA
58009132 ATTCGGTCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 10 0.37
21 10 0.37
22 7 0.26
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (21 bp):
ATTAACTCGATTCCCCATCGA
Found at i:58009159 original size:18 final size:18
Alignment explanation
Indices: 58009120--58009161 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
58009110 GATTACCCCA
**
58009120 TCGATTAATCGAATTCGG
1 TCGATTAATCGAATTAAG
*
58009138 TCGATTAATCGAATTAAT
1 TCGATTAATCGAATTAAG
58009156 TCGATT
1 TCGATT
58009162 TTACCCGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (18 bp):
TCGATTAATCGAATTAAG
Found at i:58012656 original size:17 final size:17
Alignment explanation
Indices: 58012634--58012671 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
58012624 TAAAAGAATT
*
58012634 ATAAAAGTAGAACAA-AA
1 ATAAAA-TAGAAAAAGAA
58012651 ATAAAATAGAAAAAGAA
1 ATAAAATAGAAAAAGAA
58012668 ATAA
1 ATAA
58012672 TAAGCCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.74, C:0.03, G:0.11, T:0.13
Consensus pattern (17 bp):
ATAAAATAGAAAAAGAA
Found at i:58015005 original size:21 final size:22
Alignment explanation
Indices: 58014963--58015012 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 22
58014953 TCGACCGAAT
*
58014963 TCGA-TTAA-TCGATGGGGTAA
1 TCGAGTTAATTCGATCGGGTAA
58014983 TCGAGTTAATTCGATCGGG-AA
1 TCGAGTTAATTCGATCGGGTAA
58015004 TCG-GTTAAT
1 TCGAGTTAAT
58015013 AATTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 10 0.37
21 9 0.33
22 8 0.30
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.32
Consensus pattern (22 bp):
TCGAGTTAATTCGATCGGGTAA
Found at i:58029805 original size:18 final size:18
Alignment explanation
Indices: 58029782--58029820 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
58029772 AGTTATTTGG
* *
58029782 GGAAAAAGCAAGAAAAAA
1 GGAAAAAGAAAAAAAAAA
*
58029800 GGAAAATGAAAAAAAAAA
1 GGAAAAAGAAAAAAAAAA
58029818 GGA
1 GGA
58029821 CTCATACCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.03, G:0.23, T:0.03
Consensus pattern (18 bp):
GGAAAAAGAAAAAAAAAA
Found at i:58034327 original size:34 final size:34
Alignment explanation
Indices: 58034288--58034357 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
58034278 AAATATTCAT
* *
58034288 TTAATTTA-ATTATAATGATAAAATTATTTAAAAA
1 TTAATTTAGATTACAAAGAT-AAATTATTTAAAAA
* *
58034322 TTAATTTAGATTACAAAGATATATTTTTTAAAAA
1 TTAATTTAGATTACAAAGATAAATTATTTAAAAA
58034356 TT
1 TT
58034358 TCTTTCATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 22 0.71
35 9 0.29
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (34 bp):
TTAATTTAGATTACAAAGATAAATTATTTAAAAA
Found at i:58036112 original size:11 final size:11
Alignment explanation
Indices: 58036096--58036134 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
58036086 GATCATGATG
58036096 ATTTTAAAATA
1 ATTTTAAAATA
58036107 ATTTTAAAAAATA
1 ATTTT--AAAATA
*
58036120 ATTTTAAAATT
1 ATTTTAAAATA
58036131 ATTT
1 ATTT
58036135 GCTGACTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 14 0.56
13 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
ATTTTAAAATA
Found at i:58036119 original size:13 final size:13
Alignment explanation
Indices: 58036101--58036128 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58036091 TGATGATTTT
58036101 AAAATAATTTTAA
1 AAAATAATTTTAA
58036114 AAAATAATTTTAA
1 AAAATAATTTTAA
58036127 AA
1 AA
58036129 TTATTTGCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATAATTTTAA
Found at i:58038034 original size:61 final size:60
Alignment explanation
Indices: 58037937--58038087 Score: 176
Period size: 61 Copynumber: 2.5 Consensus size: 60
58037927 TAAAACGGGG
* * * * *
58037937 TTAAATTTTAATTTTTGAAAACTTTAAGGGTTAAATTTGAATTTTTGGAAAATTTTAAGGA
1 TTAAATTTAAATTTTTGAAAAATTTAGGGGTGAAATTTGAATTTTT-GAAAAATTTAAGGA
* * ** *
58037998 TTAAATTTGAATTTTTGAAAAATTTAGGGGTGAAATTTGAATTTTTTAAAAATTTGGGGG
1 TTAAATTTAAATTTTTGAAAAATTTAGGGGTGAAATTTGAATTTTTGAAAAATTTAAGGA
* *
58038058 TCAAATTTAAATTTTTGAAAATTTTGAGGG
1 TTAAATTTAAATTTTTGAAAAATTT-AGGG
58038088 TCAAAAAAAT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
60 31 0.40
61 46 0.60
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.44
Consensus pattern (60 bp):
TTAAATTTAAATTTTTGAAAAATTTAGGGGTGAAATTTGAATTTTTGAAAAATTTAAGGA
Found at i:58038092 original size:30 final size:30
Alignment explanation
Indices: 58037934--58038088 Score: 184
Period size: 30 Copynumber: 5.1 Consensus size: 30
58037924 CATTAAAACG
* *
58037934 GGGTTAAATTTTAATTTTTGAAAACTTTAA
1 GGGTTAAATTTGAATTTTTGAAAAATTTAA
*
58037964 GGGTTAAATTTGAATTTTTGGAAAATTTTAA
1 GGGTTAAATTTGAATTTTT-GAAAAATTTAA
* *
58037995 GGATTAAATTTGAATTTTTGAAAAATTTAG
1 GGGTTAAATTTGAATTTTTGAAAAATTTAA
* * **
58038025 GGGTGAAATTTGAATTTTTTAAAAATTTGG
1 GGGTTAAATTTGAATTTTTGAAAAATTTAA
* * * *
58038055 GGGTCAAATTTAAATTTTTGAAAATTTTGA
1 GGGTTAAATTTGAATTTTTGAAAAATTTAA
58038085 GGGT
1 GGGT
58038089 CAAAAAAATG
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
30 82 0.75
31 28 0.25
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.44
Consensus pattern (30 bp):
GGGTTAAATTTGAATTTTTGAAAAATTTAA
Found at i:58038407 original size:26 final size:26
Alignment explanation
Indices: 58038378--58038430 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
58038368 AATTTGATTA
*
58038378 TTTCCATTTAAAAA-ACAACCCATTTT
1 TTTCCA-TTAAAAACAAAACCCATTTT
*
58038404 TTTCTATTAAAAACAAAACCCATTTT
1 TTTCCATTAAAAACAAAACCCATTTT
58038430 T
1 T
58038431 ATTTTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.40
Consensus pattern (26 bp):
TTTCCATTAAAAACAAAACCCATTTT
Found at i:58039793 original size:40 final size:40
Alignment explanation
Indices: 58039738--58039950 Score: 170
Period size: 40 Copynumber: 5.3 Consensus size: 40
58039728 TATAACTTTA
58039738 AGGGTAAAAGATTGGATTATCTTTAATCTGCCCTCTGATT
1 AGGGTAAAAGATTGGATTATCTTTAATCTGCCCTCTGATT
* * *
58039778 AGGGTAAAAGATTGGA-TAGT-TTTCAATCTACCC-CATAATC
1 AGGGTAAAAGATTGGATTA-TCTTT-AATCTGCCCTC-TGATT
* * * ** *
58039818 GGGGTAAGAGATCGGATGGTCTTTAATCTACCCTCT-AGTT
1 AGGGTAAAAGATTGGATTATCTTTAATCTGCCCTCTGA-TT
* *
58039858 AGGGTAAAAGATTGGATT-GCTTTCAATCTGCCC-CATGATC
1 AGGGTAAAAGATTGGATTATCTTT-AATCTGCCCTC-TGATT
* * * *
58039898 GGGGTAAAAGATTGGATTGA-CTTCAATCTGCCCTATGGTT
1 AGGGTAAAAGATTGGATT-ATCTTTAATCTGCCCTCTGATT
*
58039938 AGGGTAAGAGATT
1 AGGGTAAAAGATT
58039951 TGAGGTTGCA
Statistics
Matches: 137, Mismatches: 23, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
39 12 0.09
40 117 0.85
41 8 0.06
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (40 bp):
AGGGTAAAAGATTGGATTATCTTTAATCTGCCCTCTGATT
Found at i:58039872 original size:80 final size:79
Alignment explanation
Indices: 58039739--58039950 Score: 280
Period size: 80 Copynumber: 2.6 Consensus size: 79
58039729 ATAACTTTAA
* *
58039739 GGGTAAAAGATTGGATTATCTTTAATCTGCCCTCTGATTAGGGTAAAAGATTGGATAGTTTTCAA
1 GGGTAAAAGATTGGATTGTCTTTAATCTGCCCTCTG-TTAGGGTAAAAGATTGGATAGCTTTCAA
58039804 TCTACCCCATAATCG
65 TCTACCCCATAATCG
* * * * *
58039819 GGGTAAGAGATCGGATGGTCTTTAATCTACCCTCTAGTTAGGGTAAAAGATTGGATTGCTTTCAA
1 GGGTAAAAGATTGGATTGTCTTTAATCTGCCCTCT-GTTAGGGTAAAAGATTGGATAGCTTTCAA
* *
58039884 TCTGCCCCATGATCG
65 TCTACCCCATAATCG
* * * *
58039899 GGGTAAAAGATTGGATTGACTTCAATCTGCCCTATGGTTAGGGTAAGAGATT
1 GGGTAAAAGATTGGATTGTCTTTAATCTGCCCTCT-GTTAGGGTAAAAGATT
58039951 TGAGGTTGCA
Statistics
Matches: 113, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
80 112 0.99
81 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (79 bp):
GGGTAAAAGATTGGATTGTCTTTAATCTGCCCTCTGTTAGGGTAAAAGATTGGATAGCTTTCAAT
CTACCCCATAATCG
Found at i:58065767 original size:59 final size:58
Alignment explanation
Indices: 58065680--58065934 Score: 303
Period size: 59 Copynumber: 4.3 Consensus size: 58
58065670 TGGATACCCA
* * *
58065680 GGGGCAAAATGGTAATTTTGGTGTAATCGAGGTTAAAAATGGAATTTTAAAAGATTCG
1 GGGGTAAAATGGAAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGATTCG
*** * *
58065738 GGGGTAAAATGGCAAATTTTGGTGAAATCGAGGTTAAAAACAAAATTTTAGAAGCTTCG
1 GGGGTAAAATGG-AAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGATTCG
* * * * ** *
58065797 GGGGTAAAATGGTAATTTTCGGTGAAATCGGGGATAAAAATGGAATTCTGTAAGTTTCG
1 GGGGTAAAATGGAAATTTT-GGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGATTCG
* * *
58065856 GGCGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGG
1 GGGGTAAAATGG-AAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGATTC-G
*
58065916 GGGGTAAAATGGTAATTTT
1 GGGGTAAAATGGAAATTTT
58065935 TGAAAATTTT
Statistics
Matches: 164, Mismatches: 29, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
58 17 0.10
59 130 0.79
60 17 0.10
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (58 bp):
GGGGTAAAATGGAAATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAAAAGATTCG
Found at i:58065828 original size:30 final size:30
Alignment explanation
Indices: 58065794--58065904 Score: 97
Period size: 30 Copynumber: 3.7 Consensus size: 30
58065784 TTTAGAAGCT
58065794 TCGGGGGT-AAAATGGTAATTTTCGGTGAAA
1 TCGGGGGTAAAAATGG-AATTTTCGGTGAAA
* * *
58065824 TCGGGGATAAAAATGGAA--TTCTGT-AAGTT
1 TCGGGGGTAAAAATGGAATTTTCGGTGAA--A
* *
58065853 TCGGGCGT-AAAATGGTAATTTTTGGTGAAA
1 TCGGGGGTAAAAATGG-AATTTTCGGTGAAA
*
58065883 TCGGGGTTAAAAATGGAATTTT
1 TCGGGGGTAAAAATGGAATTTT
58065905 AAAAGATTCG
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
27 2 0.03
28 12 0.19
29 8 0.13
30 21 0.33
31 18 0.29
32 2 0.03
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (30 bp):
TCGGGGGTAAAAATGGAATTTTCGGTGAAA
Found at i:58065863 original size:118 final size:118
Alignment explanation
Indices: 58065680--58065934 Score: 341
Period size: 118 Copynumber: 2.2 Consensus size: 118
58065670 TGGATACCCA
* * * * *
58065680 GGGGCAAAATGGTAATTTTGGTGTAATCGAGGTTAAAAATGGAATTTTAAAAGATTCGGGGGTAA
1 GGGGTAAAATGGTAATTTTGGTGAAATCGAGGATAAAAATGGAATTCTAAAAGATTCGGGCGTAA
* *
58065745 AATGGCAAATTTTGGTGAAATCGAGGTTAAAAACAAAATTTTAGAAGCTTC-G
66 AATGGCAAATTTTGGTGAAATCGAGGTTAAAAACAAAATTTTAAAAGATTCGG
* ** *
58065797 GGGGTAAAATGGTAATTTTCGGTGAAATCGGGGATAAAAATGGAATTCTGTAAGTTTCGGGCGTA
1 GGGGTAAAATGGTAATTTT-GGTGAAATCGAGGATAAAAATGGAATTCTAAAAGATTCGGGCGTA
* * * ***
58065862 AAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGG
65 AAATGGCAAATTTTGGTGAAATCGAGGTTAAAAACAAAATTTTAAAAGATTCGG
58065916 GGGGTAAAATGGTAATTTT
1 GGGGTAAAATGGTAATTTT
58065935 TGAAAATTTT
Statistics
Matches: 119, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
117 18 0.15
118 81 0.68
119 20 0.17
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (118 bp):
GGGGTAAAATGGTAATTTTGGTGAAATCGAGGATAAAAATGGAATTCTAAAAGATTCGGGCGTAA
AATGGCAAATTTTGGTGAAATCGAGGTTAAAAACAAAATTTTAAAAGATTCGG
Found at i:58065956 original size:30 final size:30
Alignment explanation
Indices: 58065916--58066113 Score: 303
Period size: 30 Copynumber: 6.6 Consensus size: 30
58065906 AAAGATTCGG
*
58065916 GGGGT-AAAATGGTAATTTTTGAAAA-TTTT
1 GGGGTCAAAAT-GTAATTTTGGAAAAGTTTT
*
58065945 GGGGTCGAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
* * *
58065975 GGGGTCAAAATATAACTTTGGAAAAATTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
58066005 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
58066035 GGGGTCAAAATGTAATTTTAGG-AAAGTTTT
1 GGGGTCAAAATGTAATTTT-GGAAAAGTTTT
*
58066065 AGGGTCAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
58066095 GGGGTCAAAATGTAATTTT
1 GGGGTCAAAATGTAATTTT
58066114 TGGACAATTT
Statistics
Matches: 154, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
29 20 0.13
30 132 0.86
31 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (30 bp):
GGGGTCAAAATGTAATTTTGGAAAAGTTTT
