Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 110 of 356
Found at i:34914838 original size:27 final size:27
Alignment explanation
Indices: 34914808--34914894 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
34914798 GGGCAAAATG
* * *
34914808 GTAATTTTACCCTACAAGGGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
34914835 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
34914862 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
34914889 GTAATT
1 GTAATT
34914895 TTACAAGCCT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:34914910 original size:27 final size:27
Alignment explanation
Indices: 34914879--34914952 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 27
34914869 TACCCTACAG
* *
34914879 GGGTATTTCGGTAATTTTACAAGCC-T
1 GGGTATTTCGGTAATTTTACAAACCAA
34914905 GAGGTATTTCGGTAATTTTACAAACCAA
1 G-GGTATTTCGGTAATTTTACAAACCAA
*
34914933 GGGTATTTTGGTAATTTTAC
1 GGGTATTTCGGTAATTTTAC
34914953 TAATCGAGGG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.02
27 41 0.95
28 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAACCAA
Found at i:34914962 original size:27 final size:26
Alignment explanation
Indices: 34914879--34914964 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 26
34914869 TACCCTACAG
34914879 GGGTATTTCGGTAATTTTACAAGCCTGA
1 GGGTATTTCGGTAATTTTACAA-CC-GA
*
34914907 -GGTATTTCGGTAATTTTACAAACCAA
1 GGGTATTTCGGTAATTTTAC-AACCGA
* *
34914933 GGGTATTTTGGTAATTTTACTAATCGA
1 GGGTATTTCGGTAATTTTAC-AACCGA
34914960 GGGTA
1 GGGTA
34914965 AAACGGTAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.02
27 48 0.94
28 2 0.04
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTTACAACCGA
Found at i:34915056 original size:27 final size:27
Alignment explanation
Indices: 34914954--34915045 Score: 157
Period size: 27 Copynumber: 3.4 Consensus size: 27
34914944 TAATTTTACT
34914954 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
34914981 AATTGAGGGTAAAACTATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
34915008 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
34915035 AATCGAGGGTA
1 AATCGAGGGTA
34915046 CTTTGGTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:34915070 original size:54 final size:54
Alignment explanation
Indices: 34914932--34915070 Score: 163
Period size: 54 Copynumber: 2.6 Consensus size: 54
34914922 TTACAAACCA
* * *
34914932 AGGGTATTTTGGTAATTTTACTAATCGAGGGTAAAACGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
** * * **
34914986 AGGGTAAAACT-ATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGT-AATTTGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
* *
34915040 AGGGTACTTTGGTAATTTTACAAATAGAGGG
1 AGGGTAATTTGGTAATTTTACAAATCGAGGG
34915071 CATTTCAGTA
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
53 2 0.03
54 62 0.94
55 2 0.03
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (54 bp):
AGGGTAATTTGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCG
Found at i:34922167 original size:20 final size:20
Alignment explanation
Indices: 34922142--34922187 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
34922132 ATTGGATCAT
34922142 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
34922162 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
34922181 GCCCATA
1 GCCCATA
34922188 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:34922196 original size:19 final size:20
Alignment explanation
Indices: 34922154--34922197 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
34922144 CCATATTAAC
** *
34922154 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
34922174 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
34922193 ACAGT
1 ACAGT
34922198 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:34925294 original size:16 final size:15
Alignment explanation
Indices: 34925272--34925313 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
34925262 ATATTAGGGA
34925272 TTAAATTGAGAAAAG
1 TTAAATTGAGAAAAG
*
34925287 TGTAAATTGAG--GAG
1 T-TAAATTGAGAAAAG
34925301 TTAAATTGAGAAA
1 TTAAATTGAGAAA
34925314 TAAATAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
13 9 0.41
14 3 0.14
15 1 0.05
16 9 0.41
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.29
Consensus pattern (15 bp):
TTAAATTGAGAAAAG
Found at i:34925928 original size:47 final size:47
Alignment explanation
Indices: 34925859--34925988 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
34925849 GTGCGAATAA
* * * * *
34925859 TACCTTGATTTGGCTACAGGCCATGATATAGGTA-TTTTGAGAGGAGC
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAG-GAGAAGC
* *
34925906 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAGGAGAAGC
*
34925953 TACCTTGATTTGGCTACGGGCAATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
34925989 TATCGATTGT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 71 0.96
48 3 0.04
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAGGAGAAGC
Found at i:34933551 original size:30 final size:30
Alignment explanation
Indices: 34933515--34933582 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
34933505 CACACGGGTA
*
34933515 GACACACGTGCGTTTGTCTAGGCC-CTGTGT
1 GACACACGTGCGTGTGTCTAGGCCGC-GTGT
34933545 GACACACGTGCGTGTGTCTAGGCCGCGTGT
1 GACACACGTGCGTGTGTCTAGGCCGCGTGT
34933575 GACACACG
1 GACACACG
34933583 GATTGCCCCC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 35 0.97
31 1 0.03
ACGTcount: A:0.16, C:0.28, G:0.32, T:0.24
Consensus pattern (30 bp):
GACACACGTGCGTGTGTCTAGGCCGCGTGT
Found at i:34935751 original size:10 final size:10
Alignment explanation
Indices: 34935736--34935767 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
34935726 TGAATTCATG
34935736 TGTTTTATGA
1 TGTTTTATGA
34935746 TGTTTTATGA
1 TGTTTTATGA
*
34935756 TGTTTGATGA
1 TGTTTTATGA
34935766 TG
1 TG
34935768 AATTATGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.25, T:0.56
Consensus pattern (10 bp):
TGTTTTATGA
Found at i:34935773 original size:20 final size:20
Alignment explanation
Indices: 34935723--34935775 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
34935713 AAGTTTCCAT
*
34935723 TGATGAATTCATG-TGTTTTA
1 TGATGAATT-ATGATGTTTGA
**
34935743 TGATGTTTTATGATGTTTGA
1 TGATGAATTATGATGTTTGA
34935763 TGATGAATTATGA
1 TGATGAATTATGA
34935776 AAGCTTGGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (20 bp):
TGATGAATTATGATGTTTGA
Found at i:34937290 original size:19 final size:19
Alignment explanation
Indices: 34937254--34937292 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
34937244 TTTTCATCAT
* *
34937254 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
34937273 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
34937292 A
1 A
34937293 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:34937797 original size:55 final size:56
Alignment explanation
Indices: 34937732--34937846 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
34937722 AGCATGGCTG
* *
34937732 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
34937788 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
34937843 CCAG
1 CCAG
34937847 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:34937809 original size:27 final size:27
Alignment explanation
Indices: 34937757--34937846 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
34937747 GTGACAGAGT
34937757 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
34937786 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
34937813 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
34937841 CACCAG
1 CACCAG
34937847 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:34937999 original size:28 final size:28
Alignment explanation
Indices: 34937952--34938016 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
34937942 AAATTAACTC
*
34937952 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
34937980 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
34938008 TAGGGGTAT
1 TAGGGGTAT
34938017 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:34944381 original size:20 final size:20
Alignment explanation
Indices: 34944356--34944393 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
34944346 TTATGCCTTT
34944356 CTATATTTCCATCAGCAACG
1 CTATATTTCCATCAGCAACG
34944376 CTATATTTCCATCAGCAA
1 CTATATTTCCATCAGCAA
34944394 TGTGTTTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.32
Consensus pattern (20 bp):
CTATATTTCCATCAGCAACG
Found at i:34945055 original size:12 final size:11
Alignment explanation
Indices: 34945033--34945062 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
34945023 TAGCTCAAGG
34945033 TTTCTTTAGTT
1 TTTCTTTAGTT
34945044 TTTCTCTTAGTT
1 TTTCT-TTAGTT
34945056 TTTCTTT
1 TTTCTTT
34945063 TTCTTCTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.07, C:0.13, G:0.07, T:0.73
Consensus pattern (11 bp):
TTTCTTTAGTT
Found at i:34950876 original size:29 final size:29
Alignment explanation
Indices: 34950839--34950902 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
34950829 ACTGCAGGGG
* *
34950839 ACACACGGTCATTCACCTAGTCGTGTGTC
1 ACACACGGTCACTCACCTAGCCGTGTGTC
*
34950868 ACACACGGTCACTCACCTGGCCGTGTGTC
1 ACACACGGTCACTCACCTAGCCGTGTGTC
34950897 ACACAC
1 ACACAC
34950903 TGTTGAGACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.22
Consensus pattern (29 bp):
ACACACGGTCACTCACCTAGCCGTGTGTC
Found at i:34952603 original size:31 final size:31
Alignment explanation
Indices: 34952565--34952651 Score: 156
Period size: 31 Copynumber: 2.8 Consensus size: 31
34952555 TCAATCTCAA
34952565 CATATCACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
34952596 CATATCACTGGGCCGAAGCTTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
34952627 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
34952652 TGTAACAATA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:34952884 original size:25 final size:25
Alignment explanation
Indices: 34952856--34952915 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
34952846 CTGGAGGCCT
34952856 AGCCTATTTTAAT-AACTGGGGCAAA