Found at i:58066383 original size:162 final size:162
Alignment explanation
Indices: 58066210--58066523 Score: 490
Period size: 162 Copynumber: 1.9 Consensus size: 162
58066200 ATTTGAAAAT
*
58066210 CTTGAAAAAATT-TTGGACCAATTTTGTAATT-AAATAAAAGTTGATTTAAGGATTAAATTAAAA
1 CTTGAAAAAATTATTGGACCAATTTCGTAATTAAAAT-AAAGTTGATTT-AGGATTAAATTAAAA
* * *
58066273 CAAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAAGATGACACGTGGCAACCTCTG
64 CAAATAAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAG-TGACACGTGGCAACCTATG
*
58066338 GTGCAGTCAAACAGTCAAAGGACTAGTTTATAAAC
128 GTACAGTCAAACAGTCAAAGGACTAGTTTATAAAC
* *
58066373 CTTG-AAAAATTATTGGGCCAATTTCGTAATTAAAATAAAGTTGATTTGGGATTAAATTAAAACA
1 CTTGAAAAAATTATTGGACCAATTTCGTAATTAAAATAAAGTTGATTTAGGATTAAATTAAAACA
* * *
58066437 AATAAAAAATAAGAAGGACTAAATACAGAAATAATCCAAAAAGTGACATGTGGCAGCCTATGGTA
66 AATAAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAGTGACACGTGGCAACCTATGGTA
58066502 CAGTCAAACAGTCAAAGGACTA
131 CAGTCAAACAGTCAAAGGACTA
58066524 AATTGAAAAG
Statistics
Matches: 139, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
161 40 0.29
162 63 0.45
163 32 0.23
164 4 0.03
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.25
Consensus pattern (162 bp):
CTTGAAAAAATTATTGGACCAATTTCGTAATTAAAATAAAGTTGATTTAGGATTAAATTAAAACA
AATAAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAGTGACACGTGGCAACCTATGGTA
CAGTCAAACAGTCAAAGGACTAGTTTATAAAC
Found at i:58066603 original size:162 final size:161
Alignment explanation
Indices: 58066257--58066606 Score: 402
Period size: 162 Copynumber: 2.2 Consensus size: 161
58066247 AAGTTGATTT
* *
58066257 AAGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAAGATGA
1 AAGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAGATGA
* * * * * ** *
58066322 CACGTGGCAACCTCTGGTGCAGTCAAACAGTCAAAGGACTAGTTTATAAACCTTGAAAAATTATT
66 CACGTGGCAACCTATGGTACAGTCAAACAGTCAAAGGACTAATTGAAAAAAATT-AAAAATTATA
* * * * **
58066387 GGGCCAATTTCGTAATTAAAATAAAGTTGATT
130 GGGCAAATTTCGCAAATAAAATAAAGATGAAA
** *
58066419 TGGGATTAAATTAAAACAAATAAAAAATAAGAAGGACTAAATACAGAAATAATCCAAAAAG-TGA
1 AAGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAGATGA
* *
58066483 CATGTGGCAGCCTATGGTACAGTCAAACAGTCAAAGGACTAAATTGAAAAGAAATT-AAAATTAT
66 CACGTGGCAACCTATGGTACAGTCAAACAGTCAAAGGACT-AATTGAAAA-AAATTAAAAATTAT
58066547 AGGGCAAATTT-GCAAATAATTAA-AAAGATGCAAA
129 AGGGCAAATTTCGCAAATAA--AATAAAGATG-AAA
* * *
58066581 AAGGACTAAATTGAAGCAAATAAAAA
1 AAGGATTAAATTAAAACAAATAAAAA
58066607 TACGGAAGGA
Statistics
Matches: 157, Mismatches: 26, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
160 6 0.04
161 62 0.39
162 86 0.55
163 3 0.02
ACGTcount: A:0.50, C:0.11, G:0.16, T:0.22
Consensus pattern (161 bp):
AAGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAAGATGA
CACGTGGCAACCTATGGTACAGTCAAACAGTCAAAGGACTAATTGAAAAAAATTAAAAATTATAG
GGCAAATTTCGCAAATAAAATAAAGATGAAA
Found at i:58067980 original size:20 final size:20
Alignment explanation
Indices: 58067948--58068007 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
58067938 CAGGGCATGG
58067948 TGGAGCTTGGTGGTCAGCAGA
1 TGGAGC-TGGTGGTCAGCAGA
58067969 TGGAGCTGGTGGTCAGCAGA
1 TGGAGCTGGTGGTCAGCAGA
*
58067989 TGGAGCTGGTGGCCAGCAG
1 TGGAGCTGGTGGTCAGCAG
58068008 CAGTAGGCAC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 32 0.84
21 6 0.16
ACGTcount: A:0.18, C:0.17, G:0.45, T:0.20
Consensus pattern (20 bp):
TGGAGCTGGTGGTCAGCAGA
Found at i:58068157 original size:12 final size:12
Alignment explanation
Indices: 58068111--58068191 Score: 56
Period size: 13 Copynumber: 6.5 Consensus size: 12
58068101 CATTTGGACT
*
58068111 TTTAAATGTTAAA
1 TTTAAAT-TTTAA
58068124 TTTAATATTTTAA
1 TTTAA-ATTTTAA
** *
58068137 TTTTTATTTTTA
1 TTTAAATTTTAA
58068149 TTTAAA-TTTAA
1 TTTAAATTTTAA
* *
58068160 ATTAAATTTAAA
1 TTTAAATTTTAA
*
58068172 TTTTTAATTTTAAA
1 -TTTAAATTTT-AA
58068186 TTTAAA
1 TTTAAA
58068192 ATAAATCTAA
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
11 9 0.18
12 14 0.27
13 24 0.47
14 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (12 bp):
TTTAAATTTTAA
Found at i:58068166 original size:11 final size:11
Alignment explanation
Indices: 58068150--58068228 Score: 63
Period size: 11 Copynumber: 6.9 Consensus size: 11
58068140 TTATTTTTAT
58068150 TTAAATTTAAA
1 TTAAATTTAAA
58068161 TTAAATTTAAA
1 TTAAATTTAAA
*
58068172 TTTTTAATTTTAAA
1 ---TTAAATTTAAA
*
58068186 TTTAAA-ATAAA
1 -TTAAATTTAAA
58068197 TCTAAATTTAAA
1 T-TAAATTTAAA
58068209 -TAAATTTAAA
1 TTAAATTTAAA
* *
58068219 ATCAATTTAA
1 TTAAATTTAA
58068229 CTCAAGAGTC
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
10 11 0.19
11 27 0.47
12 9 0.16
14 10 0.18
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:58068191 original size:6 final size:6
Alignment explanation
Indices: 58068111--58068218 Score: 80
Period size: 6 Copynumber: 18.0 Consensus size: 6
58068101 CATTTGGACT
* ** **
58068111 TTTAAA TGTTAAA TTTAATA TTTTAA TTTTTA TTTTTA TTTAAA TTTAAA
1 TTTAAA T-TTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
58068161 -TTAAA TTTAAA TTTTTAAT TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA
1 TTTAAA TTTAAA --TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
58068209 --TAAA TTTAAA
1 TTTAAA TTTAAA
58068219 ATCAATTTAA
Statistics
Matches: 85, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
4 4 0.05
5 9 0.11
6 56 0.66
7 11 0.13
8 5 0.06
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:58068197 original size:42 final size:43
Alignment explanation
Indices: 58068113--58068209 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 43
58068103 TTTGGACTTT
* * * ** *
58068113 TAAATGTTAAATTTAATATTTTAATTTTTATTTTTATTTAAATT
1 TAAAT-TTAAATTTAATATTTTAATTTTAAATTTAAAATAAATC
58068157 TAAA-TTAAATTTAA-ATTTTTAATTTTAAATTTAAAATAAATC
1 TAAATTTAAATTTAATA-TTTTAATTTTAAATTTAAAATAAATC
58068199 TAAATTTAAAT
1 TAAATTTAAAT
58068210 AAATTTAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.02
42 34 0.76
43 6 0.13
44 4 0.09
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (43 bp):
TAAATTTAAATTTAATATTTTAATTTTAAATTTAAAATAAATC
Found at i:58074288 original size:22 final size:24
Alignment explanation
Indices: 58074257--58074300 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
58074247 ATAATCATCT
*
58074257 TGATATTATT-TTA-ATATTTACA
1 TGATAGTATTATTATATATTTACA
58074279 TGATAGTATTATTATATATTTA
1 TGATAGTATTATTATATATTTA
58074301 GTATAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 3 0.16
24 7 0.37
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (24 bp):
TGATAGTATTATTATATATTTACA
Found at i:58074661 original size:27 final size:27
Alignment explanation
Indices: 58074615--58074688 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
58074605 AATTATTTTT
* *
58074615 TATAAATTTTATAATGTTTATAAGTTTA
1 TATAATTTTTAT-ATTTTTATAAGTTTA
*
58074643 T-TAATTTTTTATATTTTTATACGTTTA
1 TATAA-TTTTTATATTTTTATAAGTTTA
58074670 TATAATTTTTAGTATTTTT
1 TATAATTTTTA-TATTTTT
58074689 TAATATTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.62
Consensus pattern (27 bp):
TATAATTTTTATATTTTTATAAGTTTA
Found at i:58074806 original size:16 final size:15
Alignment explanation
Indices: 58074783--58074812 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
58074773 AGATATAGTA
58074783 AAATATTAAAAAGAT
1 AAATATTAAAAAGAT
58074798 AAATAATTAAAAAGA
1 AAAT-ATTAAAAAGA
58074813 GACATGTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
AAATATTAAAAAGAT
Found at i:58076801 original size:46 final size:46
Alignment explanation
Indices: 58076734--58076825 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
58076724 AAACTCTGGT
58076734 TTACTTACTTTATTGTGAAGCTCTTACTGCTAAGTTTCACTTGCAG
1 TTACTTACTTTATTGTGAAGCTCTTACTGCTAAGTTTCACTTGCAG
58076780 TTACTTACTTTATTGTGAAGCTCTTACTGCTAAGTTTCACTTGCAG
1 TTACTTACTTTATTGTGAAGCTCTTACTGCTAAGTTTCACTTGCAG
58076826 CTGGTGCTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (46 bp):
TTACTTACTTTATTGTGAAGCTCTTACTGCTAAGTTTCACTTGCAG
Found at i:58079063 original size:13 final size:13
Alignment explanation
Indices: 58079045--58079080 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
58079035 TAGTCCATGA
*
58079045 TCATGTGTCTAGC
1 TCATGTGGCTAGC
58079058 TCATGTGGCTAGC
1 TCATGTGGCTAGC
58079071 TCATGTGGCT
1 TCATGTGGCT
58079081 CCTAAAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.14, C:0.22, G:0.28, T:0.36
Consensus pattern (13 bp):
TCATGTGGCTAGC
Found at i:58092562 original size:23 final size:22
Alignment explanation
Indices: 58092532--58092693 Score: 166
Period size: 23 Copynumber: 7.0 Consensus size: 22
58092522 ACACTAGCGC
* *
58092532 GCTCTCTGTTTAGCACGTCTCGT
1 GCTCTCTGATTAGCAC-TCTTGT
*
58092555 GCTCTCTGATTAGCACTATGTGT
1 GCTCTCTGATTAGCACTCT-TGT
*
58092578 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTCT-TGT
*
58092601 GCTCTCTGATTAGTACT-TTGT
1 GCTCTCTGATTAGCACTCTTGT
*
58092622 GTACTCTCTGTTATTAGCACTGTGTGT
1 G--CTCTCTG--ATTAGCACTCT-TGT
*
58092649 GCTCTCTGATTAGCACTTCGTGT
1 GCTCTCTGATTAGCAC-TCTTGT
58092672 GCTCTCTGATTAGCACT-TTGT
1 GCTCTCTGATTAGCACTCTTGT
58092693 G
1 G
58092694 TGCTCAGTAC
Statistics
Matches: 122, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
21 8 0.07
22 4 0.03
23 89 0.73
24 1 0.01
25 15 0.12
26 1 0.01
27 4 0.03
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.42
Consensus pattern (22 bp):
GCTCTCTGATTAGCACTCTTGT
Found at i:58092655 original size:71 final size:69
Alignment explanation
Indices: 58092556--58092694 Score: 233
Period size: 71 Copynumber: 2.0 Consensus size: 69
58092546 ACGTCTCGTG
* *
58092556 CTCTCTGATTAGCACTATGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGTACTTTG
1 CTCTCTGATTAGCACTATGTGTGCTCTCTGATTAGCACTTCGTGTGCTCTCTGATTAGCACTTTG
58092621 TGTA
66 TGTA
*
58092625 CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTCGTGTGCTCTCTGATTAGCACTT
1 CTCTCTG--ATTAGCACTATGTGTGCTCTCTGATTAGCACTTCGTGTGCTCTCTGATTAGCACTT
58092690 TGTGT
64 TGTGT
58092695 GCTCAGTACT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
69 7 0.11
71 58 0.89
ACGTcount: A:0.14, C:0.22, G:0.21, T:0.43
Consensus pattern (69 bp):
CTCTCTGATTAGCACTATGTGTGCTCTCTGATTAGCACTTCGTGTGCTCTCTGATTAGCACTTTG
TGTA
Found at i:58092688 original size:46 final size:45
Alignment explanation
Indices: 58092532--58092698 Score: 219
Period size: 46 Copynumber: 3.6 Consensus size: 45
58092522 ACACTAGCGC
* *
58092532 GCTCTCTGTTTAGCAC-GTCTCGTGCTCTCTGATTAGCACTATGTGT
1 GCTCTCTGATTAGCACTGTGT-GTGCTCTCTGATTAGCACT-TGTGT
* *
58092578 GCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCAC-TTGTGT
*
58092624 ACTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCTGATTAGCACTT-GTGT
*
58092672 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTGTGTGTGCTC
58092699 AGTACTTTGT
Statistics
Matches: 107, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
46 62 0.58
47 5 0.05
48 40 0.37
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (45 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACTTGTGT
Found at i:58092694 original size:23 final size:23
Alignment explanation
Indices: 58092553--58092741 Score: 239
Period size: 23 Copynumber: 8.4 Consensus size: 23
58092543 AGCACGTCTC
*
58092553 GTGCTCTCTGATTAGCACTATGT
1 GTGCTCTCTGATTAGCACTTTGT
58092576 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
*
58092599 GTGCTCTCTGATTAGTACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
* *
58092622 GTACTCTCTGTTATTAGCACTGTGT
1 GTGCTCTCTG--ATTAGCACTTTGT
*
58092647 GTGCTCTCTGATTAGCACTTCGT
1 GTGCTCTCTGATTAGCACTTTGT
58092670 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