1 AGCCT-TTTTAATAAACTGGGGCAAA
*
34952881 AGCCCTTTTTGATAAACTGGGGCAAA
1 AG-CCTTTTTAATAAACTGGGGCAAA
*
34952907 AGCCCTTTT
1 AGCCTTTTT
34952916 CGGTAAACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 14 0.45
26 17 0.55
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (25 bp):
AGCCTTTTTAATAAACTGGGGCAAA
Found at i:34952953 original size:24 final size:26
Alignment explanation
Indices: 34952869--34952964 Score: 126
Period size: 26 Copynumber: 3.8 Consensus size: 26
34952859 CTATTTTAAT
* * *
34952869 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTAGGGCAAAAGCCCTTTTCGGTA
*
34952895 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAAGCCCTTTTCGGTA
34952921 AACTAGGGC-AAAGCCCTTTTCGGT-
1 AACTAGGGCAAAAGCCCTTTTCGGTA
*
34952945 AACTAGGGC-ATAGCCCTTTT
1 AACTAGGGCAAAAGCCCTTTT
34952965 GCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
24 19 0.29
25 15 0.23
26 32 0.48
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTAGGGCAAAAGCCCTTTTCGGTA
Found at i:34953124 original size:25 final size:25
Alignment explanation
Indices: 34953096--34953143 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34953086 ATAATTAAAC
* **
34953096 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
34953121 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
34953144 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:34960678 original size:28 final size:28
Alignment explanation
Indices: 34960638--34960699 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
34960628 CTAAATGAAT
34960638 AACTTCATATATGCACATTCTCATAATC
1 AACTTCATATATGCACATTCTCATAATC
34960666 AACTTCATATATGCACATTCTCATAATC
1 AACTTCATATATGCACATTCTCATAATC
34960694 ATACTT
1 A-ACTT
34960700 ACTTCACGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 29 0.88
29 4 0.12
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.37
Consensus pattern (28 bp):
AACTTCATATATGCACATTCTCATAATC
Found at i:34960980 original size:40 final size:40
Alignment explanation
Indices: 34960903--34961163 Score: 305
Period size: 40 Copynumber: 6.5 Consensus size: 40
34960893 ACCCAAGTAT
* *
34960903 CTTCGGGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
*
34960942 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
34960982 CTTCGGGACTTAACCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
34961022 CTTCGGGTCTTAGCTCGGATATAGTAACTCGGACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
34961062 CTTCGGGTCTTAGCCCAGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
34961102 CTTCGGGACTTAGTCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
34961142 CTTTGGGACTTTGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
34961164 CATTCGAATA
Statistics
Matches: 191, Mismatches: 26, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 11 0.06
40 177 0.93
41 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:34961019 original size:80 final size:80
Alignment explanation
Indices: 34960903--34961163 Score: 337
Period size: 80 Copynumber: 3.3 Consensus size: 80
34960893 ACCCAAGTAT
* * *
34960903 CTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
34960967 CACTAGCATAAATGC
66 CACTAGCACAAATGC
* * *
34960982 CTTCGGGACTTAACCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTCTTAGCTCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
* * *
34961046 TAACTCGGACAAATGC
65 TCACTAGCACAAATGC
* * * * *
34961062 CTTCGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGTCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
34961127 CACTAGCACAAAAGC
66 CACTAGCACAAATGC
* *
34961142 CTTTGGGACTTTGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
34961164 CATTCGAATA
Statistics
Matches: 153, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
79 12 0.08
80 140 0.92
81 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:34961133 original size:120 final size:119
Alignment explanation
Indices: 34960903--34961163 Score: 355
Period size: 120 Copynumber: 2.2 Consensus size: 119
34960893 ACCCAAGTAT
*
34960903 CTTCGGGAT-TTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGG-TCTTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAGT
* * *
34960967 CACTAGCATAAATGCCTTCGGGACTTAACCCGGATATAGTCGCTAGCACAAATGC
65 CACTAGCACAAATGCCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAAGC
** *
34961022 CTTCGGGTCTTAGCTCGGATATAGTAACTCGGACAAATGCCTTCGGGTCTTAGCCCAGATATAG-
1 CTTCGGGTCTTAGC-CGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAGT
* **
34961086 CAACTCGCACAAATGCCTTCGGGACTTAGTCCGGATATAGTCACTAGCACAAAAGC
65 C-ACTAGCACAAATGCCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAAGC
* * *
34961142 CTTTGGGACTTTGCCCGGATAT
1 CTTCGGGTCTTAG-CCGGATAT
34961164 CATTCGAATA
Statistics
Matches: 125, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
118 1 0.01
119 13 0.10
120 110 0.88
121 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (119 bp):
CTTCGGGTCTTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAGTC
ACTAGCACAAATGCCTTCGGGACTTAACCCGGATATAGTCACTAGCACAAAAGC
Found at i:34964218 original size:31 final size:31
Alignment explanation
Indices: 34964183--34964254 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
34964173 TACTGCGCCA
34964183 AAGCCTTTACATTATTCATATCACTAGGCCG
1 AAGCCTTTACATTATTCATATCACTAGGCCG
* *
34964214 AAGCCTTTTCATTATTCATATCACTGGGCCG
1 AAGCCTTTACATTATTCATATCACTAGGCCG
*
34964245 AAGCTTTTAC
1 AAGCCTTTAC
34964255 TGTAACAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (31 bp):
AAGCCTTTACATTATTCATATCACTAGGCCG
Found at i:34964487 original size:25 final size:25
Alignment explanation
Indices: 34964459--34964543 Score: 84
Period size: 26 Copynumber: 3.4 Consensus size: 25
34964449 CTAGAGGCCT
34964459 AGCCTCTTTTAAT-AACTAGGGCAAA
1 AGCC-CTTTTAATAAACTAGGGCAAA
* *
34964484 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTAGGGCAAA
** *
34964510 AGCCCTTTTCGGTAAAATAGGGC-AA
1 AGCCCTTTT-AATAAACTAGGGCAAA
34964535 AGCCCTTTT
1 AGCCCTTTT
34964544 CGGTAACTGG
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
24 1 0.02
25 25 0.48
26 26 0.50
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTAGGGCAAA
Found at i:34964544 original size:25 final size:26
Alignment explanation
Indices: 34964472--34964567 Score: 117
Period size: 26 Copynumber: 3.8 Consensus size: 26
34964462 CTCTTTTAAT
* *
34964472 AACTAGGGCAAAAGCCCTTTTTGATA
1 AACTAGGGCAAAAGCCCTTTTCGGTA
*
34964498 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAAGCCCTTTTCGGTA
*
34964524 AAATAGGGC-AAAGCCCTTTTCGGT-
1 AACTAGGGCAAAAGCCCTTTTCGGTA
* *
34964548 AACTGGGGC-ATAGCCCTTTT
1 AACTAGGGCAAAAGCCCTTTT
34964568 GCACTTCCTC
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
24 17 0.27
25 15 0.24
26 30 0.48
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTAGGGCAAAAGCCCTTTTCGGTA
Found at i:34964727 original size:25 final size:25
Alignment explanation
Indices: 34964699--34964746 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
34964689 ATAATTAAAC
*
34964699 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGTAAAATAGTCATTTTTA
34964724 CCTAGGGGTAAAATAGTCATTTT
1 CCTAGGGGTAAAATAGTCATTTT
34964747 CATCTTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGTAAAATAGTCATTTTTA
Found at i:34967538 original size:39 final size:39
Alignment explanation
Indices: 34967495--34967766 Score: 427
Period size: 39 Copynumber: 7.0 Consensus size: 39
34967485 ATTATATTAT
* * *
34967495 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
34967534 CAGCACGAAGCCTGCGGGACTTTGGCCCTGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
34967573 CAGCACGAAGCCTGCAGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
34967612 CAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * * * *
34967651 TAGCATGAAGCCTGTGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
34967690 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
34967729 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
34967767 TCAGTGTCTT
Statistics
Matches: 212, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 212 1.00
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:34970574 original size:25 final size:25
Alignment explanation
Indices: 34970503--34970625 Score: 101
Period size: 25 Copynumber: 5.0 Consensus size: 25
34970493 TACGAGTTTT
* *
34970503 GAATCAATATGCTCTCACGAGCTGTA
1 GAATCGATAAGCTCTCACGAGCTG-A
* * *
34970529 -AATCGGTAAGTTCAT-ATGAGCTGA
1 GAATCGATAAGCTC-TCACGAGCTGA
* *
34970553 GAATTGCTAAGCTCTCACGAGCTG-
1 GAATCGATAAGCTCTCACGAGCTGA
* *
34970577 CAATCGGTAAGCTCAT-ACGAGCTGA
1 GAATCGATAAGCTC-TCACGAGCTGA
*
34970602 GAATCGATAGGCTCTCACGAGCTG
1 GAATCGATAAGCTCTCACGAGCTG
34970626 CAATCGGTAA
Statistics
Matches: 76, Mismatches: 15, Indels: 13
0.73 0.14 0.12
Matches are distributed among these distances:
24 22 0.29
25 53 0.70
26 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (25 bp):
GAATCGATAAGCTCTCACGAGCTGA
Found at i:34970599 original size:49 final size:49
Alignment explanation
Indices: 34970489--34970635 Score: 186
Period size: 49 Copynumber: 3.0 Consensus size: 49
34970479 TACATGTATT
* ** * * *
34970489 CTCATACGAGTTTTGAATCAATATGCTCTCACGAGCTGTAAATCGGTAAG
1 CTCATACGAGCTGAGAATCGATAAGCTCTCACGAGCTG-CAATCGGTAAG
* * * *
34970539 TTCATATGAGCTGAGAATTGCTAAGCTCTCACGAGCTGCAATCGGTAAG
1 CTCATACGAGCTGAGAATCGATAAGCTCTCACGAGCTGCAATCGGTAAG
*
34970588 CTCATACGAGCTGAGAATCGATAGGCTCTCACGAGCTGCAATCGGTAA
1 CTCATACGAGCTGAGAATCGATAAGCTCTCACGAGCTGCAATCGGTAA
34970636 TCCCTAATGA
Statistics
Matches: 82, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
49 53 0.65
50 29 0.35
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (49 bp):
CTCATACGAGCTGAGAATCGATAAGCTCTCACGAGCTGCAATCGGTAAG
Found at i:34975075 original size:20 final size:20
Alignment explanation
Indices: 34975050--34975089 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
34975040 GATACTTAAT
34975050 TGTCTTTAAGACCACGTCGA
1 TGTCTTTAAGACCACGTCGA
34975070 TGTCTTTAAGACCACGTCGA
1 TGTCTTTAAGACCACGTCGA
34975090 ACGTGAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (20 bp):
TGTCTTTAAGACCACGTCGA
Found at i:34992483 original size:79 final size:80
Alignment explanation
Indices: 34992341--34992525 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
34992331 TACTCGTTCA
* * *
34992341 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAGGCCTTCGGGACTTAACCCGGAT
* *
34992406 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
* * **
34992421 AATGCCTTCGGG-CTTAGCCTGGA-ATTAGTAACTCGCACAAAGGCCTTC-GGATTTGAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAAGGCCTTCGGGACTT-AACCCGG
*
34992483 ATATAGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
34992500 AAAGCCTTCGGGACTTAGCCCGGATA
1 AATGCCTTCGGGACTTAGCCCGGATA
34992526 ATTCCATATA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 6 0.07
79 55 0.62
80 26 0.30
81 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAGGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:34992523 original size:40 final size:40
Alignment explanation
Indices: 34992320--34992525 Score: 224
Period size: 40 Copynumber: 5.2 Consensus size: 40
34992310 CGGAATTTAA
** *
34992320 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34992360 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34992400 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
34992439 CTGGA-ATTAGTAACTCGCACAAAGGCCTTC-GGATTTGAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTT-AGC
* *
34992479 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
34992519 CCGGATA
1 CCGGATA
34992526 ATTCCATATA
Statistics
Matches: 139, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 90 0.65
41 14 0.10
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34992902 original size:79 final size:81
Alignment explanation
Indices: 34992793--34992975 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
34992783 TACTCGTTCA
* * *
34992793 AATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTT-GGGATCTTAACCCGG
* *
34992856 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* * **
34992873 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGTACAAATGCCTTTGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTGGGATCTTAACCCGGA
*
34992936 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
34992952 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
34992976 CATCATTCTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTGGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:34992934 original size:452 final size:452
Alignment explanation
Indices: 34992068--34992975 Score: 1701
Period size: 452 Copynumber: 2.0 Consensus size: 452
34992058 TATAACTAAA
*
34992068 CGGATAATTCCATATATACATATTCTCAAATCAATCCTACTTCACATTCCAACCCTTATATTCAT
1 CGGATAATTCCATATATACATATTCTCAAATCAATCCTACTTCACATTCCAACCCCTATATTCAT
*
34992133 ACATAAGGGATCATCTTAGCCAAATACCGGAAGCTCATTACTCGACTGAGCGAATATTATTCGAA
66 ACATAAGGGATCATCTTAGCCAAATACCGGAAGCTCATTACTCGACCGAGCGAATATTATTCGAA
34992198 GGGAATCAACTATTCCAATGCACATACGAAACATACCTCATTGTTGGGATTTTACAAGCGTATTA
131 GGGAATCAACTATTCCAATGCACATACGAAACATACCTCATTGTTGGGATTTTACAAGCGTATTA
34992263 ACTAAAATTTTTACAGCAAGATCGCTCATTCCCGAATCACGTACCTTCGGAATTTAACCGGATAT
196 ACTAAAATTTTTACAGCAAGATCGCTCATTCCCGAATCACGTACCTTCGGAATTTAACCGGATAT
*
34992328 AGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGG
261 AGCTACTCGTTCAAATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCACAAATGCCTTCGGG
*
34992393 ACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCTGGAATTAGTAACTCGCA
326 ACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
34992458 CAAAGGCCTTCGGATTTGAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
391 CAAAGGCCTTCGGATTTGAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
*
34992520 CGGATAATTCCATATATACATATTCTCAAATCATTCCTACTTCACATTCCAACCCCTATATTCAT
1 CGGATAATTCCATATATACATATTCTCAAATCAATCCTACTTCACATTCCAACCCCTATATTCAT
*
34992585 ACATAAGGGATCATCTTAGCCAAATACCGGAAGCTCATTACTCGACCGAGCGAATATTATTTGAA
66 ACATAAGGGATCATCTTAGCCAAATACCGGAAGCTCATTACTCGACCGAGCGAATATTATTCGAA
*
34992650 GGGAATCATCTATTCCAATGCACATACGAAACATACCTCATTGTTGGGATTTTACAAGCGTATTA
131 GGGAATCAACTATTCCAATGCACATACGAAACATACCTCATTGTTGGGATTTTACAAGCGTATTA
*
34992715 ACTGAAATTTTTACAGCAAGATCGCTCATTCCCGAATCACGTACCTTCGGAATTTAACCGGATAT
196 ACTAAAATTTTTACAGCAAGATCGCTCATTCCCGAATCACGTACCTTCGGAATTTAACCGGATAT
34992780 AGCTACTCGTTCAAATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCACAAATGCCTTCGGG
261 AGCTACTCGTTCAAATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCACAAATGCCTTCGGG
*
34992845 ACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGTA
326 ACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
* *
34992910 CAAATGCCTTTGGATCTT-AGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
391 CAAAGGCCTTCGGAT-TTGAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
34992972 CGGA
1 CGGA
34992976 CATCATTCTA
Statistics
Matches: 444, Mismatches: 11, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
452 442 1.00
453 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (452 bp):
CGGATAATTCCATATATACATATTCTCAAATCAATCCTACTTCACATTCCAACCCCTATATTCAT
ACATAAGGGATCATCTTAGCCAAATACCGGAAGCTCATTACTCGACCGAGCGAATATTATTCGAA
GGGAATCAACTATTCCAATGCACATACGAAACATACCTCATTGTTGGGATTTTACAAGCGTATTA
ACTAAAATTTTTACAGCAAGATCGCTCATTCCCGAATCACGTACCTTCGGAATTTAACCGGATAT
AGCTACTCGTTCAAATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCACAAATGCCTTCGGG
ACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
CAAAGGCCTTCGGATTTGAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
Found at i:34992975 original size:40 final size:40
Alignment explanation
Indices: 34992772--34992975 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
34992762 CGGAATTTAA
** *
34992772 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
34992812 CCAGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34992852 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
34992891 CCGGA-ATTAGTAACTCGTACAAATGCCTT-TGGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
34992931 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
34992971 CCGGA
1 CCGGA
34992976 CATCATTCTA
Statistics
Matches: 136, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 92 0.68
41 11 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34997075 original size:13 final size:13
Alignment explanation
Indices: 34997057--34997082 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34997047 AGGGGTTTGT
34997057 TTATCTAAACTAA
1 TTATCTAAACTAA
34997070 TTATCTAAACTAA
1 TTATCTAAACTAA
34997083 GGATGCACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:35000084 original size:20 final size:20
Alignment explanation
Indices: 35000061--35000128 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
35000051 TCATCTGAAC
35000061 TCATGAGTTGTGGTCTGAGT
1 TCATGAGTTGTGGTCTGAGT
* * **
35000081 TCATGATATATGTGACATCTGAAC
1 TCATGA-GT-TGTG--GTCTGAGT
*
35000105 TCATGAGTTGTGGTCTAAGT
1 TCATGAGTTGTGGTCTGAGT
35000125 TCAT
1 TCAT
35000129 AATTTATGTG
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
20 14 0.40
21 1 0.03
22 8 0.23
23 1 0.03
24 11 0.31
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (20 bp):
TCATGAGTTGTGGTCTGAGT
Found at i:35000108 original size:44 final size:44
Alignment explanation
Indices: 35000052--35000141 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
35000042 GGAACTATGT
* *
35000052 CATCTGAACTCATGAGTTGTGGTCTGAGTTCATGATATATGTGA
1 CATCTGAACTCATGAGTTGTGGTCTAAGTTCATAATATATGTGA
*
35000096 CATCTGAACTCATGAGTTGTGGTCTAAGTTCATAATTTATGTGA
1 CATCTGAACTCATGAGTTGTGGTCTAAGTTCATAATATATGTGA
35000140 CA
1 CA
35000142 CATTATATGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (44 bp):
CATCTGAACTCATGAGTTGTGGTCTAAGTTCATAATATATGTGA
Found at i:35004540 original size:45 final size:45
Alignment explanation
Indices: 35004435--35004697 Score: 293
Period size: 45 Copynumber: 5.9 Consensus size: 45
35004425 TTTTCTCAAA
* * * * *
35004435 TCACCGGCAT-TTTGCCTGCTAGGCTC-GAGGCCCGATTA-TCATT
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
* * *
35004478 TCACCAGCATTATAGCCTGCTAGGCTCGAAA-GCTC-AGATAGTATC
1 TCACCGGCATAATAGCCTGCTAGGCTC-AAAGGCCCGA-ATAGTATC
* * * *
35004523 TCACCTGTATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * *
35004568 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * * *
35004613 TCACTGACATAATAGCCTACTAGGCTCAAAGGCCCGAATAGTGTC
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
35004658 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
35004698 TAATACTAGC
Statistics
Matches: 188, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
43 9 0.05
44 18 0.10
45 158 0.84
46 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (45 bp):
TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:35004737 original size:38 final size:38
Alignment explanation
Indices: 35004690--35004813 Score: 178
Period size: 38 Copynumber: 3.3 Consensus size: 38
35004680 GGCTCAAAGG
* *
35004690 CCCGAATATAATACTAGCACTAAGCCTACGGGATTTAA
1 CCCGGATATAATACTAGCACTAAGCCTGCGGGATTTAA
* * *
35004728 CCTGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACTAGCACTAAGCCTGCGGGATTTAA
*
35004766 CCCAGATATAATACTAGCA-TGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACTAGCACT-AAGCCTGCGGGATTTAA
35004804 CCCGGATATA
1 CCCGGATATA
35004814 CATCAAATAT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
38 75 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACTAGCACTAAGCCTGCGGGATTTAA
Found at i:35009055 original size:24 final size:24
Alignment explanation
Indices: 35009008--35009055 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
35008998 ACCATGTTTG
*
35009008 TGTTAATTAAAATAGTTTAATTAA
1 TGTTAATTAAAATAGTATAATTAA
*
35009032 TGTTAATTAAACTA-TATAAGTTAA
1 TGTTAATTAAAATAGTATAA-TTAA
35009056 ATTAGTGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (24 bp):
TGTTAATTAAAATAGTATAATTAA
Found at i:35014569 original size:46 final size:48
Alignment explanation
Indices: 35014516--35014681 Score: 198
Period size: 48 Copynumber: 3.5 Consensus size: 48