*
58092693 GTG--CTC-----AGTACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
* *
58092709 GTACTCTCTGTTTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
58092732 GTGCTCTCTG
1 GTGCTCTCTG
58092742 TTGCCCAGCA
Statistics
Matches: 144, Mismatches: 13, Indels: 18
0.82 0.07 0.10
Matches are distributed among these distances:
16 11 0.08
18 3 0.02
21 3 0.02
23 107 0.74
25 20 0.14
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (23 bp):
GTGCTCTCTGATTAGCACTTTGT
Found at i:58092727 original size:39 final size:39
Alignment explanation
Indices: 58092663--58092737 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
58092653 TCTGATTAGC
*
58092663 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
* *
58092702 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTC
58092738 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAGCACTTTGTGTGCTCAGT
Found at i:58092742 original size:23 final size:23
Alignment explanation
Indices: 58092697--58092790 Score: 86
Period size: 23 Copynumber: 4.0 Consensus size: 23
58092687 CTTTGTGTGC
*
58092697 TCAGTACTTTGTGTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
* *
58092720 TTAGCACTTTGTGTGCTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
58092743 TGCCCAGCACTTATGTG--CTCTCTGT
1 T---CAGCACTT-TGTGTACTCTCTGT
* *
58092768 TCAGTACTTCG-GTACTCTCTGT
1 TCAGCACTTTGTGTACTCTCTGT
58092790 T
1 T
58092791 TGTTCCGTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 16 0.27
23 21 0.36
25 9 0.15
26 7 0.12
27 4 0.07
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.44
Consensus pattern (23 bp):
TCAGCACTTTGTGTACTCTCTGT
Found at i:58100295 original size:23 final size:23
Alignment explanation
Indices: 58100269--58100457 Score: 230
Period size: 23 Copynumber: 8.4 Consensus size: 23
58100259 AGCACGTCTC
*
58100269 GTGCTCTCTGATTAGCACTATGT
1 GTGCTCTCTGATTAGCACTTTGT
*
58100292 GTGCTCTCTGATTAGCGCTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
*
58100315 GTGCTCTCTGATTAGTACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
* *
58100338 GTACTCTCTGTTATTAGCACTGTGT
1 GTGCTCTCTG--ATTAGCACTTTGT
58100363 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
58100386 GTGCTCTCTGATTAGCACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
*
58100409 GTG--CTC-----AGTACTTTGT
1 GTGCTCTCTGATTAGCACTTTGT
* * *
58100425 GTACTCTCTGTTTAGCACTTTAT
1 GTGCTCTCTGATTAGCACTTTGT
58100448 GTGCTCTCTG
1 GTGCTCTCTG
58100458 TTCGGTTTCT
Statistics
Matches: 143, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
16 11 0.08
18 3 0.02
21 3 0.02
23 106 0.74
25 20 0.14
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.44
Consensus pattern (23 bp):
GTGCTCTCTGATTAGCACTTTGT
Found at i:58100371 original size:71 final size:69
Alignment explanation
Indices: 58100272--58100410 Score: 233
Period size: 71 Copynumber: 2.0 Consensus size: 69
58100262 ACGTCTCGTG
* *
58100272 CTCTCTGATTAGCACTATGTGTGCTCTCTGATTAGCGCTTTGTGTGCTCTCTGATTAGTACTTTG
1 CTCTCTGATTAGCACTATGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGCACTTTG
58100337 TGTA
66 TGTA
*
58100341 CTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGCACTT
1 CTCTCTG--ATTAGCACTATGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGCACTT
58100406 TGTGT
64 TGTGT
58100411 GCTCAGTACT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
69 7 0.11
71 58 0.89
ACGTcount: A:0.14, C:0.21, G:0.22, T:0.44
Consensus pattern (69 bp):
CTCTCTGATTAGCACTATGTGTGCTCTCTGATTAGCACTTTGTGTGCTCTCTGATTAGCACTTTG
TGTA
Found at i:58100404 original size:46 final size:46
Alignment explanation
Indices: 58100248--58100414 Score: 228
Period size: 46 Copynumber: 3.6 Consensus size: 46
58100238 ACACTAGCGC
* * *
58100248 GCTCTCTGTTTAGCAC-GTCTCGTGCTCTCTGATTAGCACTATGTGT
1 GCTCTCTGATTAGCACTGTGT-GTGCTCTCTGATTAGCACTTTGTGT
* * *
58100294 GCTCTCTGATTAGCGCTTTGTGTGCTCTCTGATTAGTACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGT
*
58100340 ACTCTCTGTTATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGT
*
58100388 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTGTGTGTGCTC
58100415 AGTACTTTGT
Statistics
Matches: 106, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
46 62 0.58
47 2 0.02
48 42 0.40
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.43
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACTTTGTGT
Found at i:58100433 original size:39 final size:39
Alignment explanation
Indices: 58100379--58100453 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
58100369 TCTGATTAGC
* *
58100379 ACTTTGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTTGTGTACTCTCTGATTAGCACTTTATGTGCTCAGT
*
58100418 ACTTTGTGTACTCTCTGTTTAGCACTTTATGTGCTC
1 ACTTTGTGTACTCTCTGATTAGCACTTTATGTGCTC
58100454 TCTGTTCGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.13, C:0.21, G:0.20, T:0.45
Consensus pattern (39 bp):
ACTTTGTGTACTCTCTGATTAGCACTTTATGTGCTCAGT
Found at i:58101501 original size:30 final size:30
Alignment explanation
Indices: 58101443--58101501 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
58101433 ATAGGTCCTT
*
58101443 GAACTTTCCAGAAATTATATTTTGACCCTC
1 GAACTTTCCAGAAATTATATTTTAACCCTC
58101473 GAACTTTCCA-AAATTCGAT-TTTTAACCCT
1 GAACTTTCCAGAAATT--ATATTTTAACCCT
58101502 GATTTCACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 5 0.19
30 19 0.73
31 2 0.08
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (30 bp):
GAACTTTCCAGAAATTATATTTTAACCCTC
Found at i:58101526 original size:30 final size:29
Alignment explanation
Indices: 58101492--58101585 Score: 68
Period size: 30 Copynumber: 3.2 Consensus size: 29
58101482 AAAATTCGAT
58101492 TTTTAACCCTGATTTCACCAAAAATCACCA
1 TTTTAACCCTGATTT-ACCAAAAATCACCA
* * *
58101522 TTTTACCCCCGAACTTT--CTAAAATC-CCA
1 TTTTAACCCTG-A-TTTACCAAAAATCACCA
* * *
58101550 TTTTTAACACTAATTTTACCAAAAATTACCA
1 -TTTTAACCCTGA-TTTACCAAAAATCACCA
58101581 TTTTA
1 TTTTA
58101586 CCCCCGAACT
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
28 7 0.15
29 14 0.29
30 20 0.42
31 4 0.08
32 3 0.06
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (29 bp):
TTTTAACCCTGATTTACCAAAAATCACCA
Found at i:58101690 original size:29 final size:28
Alignment explanation
Indices: 58101658--58101747 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 28
58101648 CGAACTTTCT
*
58101658 AAAATTCTATTTTTAACCTCGATTTCACC
1 AAAATTCCATTTTTAACC-CGATTTCACC
58101687 AAAAATTACCA-TTTT-ACCCGAACTTT--CC
1 -AAAATT-CCATTTTTAACCCG-A-TTTCACC
*
58101715 AAAATCCCATTTTTAACCCCGATTTCACC
1 AAAATTCCATTTTTAA-CCCGATTTCACC
58101744 AAAA
1 AAAA
58101748 ATCACCATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
26 3 0.06
27 12 0.24
28 6 0.12
29 14 0.28
30 13 0.26
31 2 0.04
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.33
Consensus pattern (28 bp):
AAAATTCCATTTTTAACCCGATTTCACC
Found at i:58101762 original size:29 final size:30
Alignment explanation
Indices: 58101668--58101759 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
58101658 AAAATTCTAT
* *
58101668 TTTTAACCTCGATTTCACCAAAAATTACCA
1 TTTTAACCCCGATTTCACCAAAAATCACCA
58101698 TTTT-A-CCCGAACTTT--CC-AAAATC-CCA
1 TTTTAACCCCG-A-TTTCACCAAAAATCACCA
58101724 TTTTTAACCCCGATTTCACCAAAAATCACCA
1 -TTTTAACCCCGATTTCACCAAAAATCACCA
58101755 TTTTA
1 TTTTA
58101760 CCCTTGAACT
Statistics
Matches: 51, Mismatches: 2, Indels: 18
0.72 0.03 0.25
Matches are distributed among these distances:
26 3 0.06
27 12 0.24
28 7 0.14
29 8 0.16
30 18 0.35
31 3 0.06
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (30 bp):
TTTTAACCCCGATTTCACCAAAAATCACCA
Found at i:58101964 original size:59 final size:59
Alignment explanation
Indices: 58101461--58101943 Score: 521
Period size: 59 Copynumber: 8.2 Consensus size: 59
58101451 CAGAAATTAT
* * *
58101461 ATTTTGACCCTCGAACTTTCCAAAATTCGATTTTTAACC-CTGATTTCACCAAAAATCACC
1 ATTTT-ACCCTCGAACTTTCCAAAATCCCATTTTTAACCTC-GATTTCACCAAAAATTACC
* * * *
58101521 ATTTTACCCCCGAACTTTCTAAAATCCCATTTTTAACACT-AATTTTACCAAAAATTACC
1 ATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAAC-CTCGATTTCACCAAAAATTACC
* * ** ** * * *
58101580 ATTTTACCCCCGAACTTTCTAAAATCCTGTTTTTAACCTTAACTTCACC-AATATCACC
1 ATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTACC
* * * *
58101638 ATTTTACCCCCGAACTTTCTAAAATTCTATTTTTAACCTCGATTTCACCAAAAATTACC
1 ATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTACC
* *
58101697 ATTTTA-CC-CGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATCACC
1 ATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTACC
* * * * * * * *
58101754 ATTTTACCCTTGAACTCTCTAAAATCTCGTATTTAACCTCGGTTTCACCAAAAACTACC
1 ATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTACC
* * * *
58101813 ATTTTA-CCTCCAAACTTTCTAAAATCCCATTTTCTAACCCCAATTTCACCAAAAATTACC
1 ATTTTACCCT-CGAACTTTCCAAAATCCCATTTT-TAACCTCGATTTCACCAAAAATTACC
* * *
58101873 GTTTTACCC-CTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACC
1 ATTTTACCCTC-GAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTACC
*
58101932 ATTTCACCCTCG
1 ATTTTACCCTCG
58101944 GGCATCCAAA
Statistics
Matches: 359, Mismatches: 53, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
57 50 0.14
58 60 0.17
59 193 0.54
60 54 0.15
61 2 0.01
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (59 bp):
ATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTACC
Found at i:58103508 original size:6 final size:6
Alignment explanation
Indices: 58103497--58103561 Score: 71
Period size: 6 Copynumber: 10.8 Consensus size: 6
58103487 TTAAATTGAT
* * *
58103497 TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTTACCTA TTTAAA TTT-AC
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA--AA TTTAAA TTTAAA
58103545 TTTAAA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAA
58103562 TCAAATTTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
5 8 0.16
6 36 0.73
8 5 0.10
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:58103528 original size:17 final size:17
Alignment explanation
Indices: 58103486--58103560 Score: 93
Period size: 17 Copynumber: 4.6 Consensus size: 17
58103476 TAATTAAGAG
*
58103486 TTTAAATTGATTTTAAA
1 TTTAAATTTATTTTAAA
58103503 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
**
58103520 TTTAAATTTA-CCT--A
1 TTTAAATTTATTTTAAA
*
58103534 TTTAAATTTACTTTAAA
1 TTTAAATTTATTTTAAA
58103551 TTTAAATTTA
1 TTTAAATTTA
58103561 ATCAAATTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
14 11 0.22
15 1 0.02
16 1 0.02
17 37 0.74
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:58103540 original size:31 final size:31
Alignment explanation
Indices: 58103502--58103560 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
58103492 TTGATTTTAA
*
58103502 ATTTAAATTTATTTTAAATTTAAATTTACCT
1 ATTTAAATTTACTTTAAATTTAAATTTACCT
58103533 ATTTAAATTTACTTTAAATTTAAATTTA
1 ATTTAAATTTACTTTAAATTTAAATTTA
58103561 ATCAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (31 bp):
ATTTAAATTTACTTTAAATTTAAATTTACCT
Found at i:58103591 original size:12 final size:12
Alignment explanation
Indices: 58103568--58103600 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
58103558 TTAATCAAAT
58103568 TTAAAA-TAATA
1 TTAAAATTAATA
*
58103579 TTAAACTTAATA
1 TTAAAATTAATA
58103591 TTAAAATTAA
1 TTAAAATTAA
58103601 AAGTCTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (12 bp):
TTAAAATTAATA
Found at i:58105509 original size:29 final size:30
Alignment explanation
Indices: 58105444--58105786 Score: 172
Period size: 29 Copynumber: 11.8 Consensus size: 30
58105434 CCTTAAATTA
* *
58105444 TCCAAAAATTACA-TTTT-CGCCCTAAC-T
1 TCCAAAAATTACATTTTTACCCCCAAACTT
* * *