35014506 TATGTATGCT
* *
35014516 AGTGTAAGACATGTCTGGGACATGCATCGAC-C-ACATACTA-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGCCTCGAGATA-TACAGAGCC
* * *
35014562 AGTGTAAGACATGTCTAGGACATGCATTGTCCTCGAGATATACCG-GCC
1 AGTGTAAGACATGTCTGGGACATGCATCG-CCTCGAGATATACAGAGCC
* *
35014610 AATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACA-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GCCTCGAGATATACAGAGCC
*
35014658 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
35014682 GTGTCAGCTT
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
46 27 0.26
47 1 0.01
48 68 0.67
49 6 0.06
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGCCTCGAGATATACAGAGCC
Found at i:35016552 original size:20 final size:20
Alignment explanation
Indices: 35016514--35016552 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35016504 ATCAAATTGA
* *
35016514 ATTGTCATTAAATGGATTTG
1 ATTGTAATTAAATGCATTTG
*
35016534 ATTGTAATTAGATGCATTT
1 ATTGTAATTAAATGCATTT
35016553 ATATAATTGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.05, G:0.18, T:0.46
Consensus pattern (20 bp):
ATTGTAATTAAATGCATTTG
Found at i:35019725 original size:2 final size:2
Alignment explanation
Indices: 35019715--35019757 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
35019705 GAGTTTTTAG
*
35019715 CT CT TT CT CT C- CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
35019756 CT
1 CT
35019758 GAAATCTCTG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:35020933 original size:2 final size:2
Alignment explanation
Indices: 35020926--35020953 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
35020916 GTGAGACTCT
35020926 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
35020954 TGAAAACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:35029782 original size:28 final size:29
Alignment explanation
Indices: 35029742--35029796 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
35029732 CATAGGCGAT
*
35029742 GACGCGGGCGTGT-CTAGGCTGTGTGAGG
1 GACGCGGGCGTGTGCTAGGCCGTGTGAGG
*
35029770 GACGCGGGCGTGTGCTCGGCCGTGTGA
1 GACGCGGGCGTGTGCTAGGCCGTGTGA
35029797 AAATCTCTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.09, C:0.22, G:0.49, T:0.20
Consensus pattern (29 bp):
GACGCGGGCGTGTGCTAGGCCGTGTGAGG
Found at i:35035177 original size:30 final size:30
Alignment explanation
Indices: 35035142--35035199 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
35035132 CACAGCCATA
35035142 ACACACGGGCGTGTGG-TCTACCCGTGTGTC
1 ACACACGGGCGTGTGGATC-ACCCGTGTGTC
35035172 ACACACGGGCGTGTGGATCACCCGTGTG
1 ACACACGGGCGTGTGGATCACCCGTGTG
35035200 GAAGTGCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.16, C:0.29, G:0.34, T:0.21
Consensus pattern (30 bp):
ACACACGGGCGTGTGGATCACCCGTGTGTC
Found at i:35039335 original size:27 final size:27
Alignment explanation
Indices: 35039305--35039481 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
35039295 ATATTGAGTC
* *
35039305 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
35039332 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
35039359 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
35039387 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
*
35039414 CGCACACTTAGTGC-ATCATATTC-ACTT
1 CGCACACTTAGTGCTA-CATAATCAAC-T
* * *
35039441 CGCACACTTAGTGCAACATAGTCTA-T
1 CGCACACTTAGTGCTACATAATCAACT
35039467 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35039482 GTACAATTTA
Statistics
Matches: 128, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
26 16 0.12
27 87 0.68
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:35039397 original size:55 final size:54
Alignment explanation
Indices: 35039305--35039481 Score: 198
Period size: 55 Copynumber: 3.3 Consensus size: 54
35039295 ATATTGAGTC
* * * * *
35039305 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
35039359 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* *
35039414 CGCACACTTAGTGC-ATCATATTC-ACTTCGCACACTTAGTGCAACATAGTC-TAT
1 CGCACACTTAGTGCTA-CATAATCAAC-TCGCACACTTAGTGCAACATAGTCAAAT
35039467 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35039482 GTACAATTTA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
53 17 0.16
54 42 0.40
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:35039444 original size:82 final size:80
Alignment explanation
Indices: 35039326--35039480 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 80
35039316 TGCTATATAA
* *
35039326 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-AA-TCGCA
35039391 CACTTAGTGCCGCATGG
64 CACTTAGTGCCGCATGG
* * ** *
35039408 TCAATTCGCACACTTAGTGC-ATCATATTCACTTCGCACACTTAGTGCAACATAGTCTATCGCAC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAATCGCAC
35039472 ACTTAGTGC
65 ACTTAGTGC
35039481 TGTACAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 15 0.23
81 2 0.03
82 48 0.74
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAATCGCACA
CTTAGTGCCGCATGG
Found at i:35075662 original size:20 final size:19
Alignment explanation
Indices: 35075645--35075682 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
35075635 GCTCAAAAGT
35075645 ACTATAAAACATAGAAAAAC
1 ACTATAAAACATA-AAAAAC
35075665 ACTATAAAACATAAAAAA
1 ACTATAAAACATAAAAAA
35075683 TAAATAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.68, C:0.13, G:0.03, T:0.16
Consensus pattern (19 bp):
ACTATAAAACATAAAAAAC
Found at i:35077546 original size:10 final size:10
Alignment explanation
Indices: 35077531--35077572 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
35077521 ATTGATATGT
35077531 TTGGTATTGG
1 TTGGTATTGG
*
35077541 TTGGTATTGAA
1 TTGGTATTG-G
*
35077552 ATGGTATTGG
1 TTGGTATTGG
35077562 TTGG-ATTGG
1 TTGGTATTGG
35077571 TT
1 TT
35077573 TAGGTTTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 7 0.26
10 12 0.44
11 8 0.30
ACGTcount: A:0.17, C:0.00, G:0.36, T:0.48
Consensus pattern (10 bp):
TTGGTATTGG
Found at i:35079734 original size:46 final size:46
Alignment explanation
Indices: 35079667--35079835 Score: 198
Period size: 46 Copynumber: 3.6 Consensus size: 46
35079657 GTGCCAATGC
35079667 CATGTCCCAGACATGTCTTACACTGGCT-TACATATCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATATCGAGGCCGATG
* * * * * *
35079713 CATGTTCCAGACATGTCTTACACTAGCTCTTATCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATATCGAGGCCGATG
* * *
35079759 CCATGTCCCAGACATGGTCTTATACTGGCTCTCATAAT-GTGGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-ATCGAGGCCGATG
*
35079807 CATGTCCCAGACATATCTTACACTGGCTC
1 CATGTCCCAGACATGTCTTACACTGGCTC
35079836 ACGCAAGTGA
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
46 51 0.50
47 28 0.27
48 22 0.22
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATATCGAGGCCGATG
Found at i:35079826 original size:94 final size:93
Alignment explanation
Indices: 35079658--35079835 Score: 252
Period size: 94 Copynumber: 1.9 Consensus size: 93
35079648 GTGGGTAAGG
* *
35079658 TGCCAATGCCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTTCCAG
1 TGCCAATGCCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCAATGCATGTCCCAG
*
35079723 ACATGTCTTACACTAGCTCTTATCTCAA
66 ACATATCTTACACTAGCTCTTATCTCAA
* * *
35079751 TGCCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCT-CATAAT-GTGGCCAATGCATGTCC
1 TGCCAATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCAATGCATGTCC
*
35079814 CAGACATATCTTACACTGGCTC
63 CAGACATATCTTACACTAGCTC
35079836 ACGCAAGTGA
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
93 22 0.29
94 50 0.67
95 3 0.04
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (93 bp):
TGCCAATGCCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCAATGCATGTCCCAG
ACATATCTTACACTAGCTCTTATCTCAA
Found at i:35082103 original size:30 final size:30
Alignment explanation
Indices: 35082058--35082117 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
35082048 ATTTAATACG
35082058 AACTTTGGCAAAATTACA-TTGTTGCCCCTA
1 AACTTTGGCAAAATTACACTT-TTGCCCCTA
* *
35082088 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
35082118 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:35087056 original size:24 final size:23
Alignment explanation
Indices: 35087020--35087065 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
35087010 CATGTTCCCC
35087020 TGCTTTAATTCAAGAAACTCTTTA
1 TGCTTTAATTCAAGAAA-TCTTTA
*
35087044 TGCTTCTAA-TCAATAAATCTTT
1 TGCTT-TAATTCAAGAAATCTTT
35087066 CACTGATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 12 0.60
25 3 0.15
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (23 bp):
TGCTTTAATTCAAGAAATCTTTA
Found at i:35097574 original size:46 final size:47
Alignment explanation
Indices: 35097334--35097546 Score: 288
Period size: 47 Copynumber: 4.6 Consensus size: 47
35097324 GTGCCAATGC
* * * * *
35097334 CATGTCCCAGACACGGTCTTACACTGGCTCAT-ATCTCA-AGTCAATG
1 CATGTCCTAGACATGGTCTTACACTGACT-ATCATCTCATAGCCGATG
* * * *
35097380 CCATGTTCTAGACATGGTCTTAAACTGACTGTCATCTCATAGCTGATG
1 -CATGTCCTAGACATGGTCTTACACTGACTATCATCTCATAGCCGATG
*
35097428 CATGTCCCAGACATGGTCTTACACTGACTATCATCTCATAGCCGATG
1 CATGTCCTAGACATGGTCTTACACTGACTATCATCTCATAGCCGATG
*
35097475 CATGTCCTAGACATGGTCTTACACTTACTATCATCTCATAGCCGATG
1 CATGTCCTAGACATGGTCTTACACTGACTATCATCTCATAGCCGATG
35097522 CATGTCCTAGACAT-GTCTTACACTG
1 CATGTCCTAGACATGGTCTTACACTG
35097547 GCTTATGTCT
Statistics
Matches: 147, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
46 11 0.07
47 131 0.89
48 5 0.03
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (47 bp):
CATGTCCTAGACATGGTCTTACACTGACTATCATCTCATAGCCGATG
Found at i:35097603 original size:46 final size:46
Alignment explanation
Indices: 35097423--35097690 Score: 152
Period size: 47 Copynumber: 5.7 Consensus size: 46
35097413 ATCTCATAGC
* * * *
35097423 TGATGCATGTCCCAGACATGGTCTTACACT-GACTATCATCTC-ATAGC
1 TGATGCATGTCCCAGACAT-GTCTTACACTAG-CTCTCGTCTCGA-GGT
* * * * * *
35097470 CGATGCATGTCCTAGACATGGTCTTACACTTA-CTATCATCTC-ATAGC
1 TGATGCATGTCCCAGACAT-GTCTTACAC-TAGCTCTCGTCTCGA-GGT
* * * *
35097517 CGATGCATGTCCTAGACATGTCTTACACTGGCT-TATGTCTCGAGGT
1 TGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCGAGGT
* * * * *
35097563 TGATGCATGTCCCTGACATGTCTTACACTAGATCTCGTCTCAATGC
1 TGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCGAGGT
* * * * * * *
35097609 CGATGCCATGTACCAAACATGGTCTTATACTAGCTCTCATAAT-GTGGT
1 TGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGT-CTCGAGGT
* *
35097657 TGATGCATGTCCCACACATGTCTTACACTGGCTC
1 TGATGCATGTCCCAGACATGTCTTACACTAGCTC
35097691 GCGCAAGTGT
Statistics
Matches: 179, Mismatches: 33, Indels: 19
0.77 0.14 0.08
Matches are distributed among these distances:
45 2 0.01
46 68 0.38
47 86 0.48
48 22 0.12
49 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (46 bp):
TGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCGAGGT
Found at i:35103948 original size:46 final size:45
Alignment explanation
Indices: 35103896--35104070 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 45
35103886 TGGTTGAGCA
35103896 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* * * * *
35103942 TTCGAACTCTTTGAGTTGAGTCCGAGTT--CGTAAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G
* * *
35103987 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* *
35104035 -CCTGAGCTTGTTGAGTTGAGTCCGAGTTCACTTAGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
35104071 GGCGGGTTAC
Statistics
Matches: 102, Mismatches: 17, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 3 0.03
45 5 0.05
46 53 0.52
47 25 0.25
48 1 0.01
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATG
Found at i:35104052 original size:93 final size:93
Alignment explanation
Indices: 35103893--35104063 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
35103883 GGATGGTTGA
* * *
35103893 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCTTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAACGCTCGAACTCTTTGAGT
35103958 TGAGTCCGAGTTCGTAAGATGTAACTAG
66 TGAGTCCGAGTTCGTAAGATGTAACTAG
* * *
35103986 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCATTTATGGATGCGAACGC-CTGAGCT-TGTTGA
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAACGCTC-GAACTCT-TTGA
35104049 GTTGAGTCCGAGTTC
64 GTTGAGTCCGAGTTC
35104064 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAACGCTCGAACTCTTTGAGT
TGAGTCCGAGTTCGTAAGATGTAACTAG
Found at i:35118926 original size:43 final size:43
Alignment explanation
Indices: 35118878--35118969 Score: 116
Period size: 43 Copynumber: 2.1 Consensus size: 43
35118868 AGTAAGACCA
* *
35118878 TGGCATCGATATGTGATTCCGA-GTAAGACTC-TGTCTGGGACAG
1 TGGCATCGATATGTGATTAC-ATGTAAGAC-CACGTCTGGGACAG
* *
35118921 TGGCATCGATATGTGGTTACATGTAAGACCACGTCTGGGACAT
1 TGGCATCGATATGTGATTACATGTAAGACCACGTCTGGGACAG
35118964 TGGCAT
1 TGGCAT
35118970 TGTACCATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 2 0.05
43 41 0.95
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (43 bp):
TGGCATCGATATGTGATTACATGTAAGACCACGTCTGGGACAG
Found at i:35130198 original size:37 final size:37
Alignment explanation
Indices: 35130148--35130222 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
35130138 GTCGCAAGGT
* *
35130148 AAACCTCAGATCTCTATCCGAAATAATTGAAAAGGGC
1 AAACCTCAGATCTCTACCCAAAATAATTGAAAAGGGC
35130185 AAACCTCAGATCTCTACCCAAAATAATTGAAAAGGGC
1 AAACCTCAGATCTCTACCCAAAATAATTGAAAAGGGC
35130222 A
1 A
35130223 CTCCGTGATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.20
Consensus pattern (37 bp):
AAACCTCAGATCTCTACCCAAAATAATTGAAAAGGGC
Found at i:35135659 original size:48 final size:48
Alignment explanation
Indices: 35135585--35135821 Score: 248
Period size: 48 Copynumber: 5.0 Consensus size: 48
35135575 AAGAGGGTAA
*
35135585 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATTTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC
*
35135633 GAA-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTGCATA--
1 -AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC--ACATATC
* * * * * *
35135681 AATGTCGATGCCATGTTCCAAACCTGGTCTTACACTGGCTTACATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC
* * ** * **
35135729 AAGGCC-AAGCCATGTCTTAGACATGGTCTTACACTAGCTCTCGCATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC
* * * *
35135776 AATGGCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATA
35135822 CCTCTAGTAT
Statistics
Matches: 149, Mismatches: 33, Indels: 13
0.76 0.17 0.07
Matches are distributed among these distances:
46 4 0.03
47 36 0.24
48 104 0.70
49 2 0.01
50 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC
Found at i:35135766 original size:95 final size:96
Alignment explanation
Indices: 35135584--35135821 Score: 336
Period size: 95 Copynumber: 2.5 Consensus size: 96
35135574 CAAGAGGGTA
* * * * *
35135584 AAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATTTCGAAGCCGATGCCATGT
1 AAATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAAGCCGAAGCCATGT
*
35135649 CCCAGACATGGTCTTACACTAGCTCTTGCAT
66 CCCAGACATGGTCTTACACTAGCTCTCGCAT
* * *
35135680 AAATGTCGATGCCATGTTCCAAACCTGGTCTTACACTGGCTTACATATC-AAGGCC-AAGCCATG
1 AAATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAA-GCCGAAGCCATG
**
35135743 TCTTAGACATGGTCTTACACTAGCTCTCGCAT
65 TCCCAGACATGGTCTTACACTAGCTCTCGCAT
* *
35135775 CAATGGCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 AAATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
35135822 CCTCTAGTAT
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
95 81 0.64
96 45 0.36
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (96 bp):
AAATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAAGCCGAAGCCATGT
CCCAGACATGGTCTTACACTAGCTCTCGCAT
Found at i:35138277 original size:40 final size:41
Alignment explanation
Indices: 35138218--35138403 Score: 234
Period size: 41 Copynumber: 4.6 Consensus size: 41
35138208 CTCGCACAAG
* * * * * * *
35138218 GCCTTTGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
35138258 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* * *
35138298 GCCTTC-GGATCCTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
35138339 GCCTTCGGGACTTAGCCTGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
35138380 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
35138404 CATTCGAGTA
Statistics
Matches: 128, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
39 3 0.02
40 57 0.45
41 65 0.51
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:35144710 original size:41 final size:41
Alignment explanation
Indices: 35144583--35144768 Score: 252
Period size: 41 Copynumber: 4.6 Consensus size: 41
35144573 CTCACACAAG
* * * * * *
35144583 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
35144623 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* * *
35144663 GCCTTC-GGATCCTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
35144704 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
35144745 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
35144769 CATTCGAGTA
Statistics
Matches: 131, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.02
40 58 0.44
41 67 0.51
42 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:35149824 original size:40 final size:41
Alignment explanation
Indices: 35149740--35149833 Score: 111
Period size: 40 Copynumber: 2.3 Consensus size: 41
35149730 GTTGATATCG
* * * * *
35149740 CACACTTAGTGCC-TTATATAGCTGGAGCTATCCCAACTCG
1 CACACTTAGTGCCATTATATAGCCGAAGCTATACCAAATCA
**
35149780 CACACTTAGTGCCATT-TATAGCCGAAGCTATATTAAATCA
1 CACACTTAGTGCCATTATATAGCCGAAGCTATACCAAATCA
35149820 CACACTTAGTGCCA
1 CACACTTAGTGCCA
35149834 AGCATAATCA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 44 0.96
41 2 0.04
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (41 bp):
CACACTTAGTGCCATTATATAGCCGAAGCTATACCAAATCA
Found at i:35156601 original size:23 final size:23
Alignment explanation
Indices: 35156566--35156625 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
35156556 TAAAATTTAC
*
35156566 AAAAA-TATAAATTATTAAAATGAT
1 AAAAATTAT-AATT-TTAAAATCAT
**
35156590 -AAAATTATAATTTTATTATCAT
1 AAAAATTATAATTTTAAAATCAT
35156612 AAAAATTATAATTT
1 AAAAATTATAATTT
35156626 AATTTCATCC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 7 0.23
23 21 0.68
24 3 0.10
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
AAAAATTATAATTTTAAAATCAT
Found at i:35156605 original size:25 final size:23
Alignment explanation
Indices: 35156544--35156625 Score: 62
Period size: 25 Copynumber: 3.5 Consensus size: 23
35156534 ATAAAAAATT
35156544 AATT-TAATTTT-TTAAAATTTACAA
1 AATTATAATTTTATTAAAA--TA-AA
* *
35156568 AAATATAA-ATTATTAAAATGATAA
1 AATTATAATTTTATTAAAAT-A-AA
**
35156592 AATTATAATTTTATTATCATAAA
1 AATTATAATTTTATTAAAATAAA
35156615 AATTATAATTT
1 AATTATAATTT
35156626 AATTTCATCC
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
23 14 0.30
24 16 0.34
25 17 0.36
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (23 bp):
AATTATAATTTTATTAAAATAAA
Found at i:35156633 original size:22 final size:23
Alignment explanation
Indices: 35156590--35156633 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
35156580 TTAAAATGAT
*
35156590 AAAATTATAATTTTATTATCATA
1 AAAATTATAATTTAATTATCATA
35156613 AAAATTATAATTTAATT-TCAT
1 AAAATTATAATTTAATTATCAT
35156634 CCTTTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAATTATAATTTAATTATCATA
Found at i:35157757 original size:36 final size:36
Alignment explanation
Indices: 35157714--35157785 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
35157704 ATGATTAAAC
35157714 AATTTAATAATATAAATATTACAAAATGTGAAATTT
1 AATTTAATAATATAAATATTACAAAATGTGAAATTT
35157750 AATTTAATAATATAAATATTACAAAATGTGAAATTT
1 AATTTAATAATATAAATATTACAAAATGTGAAATTT
35157786 TTTTTGGATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (36 bp):
AATTTAATAATATAAATATTACAAAATGTGAAATTT
Found at i:35157997 original size:21 final size:22
Alignment explanation
Indices: 35157950--35158001 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
35157940 TGAGAGGCAG
*
35157950 TAAAAGTATTGGGAGAAAAGTA
1 TAAAAGTATTGGGAGAAAAATA
*
35157972 AAAAAGT-TTGGG-GTAAAAATA
1 TAAAAGTATTGGGAG-AAAAATA