58105471 TCCTAAAATTACATTTTTGCCCCCGAACTT
1 TCCAAAAATTACATTTTTACCCCCAAACTT
* * *
58105501 TCC-AAAATTTCATTTTTA-ACCC-TA-TT
1 TCCAAAAATTACATTTTTACCCCCAAACTT
* *
58105527 TCACCAAAAATTACCA-TTTTACCCTCTAACTT
1 T--CCAAAAATTA-CATTTTTACCCCCAAACTT
*
58105559 TCC-AAAATT-CTATTTTTGA--CCCTAA-TT
1 TCCAAAAATTAC-ATTTTT-ACCCCCAAACTT
* *
58105586 TCACCAAAAATTACATTTTTGCCCCTAAACTT
1 T--CCAAAAATTACATTTTTACCCCCAAACTT
* *
58105618 TCC-AAAATTTCATTTTTTA-CCCC-AATTT
1 TCCAAAAATTACA-TTTTTACCCCCAAACTT
*
58105646 TACCAAAAATTACCA-TTTTACCCCTAAACTT
1 T-CCAAAAATTA-CATTTTTACCCCCAAACTT
* * * * * **
58105677 TTCAAAACTT-CATTTTTAACCTCGATTTT
1 TCCAAAAATTACATTTTTACCCCCAAACTT
* *
58105706 TCCTAAAATTAC-TATTTTACCCTCAAACTT
1 TCCAAAAATTACAT-TTTTACCCCCAAACTT
* * *
58105736 T-CAAAAATTACATTTTAACCTCGAAACTT
1 TCCAAAAATTACATTTTTACCCCCAAACTT
58105765 T-CAAAAATTACCA-TTTTACCCC
1 TCCAAAAATTA-CATTTTTACCCC
58105787 TTAGATATCT
Statistics
Matches: 241, Mismatches: 44, Indels: 60
0.70 0.13 0.17
Matches are distributed among these distances:
26 3 0.01
27 17 0.07
28 22 0.09
29 117 0.49
30 63 0.26
31 13 0.05
32 6 0.02
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.38
Consensus pattern (30 bp):
TCCAAAAATTACATTTTTACCCCCAAACTT
Found at i:58105595 original size:59 final size:58
Alignment explanation
Indices: 58105496--58105845 Score: 297
Period size: 59 Copynumber: 6.0 Consensus size: 58
58105486 TTTGCCCCCG
58105496 AACTTTCCAAAATTTCATTTTTAACCCT-ATTTCACCAAAAATTACCATTTTACCCTCT-
1 AACTTTCCAAAATTTCATTTTT-ACCCTAATTTCACCAAAAATTACCATTTTACCC-CTA
*
58105554 AACTTTCCAAAA-TTCTATTTTTGACCCTAATTTCACCAAAAATTA-CATTTTTGCCCCTA
1 AACTTTCCAAAATTTC-ATTTTT-ACCCTAATTTCACCAAAAATTACCA-TTTTACCCCTA
* *
58105613 AACTTTCCAAAATTTCATTTTTTACCCCAATTTTACCAAAAATTACCATTTTACCCCTA
1 AACTTTCCAAAATTTCA-TTTTTACCCTAATTTCACCAAAAATTACCATTTTACCCCTA
* * * * ** * *
58105672 AACTTTTCAAAACTTCATTTTTAACCTCGATTTTTCCTAAAATTACTATTTTA-CCCTCA
1 AACTTTCCAAAATTTCATTTTTACCCT-AATTTCACCAAAAATTACCATTTTACCCCT-A
* * * *
58105731 AACTTTCAAAAATTACATTTTAACCTCGAAACTTT---CAAAAATTACCATTTTACCCCTTA
1 AACTTTCCAAAATTTCATTTTTACC-C-TAA-TTTCACCAAAAATTACCATTTTACCCC-TA
* * * * * ** *
58105790 GA-TATCTAAAATATCATTTTTAACCTTAAATTTTTCC-AAAATTACCATTTTGCCCC
1 AACTTTCCAAAATTTCATTTTT-ACCCT-AATTTCACCAAAAATTACCATTTTACCCC
58105846 CTGAGAATCC
Statistics
Matches: 241, Mismatches: 32, Indels: 37
0.78 0.10 0.12
Matches are distributed among these distances:
57 6 0.02
58 70 0.29
59 148 0.61
60 14 0.06
61 3 0.01
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.40
Consensus pattern (58 bp):
AACTTTCCAAAATTTCATTTTTACCCTAATTTCACCAAAAATTACCATTTTACCCCTA
Found at i:58105800 original size:29 final size:29
Alignment explanation
Indices: 58105768--58105874 Score: 85
Period size: 29 Copynumber: 3.7 Consensus size: 29
58105758 GAAACTTTCA
*
58105768 AAAATTACCATTTTACCCCTTAGATATCT
1 AAAATTACCATTTTACCCCTTAGATATCC
* * * *
58105797 AAAA-TATCATTTTTA-ACCTTAAATTTTTCC
1 AAAATTACCA-TTTTACCCCTTAGA--TATCC
* *
58105827 AAAATTACCATTTTGCCCCCTGAGA-ATCC
1 AAAATTACCATTTT-ACCCCTTAGATATCC
*
58105856 AAAATTACCATTTTGCCCC
1 AAAATTACCATTTTACCCC
58105875 CGGGTGTCCA
Statistics
Matches: 60, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
28 14 0.23
29 26 0.43
30 11 0.18
31 4 0.07
32 5 0.08
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCTTAGATATCC
Found at i:58112680 original size:29 final size:28
Alignment explanation
Indices: 58112647--58112744 Score: 74
Period size: 29 Copynumber: 3.4 Consensus size: 28
58112637 GTATAGGGAT
58112647 GCACCGAAGTGCAATAACAGAACAGAGTA
1 GCACCGAAGTGC-ATAACAGAACAGAGTA
** * *
58112676 GCACC-AGAGTGCCATGTCAGAATAGAATA
1 GCACCGA-AGTG-CATAACAGAACAGAGTA
* * *
58112705 GCACTGAAGTGCTTAATCTGAACAGAGT-
1 GCACCGAAGTGCATAA-CAGAACAGAGTA
58112733 GACACCGAAGTG
1 G-CACCGAAGTG
58112745 TGATGTCAGA
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
28 4 0.08
29 46 0.88
30 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.16
Consensus pattern (28 bp):
GCACCGAAGTGCATAACAGAACAGAGTA
Found at i:58118353 original size:27 final size:27
Alignment explanation
Indices: 58118313--58118393 Score: 85
Period size: 26 Copynumber: 3.0 Consensus size: 27
58118303 ACATTGAATG
* *
58118313 AATTACTCGAAATTTTATTGAGAGTAAA
1 AATTA-TCAAAATTTTACTGAGAGTAAA
* * * *
58118341 AATTGTCAAAATTTCACCGGGAGT-AA
1 AATTATCAAAATTTTACTGAGAGTAAA
58118367 AATTATCAAAATTTTACT-AGAGTAAA
1 AATTATCAAAATTTTACTGAGAGTAAA
58118393 A
1 A
58118394 TTGGGATGTG
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
25 4 0.10
26 20 0.48
27 14 0.33
28 4 0.10
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (27 bp):
AATTATCAAAATTTTACTGAGAGTAAA
Found at i:58124762 original size:17 final size:17
Alignment explanation
Indices: 58124732--58124765 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
58124722 ATTTTGGTCC
**
58124732 TTTAAATTTTTAAAAAT
1 TTTAAATTAGTAAAAAT
58124749 TTTAAATTAGTAAAAAT
1 TTTAAATTAGTAAAAAT
58124766 AAATTTGTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TTTAAATTAGTAAAAAT
Found at i:58128491 original size:14 final size:15
Alignment explanation
Indices: 58128472--58128510 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
58128462 TCTTAAATTA
58128472 AATTTTTAAAA-AAT
1 AATTTTTAAAATAAT
58128486 AATTTTTAAAATAAT
1 AATTTTTAAAATAAT
*
58128501 -TTTTTTAAAA
1 AATTTTTAAAA
58128511 CACTTCTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 20 0.87
15 3 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTTTTAAAATAAT
Found at i:58135223 original size:17 final size:19
Alignment explanation
Indices: 58135201--58135237 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
58135191 TCAAATTATT
58135201 ATTAAA-ACATT-ATAAAA
1 ATTAAATACATTCATAAAA
*
58135218 ATTAAATATATTCATAAAA
1 ATTAAATACATTCATAAAA
58135237 A
1 A
58135238 ATAAGTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 4 0.24
19 7 0.41
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
ATTAAATACATTCATAAAA
Found at i:58136641 original size:15 final size:17
Alignment explanation
Indices: 58136621--58136652 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
58136611 CAGTGATTCT
58136621 TATTTTG-TTTT-TGGG
1 TATTTTGATTTTCTGGG
58136636 TATTTTGATTTTCTGGG
1 TATTTTGATTTTCTGGG
58136653 GCATCAGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.09, C:0.03, G:0.25, T:0.62
Consensus pattern (17 bp):
TATTTTGATTTTCTGGG
Found at i:58155453 original size:22 final size:22
Alignment explanation
Indices: 58155415--58155458 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
58155405 CAAAGAAATA
*
58155415 TAAAAAATACACAAATATTTTT
1 TAAAAAATACACAAATAATTTT
*
58155437 TAAAAAATATA-ATAATAATTTT
1 TAAAAAATACACA-AATAATTTT
58155459 ATATTAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAAAAATACACAAATAATTTT
Found at i:58155504 original size:27 final size:28
Alignment explanation
Indices: 58155455--58155512 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
58155445 ATAATAATAA
* *
58155455 TTTTATATTAATGTGTATGATTT-AGGG
1 TTTTATATTAACGTGTATAATTTAAGGG
58155482 TTTTATATTAACGT-TAATAATTTAAGGG
1 TTTTATATTAACGTGT-ATAATTTAAGGG
58155510 TTT
1 TTT
58155513 ATAAATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 1 0.04
27 19 0.70
28 7 0.26
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.52
Consensus pattern (28 bp):
TTTTATATTAACGTGTATAATTTAAGGG
Found at i:58156539 original size:77 final size:77
Alignment explanation
Indices: 58156408--58156585 Score: 241
Period size: 77 Copynumber: 2.3 Consensus size: 77
58156398 ATTCGATTAT
* * * * * *
58156408 AGCTGGGCTCACATTTGATATTCGTCAGTTTACCCGACTAGTGCTGGGCGCAAAATATCGTTGAT
1 AGCTGGGCTCACATTTGATATTCGTCAGTTTACCCAACTAGCGCTAGGCACAAAACATCATTGAT
58156473 ATATCCAACTAG
66 ATATCCAACTAG
* * *
58156485 TGCTGGGCTCACATTTGGTATTCGTC-GATTTACCCAACTAGCGCTAGGCACAAAACATCATTGG
1 AGCTGGGCTCACATTTGATATTCGTCAG-TTTACCCAACTAGCGCTAGGCACAAAACATCATTGA
58156549 TATATCCAACTAG
65 TATATCCAACTAG
* *
58156562 AGTTGGACTCACATTTGATATTCG
1 AGCTGGGCTCACATTTGATATTCG
58156586 CCGGTTTATT
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
76 1 0.01
77 86 0.99
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (77 bp):
AGCTGGGCTCACATTTGATATTCGTCAGTTTACCCAACTAGCGCTAGGCACAAAACATCATTGAT
ATATCCAACTAG
Found at i:58159060 original size:15 final size:15
Alignment explanation
Indices: 58159036--58159068 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
58159026 TTGTGAACCA
58159036 TGCTGCTGCTGTGAC
1 TGCTGCTGCTGTGAC
*
58159051 TGCTGTTGCTGTGAC
1 TGCTGCTGCTGTGAC
58159066 TGC
1 TGC
58159069 ATGGCCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.24, G:0.33, T:0.36
Consensus pattern (15 bp):
TGCTGCTGCTGTGAC
Found at i:58159186 original size:6 final size:6
Alignment explanation
Indices: 58159177--58159296 Score: 186
Period size: 6 Copynumber: 20.0 Consensus size: 6
58159167 AAGCTCTACA
58159177 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
* * * *
58159225 TATATG CATATG TATATG TATAAG TATATG GATATG TATAAG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
* *
58159273 GATATG TATAAG TATATG TATATG
1 TATATG TATATG TATATG TATATG
58159297 CATACATGAA
Statistics
Matches: 102, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 102 1.00
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.45
Consensus pattern (6 bp):
TATATG
Found at i:58163208 original size:15 final size:15
Alignment explanation
Indices: 58163188--58163223 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
58163178 CCTTTGCTGC
**
58163188 TGCTGCTGCTGGTGT
1 TGCTGCTGCTGCAGT
58163203 TGCTGCTGCTGCAGT
1 TGCTGCTGCTGCAGT
58163218 TGCTGC
1 TGCTGC
58163224 GTTTGTTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.03, C:0.25, G:0.36, T:0.36
Consensus pattern (15 bp):
TGCTGCTGCTGCAGT
Found at i:58166229 original size:23 final size:23
Alignment explanation
Indices: 58166203--58166278 Score: 64
Period size: 27 Copynumber: 3.0 Consensus size: 23
58166193 AATATTTTCA
58166203 TAAAAATATATAATAATAAATTT
1 TAAAAATATATAATAATAAATTT
*
58166226 TAAAAATGAATAAAAATAAATAAATATTT
1 TAAAAAT--AT-ATAAT-AAT-AA-ATTT
58166255 TCAAAAA-ATTATAATAATAAATTT
1 T-AAAAATA-TATAATAATAAATTT
58166279 AAATTTTATA
Statistics
Matches: 43, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
23 7 0.16
24 4 0.09
25 4 0.09
26 7 0.16
27 8 0.19
28 3 0.07
29 5 0.12
30 5 0.12
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (23 bp):
TAAAAATATATAATAATAAATTT
Found at i:58166285 original size:30 final size:29
Alignment explanation
Indices: 58166196--58166285 Score: 75
Period size: 30 Copynumber: 3.2 Consensus size: 29
58166186 ATACCTAAAT
58166196 ATTTTCATAAAAA-TAT-ATAAT-AA-TAA
1 ATTTTCA-AAAAATTATAATAATAAATTAA
* * *
58166222 ATTTT--AAAAATGAATAAAAATAAATAAA
1 ATTTTCAAAAAAT-TATAATAATAAATTAA
58166250 TATTTTCAAAAAATTATAATAATAAATTTAA
1 -ATTTTCAAAAAATTATAATAATAAA-TTAA
58166281 ATTTT
1 ATTTT
58166286 ATATTCATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
23 5 0.10
25 2 0.04
26 9 0.18
27 2 0.04
28 2 0.04
29 5 0.10
30 15 0.31
31 9 0.18
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (29 bp):
ATTTTCAAAAAATTATAATAATAAATTAA
Found at i:58166713 original size:31 final size:30
Alignment explanation
Indices: 58166677--58166762 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 30
58166667 ACTAGAAAAA
58166677 TTTTTAAAGAATTAAAACTAATTTTTATTAT
1 TTTTTAAAG-ATTAAAACTAATTTTTATTAT
*
58166708 TTTTTAAATGATT-AAATTAAATTTTTATTAT
1 TTTTTAAA-GATTAAAACT-AATTTTTATTAT
*
58166739 TTTTT-AAGATTAAAATGTAATTTT
1 TTTTTAAAGATTAAAA-CTAATTTT
58166763 ACTATTAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