35157993 TAAAA-TATT
1 TAAAAGTATT
35158002 ATAGTTTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 2 0.08
21 17 0.68
22 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.27
Consensus pattern (22 bp):
TAAAAGTATTGGGAGAAAAATA
Found at i:35160244 original size:36 final size:39
Alignment explanation
Indices: 35160204--35160281 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 39
35160194 AAAGTTTTCT
35160204 ATATTTTTAATA-AATTTTAT-TTCTTAT-A-AATTTTA-A
1 ATATTTTT-ATACAATTTTATATT-TTATGATAATTTTATA
*
35160240 ATATTTTTCTACAATTTTATATTTTATGATAATTTTATA
1 ATATTTTTATACAATTTTATATTTTATGATAATTTTATA
35160279 ATA
1 ATA
35160282 AAATTTAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
35 2 0.06
36 20 0.56
37 3 0.08
38 7 0.19
39 4 0.11
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (39 bp):
ATATTTTTATACAATTTTATATTTTATGATAATTTTATA
Found at i:35160329 original size:9 final size:9
Alignment explanation
Indices: 35160315--35160370 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
35160305 TTTTTAAATG
35160315 TTAATATTT
1 TTAATATTT
35160324 TTAATAATTT
1 TTAAT-ATTT
*
35160334 TTAA-AATT
1 TTAATATTT
*
35160342 TTAAAATTT
1 TTAATATTT
*
35160351 TT-CTATTT
1 TTAATATTT
*
35160359 TAAATATTT
1 TTAATATTT
35160368 TTA
1 TTA
35160371 TAATTTTTCC
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
8 12 0.32
9 17 0.46
10 8 0.22
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (9 bp):
TTAATATTT
Found at i:35160334 original size:27 final size:28
Alignment explanation
Indices: 35160280--35160352 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 28
35160270 AATTTTATAA
*
35160280 TAAAAT-TTAAGAAGTTTTAAGAAGTTTT
1 TAAAATGTTAA-AATTTTTAAGAAGTTTT
* * *
35160308 TTAAATGTTAATATTTTTAATAA-TTTT
1 TAAAATGTTAAAATTTTTAAGAAGTTTT
*
35160335 TAAAATTTTAAAATTTTT
1 TAAAATGTTAAAATTTTT
35160353 CTATTTTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 19 0.51
28 14 0.38
29 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (28 bp):
TAAAATGTTAAAATTTTTAAGAAGTTTT
Found at i:35160387 original size:25 final size:26
Alignment explanation
Indices: 35160340--35160398 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
35160330 ATTTTTAAAA
* * *
35160340 TTTTAAAATTTTTCTATTTTAAATAT
1 TTTTATAATTTTTCCATTATAAATAT
*
35160366 TTTTATAATTTTTCCA-TATAAATTT
1 TTTTATAATTTTTCCATTATAAATAT
35160391 TTTTATAA
1 TTTTATAA
35160399 GTTTAATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 15 0.52
26 14 0.48
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTATAATTTTTCCATTATAAATAT
Found at i:35160906 original size:16 final size:17
Alignment explanation
Indices: 35160871--35160906 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
35160861 AAAGTTAGAG
*
35160871 TTTTTAAGGTTTGCGTA
1 TTTTTAAGGTTTGCGGA
35160888 TTTTTAAGGTTTG-GGA
1 TTTTTAAGGTTTGCGGA
35160904 TTT
1 TTT
35160907 CGAGTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (17 bp):
TTTTTAAGGTTTGCGGA
Found at i:35163141 original size:40 final size:40
Alignment explanation
Indices: 35163091--35163197 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 40
35163081 AACACACCAG
*
35163091 TTTGGCACCCAGTGCCTCATCGGATAATTCTAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATTCTAAGTAATAA
*
35163131 TTTGATACCCAGTGTCTCATCTTCATCGGATAATTCTAAGTAATAA
1 TTTGACACCCAGTG---C--C-TCATCGGATAATTCTAAGTAATAA
*
35163177 TTTGACACCCAGTGTCTCATC
1 TTTGACACCCAGTGCCTCATC
35163198 AACTAAACCA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
40 17 0.30
41 1 0.02
43 1 0.02
45 1 0.02
46 37 0.65
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATTCTAAGTAATAA
Found at i:35163174 original size:46 final size:46
Alignment explanation
Indices: 35163107--35163197 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
35163097 ACCCAGTGCC
*
35163107 TCATCGGATAATTCTAAGTAATAATTTGATACCCAGTGTCTCATCT
1 TCATCGGATAATTCTAAGTAATAATTTGACACCCAGTGTCTCATCT
35163153 TCATCGGATAATTCTAAGTAATAATTTGACACCCAGTGTCTCATC
1 TCATCGGATAATTCTAAGTAATAATTTGACACCCAGTGTCTCATC
35163198 AACTAAACCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (46 bp):
TCATCGGATAATTCTAAGTAATAATTTGACACCCAGTGTCTCATCT
Found at i:35163275 original size:41 final size:40
Alignment explanation
Indices: 35163091--35163277 Score: 130
Period size: 46 Copynumber: 4.6 Consensus size: 40
35163081 AACACACCAG
* * * * *
35163091 TTTGGCACCCAGTGCCTCATCGGATAATTCTAAGTAATAA
1 TTTGACACCCAGTGTCTCATCGAATAATTCCAAGTAGTAA
* * * *
35163131 TTTGATACCCAGTGTCTCATCTTCATCGGATAATTCTAAGTAATAA
1 TTTGACACCCAGTG-----TC-TCATCGAATAATTCCAAGTAGTAA
*
35163177 TTTGACACCCAGTGTCTCATC-AACTAA-ACCAA--AGTAA
1 TTTGACACCCAGTGTCTCATCGAA-TAATTCCAAGTAGTAA
* * * *
35163214 TTTGGCACCCAGTATTTCATCGAATTAATTCGAAGTAGTAA
1 TTTGACACCCAGTGTCTCATCGAA-TAATTCCAAGTAGTAA
* *
35163255 ATTGACACTCAGTGTCTCATCGA
1 TTTGACACCCAGTGTCTCATCGA
35163278 CTTGAAGTCG
Statistics
Matches: 117, Mismatches: 19, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
37 22 0.19
38 5 0.04
39 7 0.06
40 20 0.17
41 25 0.21
45 1 0.01
46 37 0.32
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (40 bp):
TTTGACACCCAGTGTCTCATCGAATAATTCCAAGTAGTAA
Found at i:35163637 original size:74 final size:75
Alignment explanation
Indices: 35163436--35163666 Score: 455
Period size: 75 Copynumber: 3.1 Consensus size: 75
35163426 TCTACTAAAA
35163436 AAATAAAAATAAAGAATATTATTAATAATAATATTATGAAAATACTAATAATATCATGAATATTA
1 AAATAAAAATAAAGAATATTATTAATAATAATATTATGAAAATACTAATAATATCATGAATATTA
35163501 TAAATAACAC
66 TAAATAACAC
35163511 AAATAAAAATAAAGAATATTATTAATAATAATATTATGAAAATACTAATAATATCATGAATATTA
1 AAATAAAAATAAAGAATATTATTAATAATAATATTATGAAAATACTAATAATATCATGAATATTA
35163576 TAAATAACAC
66 TAAATAACAC
35163586 AAAT-AAAATAAAGAATATTATTAATAATAATATTATGAAAATACTAATAATATCATGAATATTA
1 AAATAAAAATAAAGAATATTATTAATAATAATATTATGAAAATACTAATAATATCATGAATATTA
35163650 TAAATAACAC
66 TAAATAACAC
35163660 AAATAAA
1 AAATAAA
35163667 TTAATCTTTT
Statistics
Matches: 155, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
74 74 0.48
75 81 0.52
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (75 bp):
AAATAAAAATAAAGAATATTATTAATAATAATATTATGAAAATACTAATAATATCATGAATATTA
TAAATAACAC
Found at i:35163717 original size:17 final size:17
Alignment explanation
Indices: 35163695--35163728 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
35163685 CCGTGCATCT
35163695 TCAAATAACCCGATAGA
1 TCAAATAACCCGATAGA
*
35163712 TCAAATAACTCGATAGA
1 TCAAATAACCCGATAGA
35163729 ATAGATCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.21
Consensus pattern (17 bp):
TCAAATAACCCGATAGA
Found at i:35164945 original size:22 final size:23
Alignment explanation
Indices: 35164897--35164945 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
35164887 TTTCTTTTTC
*
35164897 TTTCTTTCTATTTCGTTTGCTTT
1 TTTCTTTCTATTTCGTTTGATTT
*
35164920 TTTCTTTCT-TTTTGTTT-ATTT
1 TTTCTTTCTATTTCGTTTGATTT
35164941 ATTTC
1 -TTTC
35164946 ATCCATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.13
22 11 0.48
23 9 0.39
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.73
Consensus pattern (23 bp):
TTTCTTTCTATTTCGTTTGATTT
Found at i:35168923 original size:40 final size:41
Alignment explanation
Indices: 35168849--35168959 Score: 167
Period size: 40 Copynumber: 2.8 Consensus size: 41
35168839 AACCCAAGTA
* *
35168849 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
35168888 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
35168928 CCTTCGGGGCTTAGCCCGGATATAGTC-ACTAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAG
35168960 ACTTAGCTCG
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
39 14 0.21
40 49 0.74
41 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.23
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:35176107 original size:39 final size:40
Alignment explanation
Indices: 35176053--35176231 Score: 247
Period size: 40 Copynumber: 4.5 Consensus size: 40
35176043 AACCCAAGCA
* * * *
35176053 CCTTCGAGATTTAG-CCGGATATAG-CAACTCGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
35176092 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
35176132 CCTTCGGGGCTTAGCCCGGATATAGTCACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
**
35176171 CCTTCGGGACTTATTCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
35176211 CCTTTGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
35176232 GTCATCCAAA
Statistics
Matches: 124, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 48 0.39
40 75 0.60
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:35176190 original size:79 final size:80
Alignment explanation
Indices: 35176053--35176231 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 80
35176043 AACCCAAGCA
* * *
35176053 CCTTCGAGATTTAG-CCGGATATAGCAACTCGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
35176117 TCAATAGCACAAATG
66 TCAATAGCACAAATG
* * **
35176132 CCTTCGGGGCTTAGCCCGGATATAGTC-ACTAGCA-CAATGCCTTCGGGACTTATTCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATA
*
35176195 GTCACTAGCACAAATG
65 GTCAATAGCACAAATG
*
35176211 CCTTTGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
35176232 GTCATCCAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 71 0.81
80 16 0.18
81 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAATG
Found at i:35178427 original size:22 final size:21
Alignment explanation
Indices: 35178384--35178428 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 21
35178374 CAATAGCATT
35178384 TTAAACACATATTAACATATAA
1 TTAAACACATA-TAACATATAA
35178406 TTAAACAACATA-AACATAATAA
1 TTAAAC-ACATATAACAT-ATAA
35178428 T
1 T
35178429 CTGTACATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 5 0.24
22 11 0.52
23 5 0.24
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (21 bp):
TTAAACACATATAACATATAA
Found at i:35182679 original size:25 final size:25
Alignment explanation
Indices: 35182645--35182698 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
35182635 GTATGCTTAC
35182645 ACGAGCTGTAAATTGATACGCTCAA
1 ACGAGCTGTAAATTGATACGCTCAA