29 4 0.08
30 15 0.31
31 29 0.59
32 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.55
Consensus pattern (30 bp):
TTTTTAAAGATTAAAACTAATTTTTATTAT
Found at i:58166959 original size:24 final size:22
Alignment explanation
Indices: 58166896--58166959 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 22
58166886 TAATATAAAA
58166896 TTTAAATTTAT-TATTATATTT
1 TTTAAATTTATATATTATATTT
* *
58166917 TTGAAAATATT-TATTTTATATATT
1 TT-TAAAT-TTATATATTATAT-TT
58166941 TTTAAATTGTATATATTAT
1 TTTAAATT-TATATATTAT
58166960 TTCTTGTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
21 2 0.06
22 6 0.18
23 14 0.42
24 11 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (22 bp):
TTTAAATTTATATATTATATTT
Found at i:58166987 original size:53 final size:50
Alignment explanation
Indices: 58166896--58167040 Score: 151
Period size: 54 Copynumber: 2.9 Consensus size: 50
58166886 TAATATAAAA
*
58166896 TTTAAATTTA-T-TATTATATTTTTGAAAATA--TTTA-TTTTATATA-TT
1 TTTAAATTTATTATATTAT-TTTTTCAAAATATTTTTATTTTTATATATTT
58166941 TTTAAATTGTA-TATATTATTTCTTGTCAACAATCATTTTTATTTTTATATATTT
1 TTTAAATT-TATTATATTATTT-TT-TCAA-AAT-ATTTTTATTTTTATATATTT
* * *
58166995 TTTAAATTTATTATTTTATTTTTTGAAAATATTTGTATTTTTATAT
1 TTTAAATTTATTATATTATTTTTTCAAAATATTTTTATTTTTATAT
58167041 GGTTTCTTGA
Statistics
Matches: 85, Mismatches: 4, Indels: 17
0.80 0.04 0.16
Matches are distributed among these distances:
45 8 0.09
46 5 0.06
47 8 0.09
48 3 0.04
49 3 0.04
50 16 0.19
51 3 0.04
52 7 0.08
53 13 0.15
54 19 0.22
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (50 bp):
TTTAAATTTATTATATTATTTTTTCAAAATATTTTTATTTTTATATATTT
Found at i:58175654 original size:30 final size:31
Alignment explanation
Indices: 58175619--58175678 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
58175609 TGATAGTAAT
*
58175619 ATTTTTAAAG-GATTAAATTAAAATTTTATC
1 ATTTTTAAAGAGATTAAAATAAAATTTTATC
*
58175649 ATTTTTAAAGAGATTAAAATATAATTTTAT
1 ATTTTTAAAGAGATTAAAATAAAATTTTAT
58175679 TTTTACTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.47
Consensus pattern (31 bp):
ATTTTTAAAGAGATTAAAATAAAATTTTATC
Found at i:58181554 original size:21 final size:21
Alignment explanation
Indices: 58181514--58181555 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
58181504 TCCATTTGTT
**
58181514 TCTCTAATAATAAGGGAATAA
1 TCTCTAATAATAAGAAAATAA
58181535 TCTCTAATAATAAGAAAATAA
1 TCTCTAATAATAAGAAAATAA
58181556 CCCCTTAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.29
Consensus pattern (21 bp):
TCTCTAATAATAAGAAAATAA
Found at i:58184858 original size:23 final size:22
Alignment explanation
Indices: 58184828--58184948 Score: 93
Period size: 23 Copynumber: 5.3 Consensus size: 22
58184818 ACGCTAGCGC
58184828 GCTTACTGTTTCGCACTTTGTGT
1 GCTTACTGTTT-GCACTTTGTGT
*
58184851 GCTTACTGTTTCGCACCTTGTGT
1 GCTTACTGTTT-GCACTTTGTGT
* * *
58184874 GCCTACTGATTTGC-GTTGTGTGC
1 GCTTACTG-TTTGCACTT-TGTGT
* * *
58184897 GCCTACTGATTGCACTGTGTGT
1 GCTTACTGTTTGCACTTTGTGT
* *
58184919 GCCTT-CTGGATTGCACTGTGTGT
1 G-CTTACT-GTTTGCACTTTGTGT
58184942 GCTTACT
1 GCTTACT
58184949 ATTTTCCCAG
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
22 15 0.18
23 64 0.78
24 3 0.04
ACGTcount: A:0.10, C:0.23, G:0.26, T:0.41
Consensus pattern (22 bp):
GCTTACTGTTTGCACTTTGTGT
Found at i:58201570 original size:18 final size:18
Alignment explanation
Indices: 58201549--58201586 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
58201539 CCTGATTTTT
58201549 TTTTTTTGTAA-TATTTAC
1 TTTTTTT-TAACTATTTAC
*
58201567 TTTTTTTTAACTTTTTAC
1 TTTTTTTTAACTATTTAC
58201585 TT
1 TT
58201587 GTACTTAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTTTTTAACTATTTAC
Found at i:58216366 original size:179 final size:180
Alignment explanation
Indices: 58216046--58216408 Score: 638
Period size: 179 Copynumber: 2.0 Consensus size: 180
58216036 CAAAATTATA
58216046 CATTGTACTATAAAAAATCCTACATCAAGTATTACTAAAGAACTTTCAATCCACTTCACTTGTTG
1 CATTGTACTATAAAAAATCCTACATCAAGTATTACTAAAGAACTTTCAATCCACTTCACTTGTTG
* * * *
58216111 GCATTCAAATTCTGACAGTTTTTGGAGTTCAATATAAAAATGCAGGAAATCATAAAGATATTAAC
66 GCATTCAAATCCTGACAGTTTTTGGAGTTCAATATAAAAATGCAGGAAACCACAAAGACATTAAC
* * *
58216176 CTCATTTGGTAGCAGTAAGAAAGGGAAAGCCATAAGATCATCTTGAATGC
131 CACAATTGGTAGCAGTAAGAAAGGCAAAGCCATAAGATCATCTTGAATGC
*
58216226 CATTGTACTAT-AAAAATCTTACATCAAGTATTACTAAAGAACTTTCAATCCACTTCACTTGTTG
1 CATTGTACTATAAAAAATCCTACATCAAGTATTACTAAAGAACTTTCAATCCACTTCACTTGTTG
58216290 GCATTCAAATCCTGACAGTTTTTGGAGTTCAATATAAAAATGCAGGAAACCACAAAGACATTAAC
66 GCATTCAAATCCTGACAGTTTTTGGAGTTCAATATAAAAATGCAGGAAACCACAAAGACATTAAC
*
58216355 CACAATTGGTAGCATTAAGAAAGGCAAAGCCATAAGATCATCTTGAATGC
131 CACAATTGGTAGCAGTAAGAAAGGCAAAGCCATAAGATCATCTTGAATGC
58216405 CATT
1 CATT
58216409 TTATTGATCA
Statistics
Matches: 174, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
179 163 0.94
180 11 0.06
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (180 bp):
CATTGTACTATAAAAAATCCTACATCAAGTATTACTAAAGAACTTTCAATCCACTTCACTTGTTG
GCATTCAAATCCTGACAGTTTTTGGAGTTCAATATAAAAATGCAGGAAACCACAAAGACATTAAC
CACAATTGGTAGCAGTAAGAAAGGCAAAGCCATAAGATCATCTTGAATGC
Found at i:58222002 original size:16 final size:15
Alignment explanation
Indices: 58221973--58222013 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 15
58221963 TTGGGAAAAT
58221973 AATATATTTATTACA
1 AATATATTTATTACA
58221988 AATATATTATATTACA
1 AATATATT-TATTACA
58222004 AATTATATTT
1 AA-TATATTT
58222014 GCCTTGTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.33
16 10 0.42
17 6 0.25
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATATTTATTACA
Found at i:58222201 original size:20 final size:20
Alignment explanation
Indices: 58222178--58222215 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
58222168 GAAATTAAAG
58222178 AAATA-ATAAACAATAAAATA
1 AAATATATAAA-AATAAAATA
*
58222198 AAATATTTAAAAATAAAA
1 AAATATATAAAAATAAAA
58222216 AAATTCGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATATATAAAAATAAAATA
Found at i:58228053 original size:56 final size:55
Alignment explanation
Indices: 58227978--58228086 Score: 157
Period size: 56 Copynumber: 2.0 Consensus size: 55
58227968 ATTTTAATAT
*
58227978 TTTTATTTAACATGCACGAGTTATT-GTCTTCATTAGTTGTATATTTATATTATAG
1 TTTTATTTAACATGCACGAGTCATTAGT-TTCATTAGTTGTATATTTATATTATAG
* * *
58228033 TTTTATTTTAATATGTACGAGTCATTAGTTTCATTATTTGTATATTTATATTAT
1 TTTTA-TTTAACATGCACGAGTCATTAGTTTCATTAGTTGTATATTTATATTAT
58228087 TTATTAAGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
55 5 0.10
56 41 0.85
57 2 0.04
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (55 bp):
TTTTATTTAACATGCACGAGTCATTAGTTTCATTAGTTGTATATTTATATTATAG
Found at i:58229824 original size:20 final size:20
Alignment explanation
Indices: 58229799--58229840 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
58229789 CTACGATGTA
58229799 TAGGTATTTAAGCATTGAGG
1 TAGGTATTTAAGCATTGAGG
58229819 TAGGTATTTAAGCATTGAGG
1 TAGGTATTTAAGCATTGAGG
58229839 TA
1 TA
58229841 TTGATACTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.36
Consensus pattern (20 bp):
TAGGTATTTAAGCATTGAGG
Found at i:58230794 original size:17 final size:17
Alignment explanation
Indices: 58230774--58230816 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
58230764 ATTATTCAAA
58230774 TATTTGATTTAT-TTAAT
1 TATTT-ATTTATCTTAAT
*
58230791 TATTTTTTTATCTTAAT
1 TATTTATTTATCTTAAT
58230808 TATTTATTT
1 TATTTATTT
58230817 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TATTTATTTATCTTAAT
Found at i:58244618 original size:12 final size:12
Alignment explanation
Indices: 58244588--58244630 Score: 59
Period size: 12 Copynumber: 3.4 Consensus size: 12
58244578 CCTAATAACT
58244588 GAAAAAAAAAATA
1 GAAAAAAAAAA-A
58244601 GCAAAAAAAAAAA
1 G-AAAAAAAAAAA
*
58244614 GAAAAAGAAAAA
1 GAAAAAAAAAAA
58244626 GAAAA
1 GAAAA
58244631 CATAAGGCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 15 0.54
13 3 0.11
14 10 0.36
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (12 bp):
GAAAAAAAAAAA
Found at i:58245267 original size:6 final size:6
Alignment explanation
Indices: 58245249--58245315 Score: 50
Period size: 6 Copynumber: 11.2 Consensus size: 6
58245239 TTAAATTGAT
* * *
58245249 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTTAAATA TTTTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AA-A -TTTAAA
*
58245297 TTTGAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA T
58245316 AAAAATTAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
4 4 0.08
5 3 0.06
6 33 0.69
7 3 0.06
8 2 0.04
9 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:58245268 original size:16 final size:16
Alignment explanation
Indices: 58245249--58245306 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
58245239 TTAAATTGAT
58245249 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
*
58245265 TTTAGATTTATTTTAAA
1 TTTAAATTTA-TTTAAA
58245282 TTTAAATATT-TTT-AA
1 TTTAAAT-TTATTTAAA
*
58245297 TTTGAATTTA
1 TTTAAATTTA
58245307 AATTTAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
14 2 0.06
15 8 0.22
16 12 0.33
17 12 0.33
18 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:58245295 original size:27 final size:27
Alignment explanation
Indices: 58245239--58245318 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
58245229 GACTTTTGAG
* **
58245239 TTAAATTGATTTTAAATTTATTTAAAT
1 TTAATTTGATTTTAAATTTAAATAAAT
**
58245266 TTAGATTT-ATTTTAAATTTAAATATTT
1 TTA-ATTTGATTTTAAATTTAAATAAAT
*
58245293 TTAATTTGAATTTAAATTTAAATAAA
1 TTAATTTGATTTTAAATTTAAATAAA
58245319 AATTAAAGTA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
26 4 0.09
27 36 0.84
28 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (27 bp):
TTAATTTGATTTTAAATTTAAATAAAT
Found at i:58245797 original size:27 final size:25
Alignment explanation
Indices: 58245767--58245817 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
58245757 CCCGTGCACA
*
58245767 AAATCAATATACAACAACCTATTTTCG
1 AAATCAAAATACAA-AACC-ATTTTCG
58245794 AAATCAAAATACAAAACCATTTTC
1 AAATCAAAATACAAAACCATTTTC
58245818 CAGCAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.26
26 4 0.17
27 13 0.57
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (25 bp):
AAATCAAAATACAAAACCATTTTCG
Found at i:58246161 original size:20 final size:20
Alignment explanation
Indices: 58246120--58246162 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
58246110 CAATAAACAT
* *
58246120 TAATATTAAGTAATTATTAA
1 TAATATTAAGCAATTATAAA
58246140 TAATATTAA-CAATTAATAAA
1 TAATATTAAGCAATT-ATAAA
58246160 TAA
1 TAA
58246163 AAAGGGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAATATTAAGCAATTATAAA
Found at i:58247019 original size:162 final size:162
Alignment explanation
Indices: 58246840--58247153 Score: 429
Period size: 162 Copynumber: 1.9 Consensus size: 162
58246830 CTTTTCAATT
* *
58246840 TAGTCCATTGACTGTTTGACTGTACCATGA-GCTGCCACGTGTC-TCTTTTTGGATTATTTATAC
1 TAGTCCATTGACTGTTTGACTGCACCA-GAGGCTGCCACATGTCAT-TTTTTGGATTATTTATAC
** *
58246903 ATTTAGTCCTTTTTATTTTTTATTTGTTTTAATTTAATCCCCAAATCAAC-TTTATTTTAATTAC
64 ATTTAGTCCTTGGTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTA-TTTAATTAC
*
58246967 GAAATTGGCCCAATAA-TTTTTCAAGGTTTATAAAC
128 AAAATTGGCCCAA-AATTTTTTCAAGGTTTATAAAC
* * * *
58247002 TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACATGTCATTTTTTGGATTATTTCTTCAT
1 TAGTCCATTGACTGTTTGACTGCACCAGAGGCTGCCACATGTCATTTTTTGGATTATTTATACAT
** * *
58247067 TTAGTCCTTGGTATTTTTAATTTGTTTTAATTTAATCCTTAAATCGACTTTTATTTAATTATAAA
66 TTAGTCCTTGGTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACAAA
*
58247132 ATTGGTCCAAAATTTTTTCAAG
131 ATTGGCCCAAAATTTTTTCAAG
58247154 ATTTTCAAAT
Statistics
Matches: 133, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
161 4 0.03
162 124 0.93
163 5 0.04
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.46
Consensus pattern (162 bp):
TAGTCCATTGACTGTTTGACTGCACCAGAGGCTGCCACATGTCATTTTTTGGATTATTTATACAT
TTAGTCCTTGGTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACAAA
ATTGGCCCAAAATTTTTTCAAGGTTTATAAAC
Found at i:58247280 original size:30 final size:30
Alignment explanation
Indices: 58247237--58247323 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 30
58247227 TTTGAAAGCC
58247237 CCCT-AAA-TTTTCCAAAATTACATTTTAA
1 CCCTAAAACTTTTCCAAAATTACATTTTAA
**
58247265 CCCTAAAACTTTTCCAAAATTACATTTTGG
1 CCCTAAAACTTTTCCAAAATTACATTTTAA
* *
58247295 CCCTAAAACTTCT-AAAAATTACCATTTTA
1 CCCTAAAACTTTTCCAAAATTA-CATTTTA
58247324 CCCCCGAAGC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
28 4 0.08
29 10 0.20
30 37 0.73
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (30 bp):
CCCTAAAACTTTTCCAAAATTACATTTTAA
Found at i:58247337 original size:30 final size:30
Alignment explanation
Indices: 58247303--58247399 Score: 96
Period size: 30 Copynumber: 3.3 Consensus size: 30
58247293 GGCCCTAAAA
58247303 CTTCTAAAAATTACCATTTTACCCCCGAAG
1 CTTCTAAAAATTACCATTTTACCCCCGAAG
*
58247333 CTTCT-AAAATT-CCATTTTTAACCCCG-A-
1 CTTCTAAAAATTACCA-TTTTACCCCCGAAG
*
58247360 TTTC-ACCGAAAATTACCATTTTACCCCCGAAG
1 CTTCTA---AAAATTACCATTTTACCCCCGAAG
*
58247392 CTTTTAAA
1 CTTCTAAA
58247400 TTCCATTTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 18
0.70 0.07 0.24
Matches are distributed among these distances:
27 3 0.06
28 4 0.08
29 16 0.30
30 23 0.43
31 4 0.08
32 2 0.04
33 1 0.02
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (30 bp):
CTTCTAAAAATTACCATTTTACCCCCGAAG
Found at i:58247497 original size:59 final size:59
Alignment explanation
Indices: 58247309--58247483 Score: 271
Period size: 59 Copynumber: 3.0 Consensus size: 59
58247299 AAAACTTCTA
* *
58247309 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCTCGATTTCATCG
* *
58247368 AAAATTACCATTTTACCCCCGAAGCTT-TTAAATTCCATTTTCAACCTCGATTTCATCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCTCGATTTCATCG
* * * *
58247426 AAAATTGCCATTTTACCCCCAAAACTTCCAAAATTCCATTTTTAACCTCGATTTCATC
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCTCGATTTCATC
58247484 ATTTATCAAC
Statistics
Matches: 105, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
58 51 0.49
59 54 0.51
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCATTTTTAACCTCGATTTCATCG
Found at i:58259458 original size:68 final size:68
Alignment explanation
Indices: 58259348--58260123 Score: 1309
Period size: 68 Copynumber: 11.5 Consensus size: 68
58259338 GGTCACTGAT
*
58259348 GTCATCCCCTTGAAATTGAAGTAGAGCGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
58259413 AAC
66 AAC
*
58259416 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTCATCTCTGAAATTGAAGTAAGAGC
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
* *
58259481 GAT
66 AAC
58259484 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
58259549 AAC
66 AAC
*
58259552 GTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
1 GTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
58259617 CAAC
65 CAAC
*
58259621 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCTCATCTCTGAAATTGAAGTAAGAGC
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
58259686 AAC
66 AAC
* * *
58259689 GCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAA
1 GTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
58259754 CAAC
65 CAAC
58259758 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
58259823 AAC
66 AAC
*
58259826 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCTCATCTCTGAAATTGAAGTAAGAGC
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
58259891 AAC
66 AAC
*
58259894 GTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
1 GTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
58259959 CAAC
65 CAAC
*
58259963 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG---TC--CTC----ATTGAAGTAAGAAC
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
58260019 AAC
66 AAC
*
58260022 GTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
1 GTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
58260087 CAAC
65 CAAC
* *
58260091 GTCATCCTCTTGAAATTGAAGTAAAGTTGGATA
1 GTCATCCCCTTGAAATTGAAGTAGAG-TGGATA
58260124 GCAAAGTCCT
Statistics
Matches: 670, Mismatches: 25, Indels: 25
0.93 0.03 0.03
Matches are distributed among these distances:
59 41 0.06
60 11 0.02
63 5 0.01
65 5 0.01
68 363 0.54
69 245 0.37
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (68 bp):
GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
AAC
Found at i:58259649 original size:137 final size:136
Alignment explanation
Indices: 58259348--58260123 Score: 1309
Period size: 137 Copynumber: 5.7 Consensus size: 136
58259338 GGTCACTGAT
*
58259348 GTCATCCCCTTGAAATTGAAGTAGAGCGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
*
58259413 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTCATCTCTGAAATTGAAGTAAG
66 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
* *
58259478 AGCGAT
131 AGCAAC
58259484 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
*
58259549 AACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
66 AACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
58259614 GAGCAAC
130 GAGCAAC
*
58259621 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCTCATCTCTGAAATTGAAGTAAGAGC
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
* *
58259686 AACGCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
66 AACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
*
58259751 GAACAAC
130 GAGCAAC
58259758 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
*
58259823 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCTCATCTCTGAAATTGAAGTAAG
66 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
58259888 AGCAAC
131 AGCAAC
*
58259894 GTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
1 GTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
58259959 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG---TC--CTC----ATTGAAGTAA
65 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
*
58260015 GAACAAC
130 GAGCAAC
*
58260022 GTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
1 GTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
* *
58260087 CAACGTCATCCTCTTGAAATTGAAGTAAAGTTGGATA
65 CAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATA
58260124 GCAAAGTCCT
Statistics
Matches: 620, Mismatches: 17, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
128 109 0.18
129 6 0.01
132 3 0.00
134 2 0.00
136 157 0.25
137 343 0.55
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (136 bp):
GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAG
AGCAAC
Found at i:58259703 original size:205 final size:205
Alignment explanation
Indices: 58259348--58260123 Score: 1349
Period size: 205 Copynumber: 3.8 Consensus size: 205
58259338 GGTCACTGAT
*
58259348 GTCATCCCCTTGAAATTGAAGTAGAGCGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
58259413 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG-CCTTCATCTCTGAAATTGAAGTAA
66 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCC-TCATCTCTGAAATTGAAGTAA
* * *
58259477 GAGCGATGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAA
130 GAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAA
58259541 GTAAGAGCAAC
195 GTAAGAGCAAC
*
58259552 GTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
1 GTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAG
58259617 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCTCATCTCTGAAATTGAAGTAA
65 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCTCATCTCTGAAATTGAAGTAA
*
58259682 GAGCAACGCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAA
130 GAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAA
*
58259747 GTAAGAACAAC
195 GTAAGAGCAAC
58259758 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
58259823 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCTCATCTCTGAAATTGAAGTAAG
66 AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCTCATCTCTGAAATTGAAGTAAG
58259888 AGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAG
131 AGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAG
58259953 TAAGAGCAAC
196 TAAGAGCAAC
*
58259963 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG---TC--CTC----ATTGAAGTAAGAAC
1 GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
* *
58260019 AACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
66 AACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCCTCATCTCTGAAATTGAAGTAA
*
58260084 GAGCAACGTCATCCTCTTGAAATTGAAGTAAAGTTGGATA
130 GAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATA
58260124 GCAAAGTCCT
Statistics
Matches: 554, Mismatches: 14, Indels: 15
0.95 0.02 0.03
Matches are distributed among these distances:
196 41 0.07
197 73 0.13
200 3 0.01
202 2 0.00
204 25 0.05
205 342 0.62
206 68 0.12
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (205 bp):
GTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
AACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCCTCATCTCTGAAATTGAAGTAAG
AGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAG
TAAGAGCAAC
Found at i:58260035 original size:128 final size:129
Alignment explanation
Indices: 58259741--58260123 Score: 619
Period size: 128 Copynumber: 2.9 Consensus size: 129
58259731 CATCTCTGAA
*
58259741 ATTGAAGTAAGAACAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTC
1 ATTGAAGTAAGAACAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTC
*
58259805 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCCTCA
66 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAAAGTTGGATAACACG---TC-
58259869 TCTC
127 -CTC
*
58259873 TGAAATTGAAGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCA
1 ----ATTGAAGTAAGAACAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCA
*
58259938 TCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTC
62 TCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAAAGTTGGATAACACGTC
58260002 CTC
127 CTC
58260005 ATTGAAGTAAGAACAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTC
1 ATTGAAGTAAGAACAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTC
*
58260070 TGAAATTGAAGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAAAGTTGGATA
66 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAAAGTTGGATA
58260124 GCAAAGTCCT
Statistics
Matches: 240, Mismatches: 5, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
128 109 0.45
129 6 0.03
132 3 0.01
134 2 0.01
136 41 0.17
137 79 0.33
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (129 bp):
ATTGAAGTAAGAACAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTC
TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAAAGTTGGATAACACGTCCTC
Found at i:58260407 original size:6 final size:6
Alignment explanation
Indices: 58260389--58260455 Score: 50
Period size: 6 Copynumber: 11.2 Consensus size: 6
58260379 TTAAATTGAT
* * *
58260389 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTTAAATA TTTTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AA-A -TTTAAA
*
58260437 TTTGAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA T
58260456 AAAAATTAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
4 4 0.08
5 3 0.06
6 33 0.69
7 3 0.06
8 2 0.04