* * *
35182670 ACGAGCTGTAAATTGGTATGCTCAC
1 ACGAGCTGTAAATTGATACGCTCAA
35182695 ACGA
1 ACGA
35182699 CTTGTGGGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (25 bp):
ACGAGCTGTAAATTGATACGCTCAA
Found at i:35186633 original size:93 final size:93
Alignment explanation
Indices: 35186524--35186694 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
35186514 GCCCCTAAGT
** *
35186524 GAACTCGAACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACAAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
35186589 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CAAGTTCGGATGCCTAGTTACATCTCAC
* * * *
35186617 GAACTC-AGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTCA
1 GAACTCGA-ACTCAACTCAACAAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCA
35186681 ACAAGTTCGGATGC
65 ACAAGTTCGGATGC
35186695 TGAACCATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 1 0.01
93 68 0.99
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACAAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35186688 original size:46 final size:45
Alignment explanation
Indices: 35186517--35186689 Score: 145
Period size: 46 Copynumber: 3.8 Consensus size: 45
35186507 GTAACCCGCC
* * ** *
35186517 CCTAAGTGAACTCGAACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACAAGTTCGAACATTCGCAT
* * * *
35186562 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACAAGTTC-GA--AC-A-TTCGCAT
* * * *
35186612 -CTCA-CGAACTCAGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACAAGTTCGAACATTCGCAT
35186655 CCGTAAGTGAACTCGGACTCAACTCAACAAGTTCG
1 CC-TAAGTGAACTCGGACTCAACTCAACAAGTTCG
35186690 GATGCTGAAC
Statistics
Matches: 101, Mismatches: 17, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 54 0.53
47 26 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.21
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACAAGTTCGAACATTCGCAT
Found at i:35207329 original size:79 final size:81
Alignment explanation
Indices: 35207193--35207377 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
35207183 TTGAATGATG
* *
35207193 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
35207257 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
35207272 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
35207334 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* * *
35207352 ACCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35207378 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:35207384 original size:40 final size:40
Alignment explanation
Indices: 35207193--35207377 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
35207183 TTGAATGATG
* * * *
35207193 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
35207233 TCCGGACTAAGAT-CCGAAGGCAGTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
35207273 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35207312 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
35207353 -CCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35207378 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 34 0.28
40 79 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35207399 original size:79 final size:79
Alignment explanation
Indices: 35207246--35207410 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
35207236 GGACTAAGAT
* * **
35207246 CCGAAGGCAGTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
35207311 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
35207325 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCTCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
35207388 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
35207404 CCGAAGG
1 CCGAAGG
35207411 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:35211690 original size:42 final size:42
Alignment explanation
Indices: 35211585--35211705 Score: 138
Period size: 42 Copynumber: 2.8 Consensus size: 42
35211575 ATCTGAGCTA
* * *
35211585 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTTGAGATT
1 TCGTGTAAGACCTTGTCTGGGACACAGGCATCGATCT-AGATT
* *
35211628 TACATGTAAGA-CTATGTCTGGGATACAGGCATCGTATCT-GATT
1 T-CGTGTAAGACCT-TGTCTGGGACACAGGCATCG-ATCTAGATT
*
35211671 TCGTGTAAGACCTTGTCTGGGACAGAGGCATCGAT
1 TCGTGTAAGACCTTGTCTGGGACACAGGCATCGAT
35211706 ACTGAAATAC
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
41 2 0.03
42 26 0.39
43 9 0.14
44 26 0.39
45 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCTTGTCTGGGACACAGGCATCGATCTAGATT
Found at i:35215375 original size:12 final size:14
Alignment explanation
Indices: 35215347--35215378 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
35215337 GTAAAATAAG
35215347 TAATAATAACTATA
1 TAATAATAACTATA
35215361 TAATAA-AAC-ATA
1 TAATAATAACTATA
35215373 TAATAA
1 TAATAA
35215379 GAAACCATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.50
13 3 0.17
14 6 0.33
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (14 bp):
TAATAATAACTATA
Found at i:35219322 original size:18 final size:18
Alignment explanation
Indices: 35219285--35219323 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
35219275 TTGGAAATCA
*
35219285 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
35219303 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
35219321 AAA
1 AAA
35219324 AAATCATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:35221790 original size:30 final size:31
Alignment explanation
Indices: 35221756--35221819 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
35221746 ATTTATTTTA
*
35221756 TTGTTAA-TTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTTCTTATTACTTTAGAA-GCAT
*
35221786 TTGTTAATTTTTTTTATTACTTTAGAAGCAT
1 TTGTTAATTTTTCTTATTACTTTAGAAGCAT
35221817 TTG
1 TTG
35221820 CTTATTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 7 0.23
31 21 0.70
32 2 0.07
ACGTcount: A:0.25, C:0.06, G:0.11, T:0.58
Consensus pattern (31 bp):
TTGTTAATTTTTCTTATTACTTTAGAAGCAT
Found at i:35232900 original size:43 final size:43
Alignment explanation
Indices: 35232853--35232950 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
35232843 TTGAGATTAT
* * * * **
35232853 GTGTAAGACCATGTCTGGGACATTAGCATCGTTATTTGATTTC
1 GTGTAAGACCATGTCTAGGACAGTAGCATCGATATGTGATAAC
* *
35232896 GTGTAAGACCCTGTCTAGGACAGTGGCATCGATATGTGATAAC
1 GTGTAAGACCATGTCTAGGACAGTAGCATCGATATGTGATAAC
*
35232939 ATGTAAGACCAT
1 GTGTAAGACCAT
35232951 ATATAGGATA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCATGTCTAGGACAGTAGCATCGATATGTGATAAC
Found at i:35233738 original size:22 final size:20
Alignment explanation
Indices: 35233713--35233761 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 20
35233703 GTCATGTAAG
*
35233713 TTTGATGATTTTGGTATATTGA
1 TTTGATG-TTTTGGT-TATGGA
35233735 TTTGGTATGTTTTGGTTATGGA
1 TTT-G-ATGTTTTGGTTATGGA
35233757 TTTGA
1 TTTGA
35233762 GTAGTGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
21 1 0.04
22 11 0.46
23 8 0.33
24 3 0.12
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (20 bp):
TTTGATGTTTTGGTTATGGA
Found at i:35241192 original size:48 final size:48
Alignment explanation
Indices: 35241118--35241529 Score: 754
Period size: 48 Copynumber: 8.6 Consensus size: 48
35241108 TTGCTCAGGA
* *
35241118 GAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
35241166 GAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
35241214 GAATGGCTAGTGTGAAATATG-ATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
35241261 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
35241309 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
35241357 GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
* *
35241405 GAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
35241453 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
35241501 GAATGGCTAGTGTGAAATATGTAGGAGAT
1 GAATGGCTAGTGTGAAATATGTATGAGAT
35241530 GTGTGTATAT
Statistics
Matches: 355, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
47 47 0.13
48 308 0.87
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
Found at i:35241720 original size:37 final size:37
Alignment explanation
Indices: 35241670--35241765 Score: 147
Period size: 37 Copynumber: 2.6 Consensus size: 37
35241660 GGAAATATAT
* * *
35241670 TCCGGGTAAGACCCGATGACTTCGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGCGTAGAGATTATG
*
35241707 TCCGGGTAAGACCCGATGACTACGCGTAGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGCGTAGAGATTATG
*
35241744 TCCGGGTAAGACCCGATAACTA
1 TCCGGGTAAGACCCGATGACTA
35241766 TGTGTGGGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGCGTAGAGATTATG
Found at i:35243102 original size:40 final size:40
Alignment explanation
Indices: 35243056--35243404 Score: 583
Period size: 40 Copynumber: 8.8 Consensus size: 40
35243046 ATATAGCCAA
* *
35243056 GCTAAGTCCCGAAGAGTATTCGTGCTAGTGTTATATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGG
* *
35243096 GCTAAGTCCTGAAGAGCATTCGTGCTGGTGTTATATCCAG
1 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGG
*
35243136 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATGTCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGG
*
35243176 GCTAAGTCCCGAAGAGCATTCGTGCTGCTGTTATATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGG
*
35243216 GCTAAGTCCCGAAGAGCATTCGTGCTGATGTTATATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGG
*
35243256 GCTAAGTCCCGAAGAGCATTCATGCTGGTGTTATATCC-G
1 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGG
*
35243295 GCTAAGTCCCGAAGAGCAATCGTGCTGGTGTTATATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGG
35243335 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGG
* * *
35243375 GCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 GCTAAGTCCCGAAGAGCATTCGTGCTGGTG
35243405 ATGTGCATTC
Statistics
Matches: 290, Mismatches: 18, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
39 37 0.13
40 253 0.87
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
GCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGG
Found at i:35243618 original size:25 final size:25
Alignment explanation
Indices: 35243568--35243618 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
35243558 TGTGTAACAA
* *
35243568 CAAATGAATAGGGGCACTATATGTG
1 CAAATGAATAGAGGCACTAGATGTG
*
35243593 CAAATGATTAGAGGCACTGAGA-GTG
1 CAAATGAATAGAGGCACT-AGATGTG
35243618 C
1 C
35243619 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTAGATGTG
Found at i:35246764 original size:48 final size:48
Alignment explanation
Indices: 35246599--35247000 Score: 637
Period size: 48 Copynumber: 8.6 Consensus size: 48
35246589 TTGCTCAGGA
* *
35246599 GAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
35246647 GAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
35246695 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
35246743 GAATGGC-----T---A-ATG--TGAAATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
35246780 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAATCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
35246828 GAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
* * *
35246876 GAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGTC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
35246924 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
35246972 GAATGGCTAGTGTGAAATATGTAGGAGAT
1 GAATGGCTAGTGTGAAATATGTATGAGAT
35247001 GTGTGTATAT
Statistics
Matches: 328, Mismatches: 15, Indels: 22
0.90 0.04 0.06
Matches are distributed among these distances:
37 31 0.09
39 3 0.01
40 1 0.00
42 1 0.00
43 1 0.00
45 1 0.00
46 3 0.01
48 287 0.88
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
Found at i:35246769 original size:85 final size:85
Alignment explanation
Indices: 35246674--35246947 Score: 404
Period size: 85 Copynumber: 3.1 Consensus size: 85
35246664 TATGAATGAG
35246674 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
35246739 AGCCGAATGGCTAATGTGAA
66 AGCCGAATGGCTAATGTGAA
35246759 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
*
35246824 ATCCGAATGGCTAATGTGAAATATGTATGA
66 AGCCGAATGGCTAA--TG-----TG-A--A
* *
35246854 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTA
1 -ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTA
* *
35246919 AAGTCGAATGGCTAGTGTGAA
65 AAGCCGAATGGCTAATGTGAA
35246940 ATATGTAT
1 ATATGTAT
35246948 GAGATATGTA
Statistics
Matches: 172, Mismatches: 6, Indels: 22
0.86 0.03 0.11
Matches are distributed among these distances:
85 86 0.50
86 1 0.01
87 2 0.01
88 1 0.01
89 2 0.01
92 2 0.01
93 1 0.01
94 2 0.01
95 1 0.01
96 74 0.43
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (85 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAATGTGAA
Found at i:35246772 original size:37 final size:37
Alignment explanation
Indices: 35246722--35246803 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 37
35246712 TATGTATGAG
35246722 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
35246759 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
35246796 ATATGTAT
1 ATATGTAT
35246804 GAGATATGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (37 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:35246864 original size:133 final size:136
Alignment explanation
Indices: 35246623--35247000 Score: 618
Period size: 133 Copynumber: 2.7 Consensus size: 136
35246613 AAATATATAT
*
35246623 GAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGG
1 GAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGG
35246688 TAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
66 TAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
35246753 TGTG-A
131 TGTGAA
35246758 -A-ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGG
1 GAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGG
* *
35246821 TAAATCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
66 TAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
35246886 TGTGAAATATATA
131 TGTG------A-A
*
35246899 TGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
1 -GAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTG
*
35246964 GTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
65 GTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
35247001 GTGTGTATAT
Statistics
Matches: 225, Mismatches: 7, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
133 128 0.57
134 1 0.00
141 1 0.00
143 1 0.00
144 94 0.42
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (136 bp):
GAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGG
TAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
TGTGAA
Found at i:35246903 original size:181 final size:181
Alignment explanation
Indices: 35246599--35246947 Score: 617
Period size: 181 Copynumber: 1.9 Consensus size: 181
35246589 TTGCTCAGGA
*
35246599 GAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAA
1 GAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
* *
35246664 TATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTA
66 TATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTA
35246729 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATATGTGGTAAAGCC
131 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATATGTGGTAAAGCC
* * *
35246780 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAA
1 GAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
*
35246845 TATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTA
66 TATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTA
* *
35246910 TATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTAT
131 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
35246948 GAGATATGTA
Statistics
Matches: 159, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
181 159 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (181 bp):
GAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA
TATGAATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTA
TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATATGTGGTAAAGCC
Found at i:35247191 original size:37 final size:37
Alignment explanation
Indices: 35247141--35247243 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
35247131 GGAAATATAT
*
35247141 TCCGGGTAAGACCCGATGACTTCGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
35247178 TCCGGGTAAGACCCGATGACTACGCGTAGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
35247215 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
35247244 GGAGTATTTG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:35249630 original size:25 final size:26
Alignment explanation
Indices: 35249602--35249652 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
35249592 TATTATTTTT
*
35249602 AATTT-ATTTTTTAATAA-TTTATATA
1 AATTTCATTTATTAA-AATTTTATATA
35249627 AATTTCATTTATTAAAATTTTATATA
1 AATTTCATTTATTAAAATTTTATATA
35249653 TAGGAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
AATTTCATTTATTAAAATTTTATATA
Found at i:35251812 original size:51 final size:49
Alignment explanation
Indices: 35251688--35251882 Score: 264
Period size: 49 Copynumber: 3.9 Consensus size: 49
35251678 TAGCCAAAGC
* *
35251688 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * * *
35251737 TATCCGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * *
35251788 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
35251837 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
35251883 TCACAATAGC
Statistics
Matches: 125, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 80 0.64
50 6 0.05
51 39 0.31
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:35251866 original size:100 final size:100
Alignment explanation
Indices: 35251688--35251880 Score: 359
Period size: 100 Copynumber: 1.9 Consensus size: 100
35251678 TAGCCAAAGC
*
35251688 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACGTAG
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACGTAG
35251753 TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* *
35251788 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAG
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACGTAG
35251853 TAGCCTGCACTTAGTACTACACACGTGA
66 TAGCCTGCACTTAGTACTACACACGTGA
35251881 CCTCACAATA
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 90 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACGTAG
TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
Found at i:35252562 original size:29 final size:30
Alignment explanation
Indices: 35252529--35252588 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
35252519 CCTTTAATAC
35252529 AAACTTTGGCA-AATTACTA-TTTTGCCCCT
1 AAACTTTGGCATAATTAC-ACTTTTGCCCCT
*
35252558 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGCATAATTACACTTTTGCCCCT
35252588 A
1 A
35252589 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCATAATTACACTTTTGCCCCT
Found at i:35265117 original size:48 final size:48
Alignment explanation
Indices: 35264904--35265124 Score: 379
Period size: 48 Copynumber: 4.6 Consensus size: 48
35264894 TTGCTCAGGA
* *
35264904 GAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
* * *
35264952 GAATGGCTAGTGTGAAATATGAATAAGATATGTATATATGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
35265000 GAATGGCTAGTGTGAAATATGAATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
35265048 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
*
35265096 GAATGGCTAGTGTGAAATATGTAGGAGAT
1 GAATGGCTAGTGTGAAATATGTATGAGAT
35265125 GTGTGTATAT
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 164 1.00
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.30
Consensus pattern (48 bp):
GAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
Found at i:35265315 original size:37 final size:37
Alignment explanation
Indices: 35265265--35265367 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
35265255 GGAAATATAT
35265265 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
35265302 TCCGGGTAAGACCCGATGACTACGCGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
35265339 TCTGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
35265368 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Done.