9 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:58260408 original size:16 final size:16
Alignment explanation
Indices: 58260389--58260446 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
58260379 TTAAATTGAT
58260389 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
*
58260405 TTTAGATTTATTTTAAA
1 TTTAAATTTA-TTTAAA
58260422 TTTAAATATT-TTT-AA
1 TTTAAAT-TTATTTAAA
*
58260437 TTTGAATTTA
1 TTTAAATTTA
58260447 AATTTAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
14 2 0.06
15 8 0.22
16 12 0.33
17 12 0.33
18 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:58260435 original size:27 final size:27
Alignment explanation
Indices: 58260379--58260458 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
58260369 GACTTTTGAG
* **
58260379 TTAAATTGATTTTAAATTTATTTAAAT
1 TTAATTTGATTTTAAATTTAAATAAAT
**
58260406 TTAGATTT-ATTTTAAATTTAAATATTT
1 TTA-ATTTGATTTTAAATTTAAATAAAT
*
58260433 TTAATTTGAATTTAAATTTAAATAAA
1 TTAATTTGATTTTAAATTTAAATAAA
58260459 AATTAAAGTA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
26 4 0.09
27 36 0.84
28 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (27 bp):
TTAATTTGATTTTAAATTTAAATAAAT
Found at i:58260940 original size:27 final size:25
Alignment explanation
Indices: 58260910--58260960 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
58260900 CCCGTGCACA
*
58260910 AAATCAATATACAACAACCTATTTTCG
1 AAATCAAAATACAA-AACC-ATTTTCG
58260937 AAATCAAAATACAAAACCATTTTC
1 AAATCAAAATACAAAACCATTTTC
58260961 CAGCAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.26
26 4 0.17
27 13 0.57
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (25 bp):
AAATCAAAATACAAAACCATTTTCG
Found at i:58261304 original size:20 final size:20
Alignment explanation
Indices: 58261263--58261305 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
58261253 CAATAAACAT
* *
58261263 TAATATTAAGTAATTATTAA
1 TAATATTAAGCAATTATAAA
58261283 TAATATTAA-CAATTAATAAA
1 TAATATTAAGCAATT-ATAAA
58261303 TAA
1 TAA
58261306 AAAGGGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAATATTAAGCAATTATAAA
Found at i:58262161 original size:162 final size:162
Alignment explanation
Indices: 58261982--58262295 Score: 429
Period size: 162 Copynumber: 1.9 Consensus size: 162
58261972 CTTTTCAATT
* *
58261982 TAGTCCATTGACTGTTTGACTGTACCATGA-GCTGCCACGTGTC-TCTTTTTGGATTATTTATAC
1 TAGTCCATTGACTGTTTGACTGCACCA-GAGGCTGCCACATGTCAT-TTTTTGGATTATTTATAC
** *
58262045 ATTTAGTCCTTTTTATTTTTTATTTGTTTTAATTTAATCCCCAAATCAAC-TTTATTTTAATTAC
64 ATTTAGTCCTTGGTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTA-TTTAATTAC
*
58262109 GAAATTGGCCCAATAA-TTTTTCAAGGTTTATAAAC
128 AAAATTGGCCCAA-AATTTTTTCAAGGTTTATAAAC
* * * *
58262144 TAGTCCTTTGACTGTTTGACTGCACCAGAGGTTGCCACATGTCATTTTTTGGATTATTTCTTCAT
1 TAGTCCATTGACTGTTTGACTGCACCAGAGGCTGCCACATGTCATTTTTTGGATTATTTATACAT
** * *
58262209 TTAGTCCTTGGTATTTTTAATTTGTTTTAATTTAATCCTTAAATCGACTTTTATTTAATTATAAA
66 TTAGTCCTTGGTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACAAA
*
58262274 ATTGGTCCAAAATTTTTTCAAG
131 ATTGGCCCAAAATTTTTTCAAG
58262296 ATTTTCAAAT
Statistics
Matches: 133, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
161 4 0.03
162 124 0.93
163 5 0.04
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.46
Consensus pattern (162 bp):
TAGTCCATTGACTGTTTGACTGCACCAGAGGCTGCCACATGTCATTTTTTGGATTATTTATACAT
TTAGTCCTTGGTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACAAA
ATTGGCCCAAAATTTTTTCAAGGTTTATAAAC
Found at i:58262420 original size:30 final size:30
Alignment explanation
Indices: 58262378--58262469 Score: 102
Period size: 30 Copynumber: 3.1 Consensus size: 30
58262368 CTTTGAAAGC
*
58262378 CCCCTAAA-TTTTCCAAAATTACATTTTGA
1 CCCCAAAACTTTTCCAAAATTACATTTTGA
* *
58262407 CCCCAAAACTTTTCTAAAATTACATTTTGG
1 CCCCAAAACTTTTCCAAAATTACATTTTGA
*
58262437 CACCAAAAC--TTCCAAAAATTACCATTTT-A
1 CCCCAAAACTTTTCC-AAAATTA-CATTTTGA
58262466 CCCC
1 CCCC
58262470 CGAAGCTTCT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 3 0.06
29 17 0.32
30 33 0.62
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.33
Consensus pattern (30 bp):
CCCCAAAACTTTTCCAAAATTACATTTTGA
Found at i:58262483 original size:29 final size:29
Alignment explanation
Indices: 58262451--58262602 Score: 87
Period size: 29 Copynumber: 5.2 Consensus size: 29
58262441 AAAACTTCCA
*
58262451 AAAATTACCATTTTACCCCCGAAGCTTCT
1 AAAATTACCATTTTAACCCCGAAGCTTCT
* ** ** ** *
58262480 AAAATTTCGTTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTTAACCCCGA-AGCTTCT
* * * *
58262510 AAAGTTGCCATTTT-ACCCCGAATCTTTT
1 AAAATTACCATTTTAACCCCGAAGCTTCT
* *
58262538 AAAATT-CCATTTTCAACCCC-AA-TTTCACCG
1 AAAATTACCATTTT-AACCCCGAAGCTT---CT
*
58262568 AAAATTACCATTTTACCCCCGAAGCTTCT
1 AAAATTACCATTTTAACCCCGAAGCTTCT
58262597 AAAATT
1 AAAATT
58262603 CTGTTTTTAA
Statistics
Matches: 89, Mismatches: 25, Indels: 18
0.67 0.19 0.14
Matches are distributed among these distances:
27 9 0.10
28 9 0.10
29 37 0.42
30 23 0.26
31 9 0.10
32 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (29 bp):
AAAATTACCATTTTAACCCCGAAGCTTCT
Found at i:58262521 original size:59 final size:59
Alignment explanation
Indices: 58262451--58262800 Score: 429
Period size: 59 Copynumber: 5.9 Consensus size: 59
58262441 AAAACTTCCA
*
58262451 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTTCGTTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCCGATTTCACCG
* * * * * * *
58262510 AAAGTTGCCATTTTA-CCCCGAATCTTTTAAAATTCCATTTTCAACCCCAATTTCACCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCCGATTTCACCG
* **
58262568 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCTGTTTTTAACCCTAATTTCACCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCCGATTTCACCG
* * *
58262627 AAAATTACCATTTTACCCTCGAAACTTCCAAAATTCCGTTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCCGATTTCACCG
* * * * *
58262686 AAAATTACCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAAACCCCGATTACACC-
1 AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGTTTTT-AACCCCGATTTCACCG
* * * * *
58262745 AAAATTACCATTTTGCCCCCG-AG-TATCCATAAGTCCCGTTTTTCACCCCGATTTCA
1 AAAATTACCATTTTACCCCCGAAGCT-TCTA-AAATTCCGTTTTTAACCCCGATTTCA
58262801 TCATTTATCA
Statistics
Matches: 250, Mismatches: 37, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
57 1 0.00
58 64 0.26
59 171 0.68
60 14 0.06
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCCGATTTCACCG
Found at i:58262659 original size:29 final size:28
Alignment explanation
Indices: 58262627--58262727 Score: 73
Period size: 29 Copynumber: 3.5 Consensus size: 28
58262617 AATTTCACCG
58262627 AAAATTACCATTTTACCCTCGAAACTTCC
1 AAAATT-CCATTTTACCCTCGAAACTTCC
* *
58262656 AAAATTCCGTTTTTAACCC-CG--ATTTCACC
1 AAAATTCC-ATTTT-ACCCTCGAAACTT--CC
* **
58262685 GAAAATTACCATTTTACCCTCGAATCTTTT
1 -AAAATT-CCATTTTACCCTCGAAACTTCC
58262715 AAAATTCCATTTT
1 AAAATTCCATTTT
58262728 TAAACCCCGA
Statistics
Matches: 56, Mismatches: 7, Indels: 19
0.68 0.09 0.23
Matches are distributed among these distances:
27 3 0.05
28 9 0.16
29 24 0.43
30 16 0.29
31 2 0.04
32 2 0.04
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (28 bp):
AAAATTCCATTTTACCCTCGAAACTTCC
Found at i:58265262 original size:17 final size:18
Alignment explanation
Indices: 58265222--58265260 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
58265212 ATTGTTTCTC
58265222 AAAATACTTTTAGAATAA
1 AAAATACTTTTAGAATAA
58265240 AAAATACTTTT-GAAATAA
1 AAAATACTTTTAG-AATAA
58265258 AAA
1 AAA
58265261 TATTACTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAATACTTTTAGAATAA
Found at i:58285746 original size:256 final size:256
Alignment explanation
Indices: 58285291--58285804 Score: 1028
Period size: 256 Copynumber: 2.0 Consensus size: 256
58285281 AATCGTGAGT
58285291 CTCCAGCCTACAACAGTAAAGAAATTGATAACTTAAGATTTTACAAACCAACATCTCAGTATGCA
1 CTCCAGCCTACAACAGTAAAGAAATTGATAACTTAAGATTTTACAAACCAACATCTCAGTATGCA
58285356 TCATGTTAAAATTCAGATAAACTATCTACAGAATAAATAAAACAATGGAAGATGCAGAATCTAAA
66 TCATGTTAAAATTCAGATAAACTATCTACAGAATAAATAAAACAATGGAAGATGCAGAATCTAAA
58285421 AGATGGCTTAGAACATACGGGACATTTTTAACATGGCTACTAAAAGATTAAAATTATTTATCCAA
131 AGATGGCTTAGAACATACGGGACATTTTTAACATGGCTACTAAAAGATTAAAATTATTTATCCAA
58285486 TGAAAACAATGTATGCTACCAAATCACAACCAAATAAAAGGACATCACATAGTTGAAACCA
196 TGAAAACAATGTATGCTACCAAATCACAACCAAATAAAAGGACATCACATAGTTGAAACCA
58285547 CTCCAGCCTACAACAGTAAAGAAATTGATAACTTAAGATTTTACAAACCAACATCTCAGTATGCA
1 CTCCAGCCTACAACAGTAAAGAAATTGATAACTTAAGATTTTACAAACCAACATCTCAGTATGCA
58285612 TCATGTTAAAATTCAGATAAACTATCTACAGAATAAATAAAACAATGGAAGATGCAGAATCTAAA
66 TCATGTTAAAATTCAGATAAACTATCTACAGAATAAATAAAACAATGGAAGATGCAGAATCTAAA
58285677 AGATGGCTTAGAACATACGGGACATTTTTAACATGGCTACTAAAAGATTAAAATTATTTATCCAA
131 AGATGGCTTAGAACATACGGGACATTTTTAACATGGCTACTAAAAGATTAAAATTATTTATCCAA
58285742 TGAAAACAATGTATGCTACCAAATCACAACCAAATAAAAGGACATCACATAGTTGAAACCA
196 TGAAAACAATGTATGCTACCAAATCACAACCAAATAAAAGGACATCACATAGTTGAAACCA
58285803 CT
1 CT
58285805 AGATTATTGT
Statistics
Matches: 258, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
256 258 1.00
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (256 bp):
CTCCAGCCTACAACAGTAAAGAAATTGATAACTTAAGATTTTACAAACCAACATCTCAGTATGCA
TCATGTTAAAATTCAGATAAACTATCTACAGAATAAATAAAACAATGGAAGATGCAGAATCTAAA
AGATGGCTTAGAACATACGGGACATTTTTAACATGGCTACTAAAAGATTAAAATTATTTATCCAA
TGAAAACAATGTATGCTACCAAATCACAACCAAATAAAAGGACATCACATAGTTGAAACCA
Found at i:58290217 original size:36 final size:36
Alignment explanation
Indices: 58290133--58290218 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 36
58290123 TTGGTTAACT
* * * *
58290133 CTCTATAATTTGGAGAACTCACCAATATTGACAAACT
1 CTCTA-AAATTGGCGAACACACCAATATTGACAAACC
* *
58290170 CTCCT-AGATTGGCGAACACACCAATATTGGCAAACC
1 CT-CTAAAATTGGCGAACACACCAATATTGACAAACC
58290206 CTCTAAAATTGGC
1 CTCTAAAATTGGC
58290219 TCAATTTTCG
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
35 2 0.05
36 34 0.85
37 2 0.05
38 2 0.05
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (36 bp):
CTCTAAAATTGGCGAACACACCAATATTGACAAACC
Found at i:58290411 original size:8 final size:9
Alignment explanation
Indices: 58290390--58290416 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
58290380 AATTTAAATT
58290390 TTTTTTCGA
1 TTTTTTCGA
58290399 TTTTTTCGA
1 TTTTTTCGA
58290408 TTTTTTCGA
1 TTTTTTCGA
58290417 ATCGAATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (9 bp):
TTTTTTCGA
Found at i:58291677 original size:18 final size:18
Alignment explanation
Indices: 58291634--58291697 Score: 51
Period size: 18 Copynumber: 3.5 Consensus size: 18
58291624 ATGCAGCATG
*
58291634 CAAAGTTGGCGAACTCTCT
1 CAAA-TTGGCGAACTCACT
*
58291653 -ATGATTGGCGAACTCACT
1 CA-AATTGGCGAACTCACT
* *
58291671 CAAATTGACGAACACAC-
1 CAAATTGGCGAACTCACT
58291688 CAATATTGGC
1 CAA-ATTGGC
58291698 AAGCTACTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
17 3 0.08
18 31 0.86
19 2 0.06
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (18 bp):
CAAATTGGCGAACTCACT
Found at i:58291937 original size:24 final size:24
Alignment explanation
Indices: 58291888--58291939 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
58291878 GAGATTTAAA
* * *
58291888 ATTTATTAGCATAATATGTCTGTT
1 ATTTATTAGCATAAAATATCTATT
58291912 ATTTATTAGCATAAAATCAT-TATT
1 ATTTATTAGCATAAAAT-ATCTATT
58291936 ATTT
1 ATTT
58291940 CTAGAAGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTATTAGCATAAAATATCTATT
Found at i:58295237 original size:21 final size:21
Alignment explanation
Indices: 58295185--58295238 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
58295175 GTCCTCATCC
58295185 GAGTTGGACTGACTACCCTTG
1 GAGTTGGACTGACTACCCTTG
*
58295206 GAGATGGACTGACT-CCTCTTG
1 GAGTTGGACTGACTACC-CTTG
* *
58295227 GCGTTGAACTGA
1 GAGTTGGACTGA
58295239 TTACTGAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (21 bp):
GAGTTGGACTGACTACCCTTG
Found at i:58295310 original size:105 final size:105
Alignment explanation
Indices: 58295128--58296168 Score: 861
Period size: 105 Copynumber: 9.8 Consensus size: 105
58295118 TCCGTGATAA
* **
58295128 AACTGATAACTGGAGTTGAGGAATGGGATTGACTCAATGAGGTGGATGTCCTCATCCGAGTTGGA
1 AACTGATAACTGAAGTTGAGCTATGGGATTGACTCAATGAGGTGGATGTCCTCATCCGAGTTGGA
* *
58295193 CTGACTACCCTTGGAGATGGACTGACTCCTCTTGGCGTTG
66 CTGACTACCCTTGGAGTTGGACTGACTCCTCTTGGAGTTG
* *
58295233 AACTGATTACTGAAGTTGAGCTATGGGATTGACTCAATGAGGTGGATGTCCTCATCTGAGTTGGA
1 AACTGATAACTGAAGTTGAGCTATGGGATTGACTCAATGAGGTGGATGTCCTCATCCGAGTTGGA
* *
58295298 CTAACTACCCTTGGAGTTGGACTGACTCCTATTGGAGTTG
66 CTGACTACCCTTGGAGTTGGACTGACTCCTCTTGGAGTTG
*
58295338 AACTGATAACTGAAGTTGAGCTATGGGATTGACTCGATGAGGTGGATGTCCTCATCCGAGTTGGA
1 AACTGATAACTGAAGTTGAGCTATGGGATTGACTCAATGAGGTGGATGTCCTCATCCGAGTTGGA
* ** *
58295403 CTGACT-CCTCTTGGAGTTGAACTGA-T-AAC-TGAAGTTG
66 CTGACTACC-CTTGGAGTTGGACTGACTCCTCTTGGAGTTG
* * * * * * * * *
58295440 AGCT-ATGGGATTGACTAGATGAG--GT-GGATAT-CCTC-ATCCTAGTTGGACTAACTACC-C-
1 AACTGAT--AACTGA--AGTTGAGCTATGGGAT-TGACTCAAT--GAGGTGGA-T--GT-CCTCA
** * * *
58295497 TTGGAGTTGGACTGACT-CCTCTTGGAGTTGAAATGA-TAACCT-TTAGAGTTG
55 TCCGAGTTGGACTGACTACC-CTTGGAGTTGGACTGACT--CCTCTTGGAGTTG
* * ** * * * * * *
58295548 GACTTACTCCTCTTGGAGTTGAACTGA-GAACTGAAGTTGAGCTATCGGATTGACCCGAT-GAGG
1 AACTGA-T-AAC-TGAAGTTGAGCT-ATG----GGA-TTGA-C--TC--AATGA---GGTGGATG
*
58295611 TTCC-CATCCGAGTTGGACTGACTACCCTTGTAGTTGGACTGACTCCTCTTGGAGTTG
49 -TCCTCATCCGAGTTGGACTGACTACCCTTGGAGTTGGACTGACTCCTCTTGGAGTTG
* * * * * * *
58295668 AACTAATAACTGAAGTTGAGCTATGGGATTGACTCGATAAGCTGGACGTCCTCATTCGAATTGGA
1 AACTGATAACTGAAGTTGAGCTATGGGATTGACTCAATGAGGTGGATGTCCTCATCCGAGTTGGA
* * * *
58295733 CTGACTACCCTTGAAGTTGGACCGACTCCACTTGGGGTTG
66 CTGACTACCCTTGGAGTTGGACTGACTCCTCTTGGAGTTG
* * * *
58295773 AAATGAGAACTGAAGTTGAGCTATGGGATTGACTTGAA-GATGTGGATGTCCTCATCCGAGTTGG
1 AACTGATAACTGAAGTTGAGCTATGGGATTGAC-TCAATGAGGTGGATGTCCTCATCCGAGTTGG
* * *
58295837 ACTCACTACCCTTGGAGTTGGAATGACTCCTGTTGGAGTTG
65 ACTGACTACCCTTGGAGTTGGACTGACTCCTCTTGGAGTTG
* **
58295878 AACTGATGACTGAAGTTGAGCTATAAGATTGACTCAATGAGGTGGATGTCCTCATCCGAGTTGGA
1 AACTGATAACTGAAGTTGAGCTATGGGATTGACTCAATGAGGTGGATGTCCTCATCCGAGTTGGA
*
58295943 CTCACTACCCTTGGAGTTGGACTGACTCCTCTTGGAGTTG
66 CTGACTACCCTTGGAGTTGGACTGACTCCTCTTGGAGTTG
* * * * * *
58295983 -A--GCTAACCGAAGTTGAGCTATGGGCTTGACTCAATGTGGTGGATGTCCTCATTCTAGTTGGA
1 AACTGATAACTGAAGTTGAGCTATGGGATTGACTCAATGAGGTGGATGTCCTCATCCGAGTTGGA
* * * * **
58296045 CTGATTTCCCTTGGAGTAGGACTGAC-CCCCGTTAAAGTTG
66 CTGACTACCCTTGGAGTTGGACTGACTCCTC-TTGGAGTTG
* * * * ** * *
58296085 AACTAAGAACTGGAGCTGAGCTATGGGATTGACTTGATAAGGTGGATGCCCTCATCCGAGTTGGA
1 AACTGATAACTGAAGTTGAGCTATGGGATTGACTCAATGAGGTGGATGTCCTCATCCGAGTTGGA
58296150 CTGACT-CCTCTTGGAGTTG
66 CTGACTACC-CTTGGAGTTG
58296169 AACTTATACC
Statistics
Matches: 749, Mismatches: 134, Indels: 106
0.76 0.14 0.11
Matches are distributed among these distances:
101 7 0.01
102 98 0.13
103 13 0.02
104 15 0.02
105 505 0.67
106 4 0.01
107 4 0.01
108 13 0.02
109 3 0.00
110 3 0.00
111 1 0.00
112 4 0.01
113 2 0.00
115 3 0.00
116 2 0.00
117 12 0.02
118 1 0.00
119 9 0.01
120 42 0.06
121 3 0.00
122 3 0.00
123 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (105 bp):
AACTGATAACTGAAGTTGAGCTATGGGATTGACTCAATGAGGTGGATGTCCTCATCCGAGTTGGA
CTGACTACCCTTGGAGTTGGACTGACTCCTCTTGGAGTTG
Found at i:58295314 original size:21 final size:21
Alignment explanation
Indices: 58295290--58295337 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
58295280 GTCCTCATCT
*
58295290 GAGTTGGACTAACTACC-CTTG
1 GAGTTGGACTAACT-CCTATTG
*
58295311 GAGTTGGACTGACTCCTATTG
1 GAGTTGGACTAACTCCTATTG
58295332 GAGTTG
1 GAGTTG
58295338 AACTGATAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (21 bp):
GAGTTGGACTAACTCCTATTG
Found at i:58295452 original size:84 final size:84
Alignment explanation
Indices: 58295311--58295511 Score: 332
Period size: 84 Copynumber: 2.4 Consensus size: 84
58295301 ACTACCCTTG
* *
58295311 GAGTTGGACTGACTCCTATTGGAGTTGAACTGATAACTGAAGTTGAGCTATGGGATTGACTCGAT
1 GAGTTGGACTGACTCCTCTTGGAGTTGAACTGATAACTGAAGTTGAGCTATGGGATTGACTAGAT
*
58295376 GAGGTGGATGTCCTCATCC
66 GAGGTGGATATCCTCATCC
58295395 GAGTTGGACTGACTCCTCTTGGAGTTGAACTGATAACTGAAGTTGAGCTATGGGATTGACTAGAT
1 GAGTTGGACTGACTCCTCTTGGAGTTGAACTGATAACTGAAGTTGAGCTATGGGATTGACTAGAT
58295460 GAGGTGGATATCCTCATCC
66 GAGGTGGATATCCTCATCC
* * *
58295479 TAGTTGGACTAACTACC-CTTGGAGTTGGACTGA
1 GAGTTGGACTGACT-CCTCTTGGAGTTGAACTGA
58295512 CTCCTCTTGG
Statistics
Matches: 110, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
84 108 0.98
85 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (84 bp):
GAGTTGGACTGACTCCTCTTGGAGTTGAACTGATAACTGAAGTTGAGCTATGGGATTGACTAGAT
GAGGTGGATATCCTCATCC
Found at i:58295504 original size:21 final size:21
Alignment explanation
Indices: 58295480--58295568 Score: 76
Period size: 21 Copynumber: 4.2 Consensus size: 21
58295470 TCCTCATCCT
58295480 AGTTGGACTAACTACC-CTTGG
1 AGTTGGACTAACT-CCTCTTGG
*
58295501 AGTTGGACTGACTCCTCTTGG
1 AGTTGGACTAACTCCTCTTGG
* * * *
58295522 AGTTGAAATGATA-ACCT-TTAG
1 AGTTGGACT-A-ACTCCTCTTGG
*
58295543 AGTTGGACTTACTCCTCTTGG
1 AGTTGGACTAACTCCTCTTGG
58295564 AGTTG
1 AGTTG
58295569 AACTGAGAAC
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
19 1 0.02
20 5 0.10
21 42 0.81
22 3 0.06
23 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (21 bp):
AGTTGGACTAACTCCTCTTGG
Found at i:58295600 original size:147 final size:141
Alignment explanation
Indices: 58295395--58295669 Score: 424
Period size: 147 Copynumber: 1.9 Consensus size: 141
58295385 GTCCTCATCC
* * *
58295395 GAGTTGGACTGACTCCTCTTGGAGTTGAACTGATAACTGAAGTTGAGCTATGGGATTGACTAGAT
1 GAGTTGGACTGACTCCTCTTGGAGTTGAACTGAGAACTGAAGTTGAGCTATCGGATTGACCAGAT
*
58295460 GAGGTGGATATCCTCATCCTAGTTGGACTAACTACCCTTGGAGTTGGACTGACTCCTCTTGGAGT
66 GA---GG-T-TCC-CATCCGAGTTGGACTAACTACCCTTGGAGTTGGACTGACTCCTCTTGGAGT
58295525 TGAAATGATAACCTTTA
125 TGAAATGATAACCTTTA
* *
58295542 GAGTTGGACTTACTCCTCTTGGAGTTGAACTGAGAACTGAAGTTGAGCTATCGGATTGACCCGAT
1 GAGTTGGACTGACTCCTCTTGGAGTTGAACTGAGAACTGAAGTTGAGCTATCGGATTGACCAGAT
* *
58295607 GAGGTTCCCATCCGAGTTGGACTGACTACCCTTGTAGTTGGACTGACTCCTCTTGGAGTTGAA
66 GAGGTTCCCATCCGAGTTGGACTAACTACCCTTGGAGTTGGACTGACTCCTCTTGGAGTTGAA
58295670 CTAATAACTG
Statistics
Matches: 120, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
141 52 0.43
142 3 0.03
143 1 0.01
144 2 0.02
147 62 0.52
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (141 bp):
GAGTTGGACTGACTCCTCTTGGAGTTGAACTGAGAACTGAAGTTGAGCTATCGGATTGACCAGAT
GAGGTTCCCATCCGAGTTGGACTAACTACCCTTGGAGTTGGACTGACTCCTCTTGGAGTTGAAAT
GATAACCTTTA
Found at i:58295647 original size:21 final size:21
Alignment explanation
Indices: 58295620--58295667 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
58295610 GTTCCCATCC
58295620 GAGTTGGACTGACTACC-CTTG
1 GAGTTGGACTGACT-CCTCTTG
*
58295641 TAGTTGGACTGACTCCTCTTG
1 GAGTTGGACTGACTCCTCTTG
58295662 GAGTTG
1 GAGTTG
58295668 AACTAATAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (21 bp):
GAGTTGGACTGACTCCTCTTG
Found at i:58295959 original size:21 final size:21
Alignment explanation
Indices: 58295935--58295982 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
58295925 GTCCTCATCC
58295935 GAGTTGGACTCACTACC-CTTG
1 GAGTTGGACTCACT-CCTCTTG
*
58295956 GAGTTGGACTGACTCCTCTTG
1 GAGTTGGACTCACTCCTCTTG
58295977 GAGTTG
1 GAGTTG
58295983 AGCTAACCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.17, C:0.23, G:0.29, T:0.31
Consensus pattern (21 bp):
GAGTTGGACTCACTCCTCTTG
Found at i:58296107 original size:207 final size:209
Alignment explanation
Indices: 58295141--58296168 Score: 606
Period size: 207 Copynumber: 4.8 Consensus size: 209
58295131 TGATAACTGG
** *
58295141 AGTTGAGGAATGGGATTGAC-TCAATGAGGTGGATGTCCTCATCCGAGTTGGACTGACTACCCTT
1 AGTTGAGCTATGGGATTGACTTCAA-GATGTGGATGTCCTCATCCGAGTTGGACTGACTACCCTT
* * * * ** *
58295205 GGAGATGGACTGACTCCTC-TTGGCGTTGAACTGATTACTGAAGTTGAGCTATGGGATTGACTCA
65 GGAGTTGGACTGAC-CCCCGTTGGAGTTGAACTAAGAACTGAAGTTGAGCTATGGGATTGACTCG
* * * *
58295269 ATGAGGTGGATGTCCTCATCTGAGTTGGACTAACTACCCTTGGAGTTGGACTGACTCCTA-TTGG
129 ATAAGGTGGATGTCCTCATCCGAGTTGGACTGACTACCCTTGGAGTTGGACCGACTCC-ACTTGG
* *
58295333 AGTTGAACTGATAACTGA
193 AGTTGAA-TGAGAACCGA
* *
58295351 AGTTGAGCTATGGGATTGAC-TCGATGAGGTGGATGTCCTCATCCGAGTTGGACTGACT-CCTCT
1 AGTTGAGCTATGGGATTGACTTC-AAGATGTGGATGTCCTCATCCGAGTTGGACTGACTACC-CT
* *
58295414 TGGAGTT-GA---A----C--T-GA--T-AACT--GAAGTTG-A---G--CTATGGGATTGACTA
64 TGGAGTTGGACTGACCCCCGTTGGAGTTGAACTAAGAA-CTGAAGTTGAGCTATGGGATTGACTC
* * * * * *
58295457 GATGAGGTGGATATCCTCATCCTAGTTGGACTAACTACCCTTGGAGTTGGACTGACTCCTCTTGG
128 GATAAGGTGGATGTCCTCATCCGAGTTGGACTGACTACCCTTGGAGTTGGACCGACTCCACTTGG
* *
58295522 AGTTGAAATGATAACCTTTA
193 AGTTG-AATGAGAACC--GA
* ** * * *
58295542 GAGTTG-GACTTACTCCTCTTGGAGTTGAACTGAGAACTGAAGTTGA-G--CT-ATCGGA-TT-G
1 -AGTTGAG-C-TA------TGGGA-TTG-ACT-TCAA--GATGTGGATGTCCTCATCCGAGTTGG
* * ** *
58295600 ACCCGATGAGGTTCCCATCCGAGTTGGACTGACTACCCTTGTAGTTGGACTGACTCCTCTTGGAG
52 A--C--TGA-CTACCC-TTGGAGTTGGACTGAC--CCC----CGTTGGA--G-------TT-GA-
* * * * *
58295665 TTGAACTAATAACTGAAGTTGAGCTATGGGATTGACTCGATAAGCTGGACGTCCTCATTCGAATT
94 ---A-CTAAGAACTGAAGTTGAGCTATGGGATTGACTCGATAAGGTGGATGTCCTCATCCGAGTT
* * *
58295730 GGACTGACTACCCTTGAAGTTGGACCGACTCCACTTGGGGTTGAAATGAGAACTGA
155 GGACTGACTACCCTTGGAGTTGGACCGACTCCACTTGGAGTTG-AATGAGAACCGA
* *
58295786 AGTTGAGCTATGGGATTGACTTGAAGATGTGGATGTCCTCATCCGAGTTGGACTCACTACCCTTG
1 AGTTGAGCTATGGGATTGACTTCAAGATGTGGATGTCCTCATCCGAGTTGGACTGACTACCCTTG
* * * * ** *
58295851 GAGTTGGAATGACTCCTGTTGGAGTTGAACTGATG-ACTGAAGTTGAGCTATAAGATTGACTCAA
66 GAGTTGGACTGACCCCCGTTGGAGTTGAACT-AAGAACTGAAGTTGAGCTATGGGATTGACTCGA
* * * *
58295915 TGAGGTGGATGTCCTCATCCGAGTTGGACTCACTACCCTTGGAGTTGGACTGACTCCTCTTGGAG
130 TAAGGTGGATGTCCTCATCCGAGTTGGACTGACTACCCTTGGAGTTGGACCGACTCCACTTGGAG
**
58295980 TTG-A-GCTAACCGA
195 TTGAATGAGAACCGA
* * * * *
58295993 AGTTGAGCTATGGGCTTGAC-TCAATG-TGGTGGATGTCCTCATTCTAGTTGGACTGATTTCCCT
1 AGTTGAGCTATGGGATTGACTTCAA-GAT-GTGGATGTCCTCATCCGAGTTGGACTGACTACCCT
* ** * * *
58296056 TGGAGTAGGACTGACCCCCGTTAAAGTTGAACTAAGAACTGGAGCTGAGCTATGGGATTGACTTG
64 TGGAGTTGGACTGACCCCCGTTGGAGTTGAACTAAGAACTGAAGTTGAGCTATGGGATTGACTCG
*
58296121 ATAAGGTGGATGCCCTCATCCGAGTTGGACTGACT-CCTCTTGGAGTTG
129 ATAAGGTGGATGTCCTCATCCGAGTTGGACTGACTACC-CTTGGAGTTG
58296169 AACTTATACC
Statistics
Matches: 635, Mismatches: 99, Indels: 171
0.70 0.11 0.19
Matches are distributed among these distances:
189 85 0.13
190 2 0.00
191 3 0.00
192 6 0.01
193 2 0.00
194 2 0.00
195 2 0.00
196 4 0.01
197 1 0.00
198 2 0.00
199 7 0.01
200 10 0.02
201 5 0.01
202 4 0.01
203 3 0.00
204 14 0.02
205 2 0.00
206 9 0.01
207 147 0.23
208 2 0.00
209 4 0.01
210 147 0.23
211 3 0.00
215 2 0.00
216 2 0.00
220 1 0.00
221 2 0.00
223 1 0.00
225 6 0.01
229 2 0.00
231 19 0.03
232 6 0.01
233 5 0.01
234 6 0.01
235 9 0.01
236 6 0.01
237 2 0.00
238 1 0.00
239 2 0.00
240 2 0.00
241 3 0.00
242 2 0.00
243 6 0.01
244 3 0.00
246 81 0.13
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (209 bp):
AGTTGAGCTATGGGATTGACTTCAAGATGTGGATGTCCTCATCCGAGTTGGACTGACTACCCTTG
GAGTTGGACTGACCCCCGTTGGAGTTGAACTAAGAACTGAAGTTGAGCTATGGGATTGACTCGAT
AAGGTGGATGTCCTCATCCGAGTTGGACTGACTACCCTTGGAGTTGGACCGACTCCACTTGGAGT
TGAATGAGAACCGA
Done.