Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 111 of 213
Found at i:31590086 original size:82 final size:81
Alignment explanation
Indices: 31589971--31590126 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
31589961 AAATTGTACA
* * *
31589971 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
31590035 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31590052 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
31590117 TGCGAGTTGA
65 TGCGAATTGA
31590127 ATATATCGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31590156 original size:27 final size:27
Alignment explanation
Indices: 31590052--31590158 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
31590042 TGACCATGCG
* * * *
31590052 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATC
** * * ** *
31590080 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGCTCAATATATC
* *
31590107 GCACTAAGTGTGCGAGTTGAATATATC
1 GCACTAAGTGTGCGAGCTCAATATATC
* *
31590134 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
31590159 CATTCGTGAA
Statistics
Matches: 65, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
27 50 0.77
28 15 0.23
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATC
Found at i:31620288 original size:128 final size:128
Alignment explanation
Indices: 31620060--31620319 Score: 520
Period size: 128 Copynumber: 2.0 Consensus size: 128
31620050 TAGCCTCTTT
31620060 TTTTGGAATAGCATCGTCATTGGCTTGAATAGGAACATTAACACGCTGACACATTACCGTGATAA
1 TTTTGGAATAGCATCGTCATTGGCTTGAATAGGAACATTAACACGCTGACACATTACCGTGATAA
31620125 AAGACTAAAAGTTTAGATGTCCGACATTCTTCTGCGCACAGTGGTGGATTTCTTTGAATATAA
66 AAGACTAAAAGTTTAGATGTCCGACATTCTTCTGCGCACAGTGGTGGATTTCTTTGAATATAA
31620188 TTTTGGAATAGCATCGTCATTGGCTTGAATAGGAACATTAACACGCTGACACATTACCGTGATAA
1 TTTTGGAATAGCATCGTCATTGGCTTGAATAGGAACATTAACACGCTGACACATTACCGTGATAA
31620253 AAGACTAAAAGTTTAGATGTCCGACATTCTTCTGCGCACAGTGGTGGATTTCTTTGAATATAA
66 AAGACTAAAAGTTTAGATGTCCGACATTCTTCTGCGCACAGTGGTGGATTTCTTTGAATATAA
31620316 TTTT
1 TTTT
31620320 TCCTACATTT
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 132 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (128 bp):
TTTTGGAATAGCATCGTCATTGGCTTGAATAGGAACATTAACACGCTGACACATTACCGTGATAA
AAGACTAAAAGTTTAGATGTCCGACATTCTTCTGCGCACAGTGGTGGATTTCTTTGAATATAA
Found at i:31621298 original size:14 final size:15
Alignment explanation
Indices: 31621279--31621307 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31621269 TTATCCCAAT
31621279 CAAATAAAG-AAAAA
1 CAAATAAAGCAAAAA
31621293 CAAATAAAGCAAAAA
1 CAAATAAAGCAAAAA
31621308 TGAATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.10, G:0.07, T:0.07
Consensus pattern (15 bp):
CAAATAAAGCAAAAA
Found at i:31627830 original size:32 final size:32
Alignment explanation
Indices: 31627779--31627978 Score: 258
Period size: 32 Copynumber: 6.3 Consensus size: 32
31627769 GAATGGATAC
* * *
31627779 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* *
31627810 AAGTCATCAGTAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
** *
31627842 CTGCCATCAGTAATAGTAGTATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* *
31627874 AAGCCATCAGTAGTAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
31627906 CACCCATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* *
31627938 CAGCCATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
31627970 AAGCCATCA
1 AAGCCATCA
31627979 ATAGCATCGC
Statistics
Matches: 146, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
31 9 0.06
32 137 0.94
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:31627961 original size:96 final size:95
Alignment explanation
Indices: 31627779--31627978 Score: 301
Period size: 96 Copynumber: 2.1 Consensus size: 95
31627769 GAATGGATAC
* ** * *
31627779 AAGCCATAAGTACAGTAATATGATTGGCACAAAGTCATCAGTAGTAGTAATATGATCGGCACACT
1 AAGCCATCAGTACAGTAATATGATTGGCACAAACCCATCAGTAATAGTAATATGATCGGCACACA
*
31627844 GCCATCAGTAATAGTAGTATGATCGGCACA
66 GCCATCAGTAATAGTAATATGATCGGCACA
* * *
31627874 AAGCCATCAGTAGTAGTAATATGATTGGCACACACCCATCAGTAATGGTAATATGATCGGCACAC
1 AAGCCATCAGTA-CAGTAATATGATTGGCACAAACCCATCAGTAATAGTAATATGATCGGCACAC
*
31627939 AGCCATCAGTAATGGTAATATGATCGGCACA
65 AGCCATCAGTAATAGTAATATGATCGGCACA
31627970 AAGCCATCA
1 AAGCCATCA
31627979 ATAGCATCGC
Statistics
Matches: 94, Mismatches: 10, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
95 11 0.12
96 83 0.88
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (95 bp):
AAGCCATCAGTACAGTAATATGATTGGCACAAACCCATCAGTAATAGTAATATGATCGGCACACA
GCCATCAGTAATAGTAATATGATCGGCACA
Found at i:31628036 original size:26 final size:26
Alignment explanation
Indices: 31627972--31628037 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
31627962 TCGGCACAAA
* * *
31627972 GCCATCAATAGCATCGCAGCAAAGTT
1 GCCAACAATAGTATCGCAGCAAAGCT
* *
31627998 GCCAACAACAGTATCGCAGTAAAGCT
1 GCCAACAATAGTATCGCAGCAAAGCT
**
31628024 GCCAGTAATAGTAT
1 GCCAACAATAGTAT
31628038 ATGTGACCAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (26 bp):
GCCAACAATAGTATCGCAGCAAAGCT
Found at i:31628055 original size:27 final size:27
Alignment explanation
Indices: 31628025--31628088 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
31628015 AGTAAAGCTG
* *
31628025 CCAGTAATAGT-ATATGTGACCAAGCCA
1 CCAGTAACAGTGAT-TGTGACAAAGCCA
*
31628052 CCAGTAACAGTGATTGTGGCAAAGCCA
1 CCAGTAACAGTGATTGTGACAAAGCCA
31628079 CCAGT-ACAGT
1 CCAGTAACAGT
31628089 ACTTCCTCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.15
27 26 0.79
28 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGACAAAGCCA
Found at i:31628184 original size:24 final size:24
Alignment explanation
Indices: 31628152--31628207 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
31628142 GCCATGCATG
*
31628152 AAATTAGTCATACAAATCACAAAC
1 AAATCAGTCATACAAATCACAAAC
** * *
31628176 AAATCAGTCATTTAAATCATAGAC
1 AAATCAGTCATACAAATCACAAAC
31628200 AAATCAGT
1 AAATCAGT
31628208 ATTTTAAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.50, C:0.18, G:0.07, T:0.25
Consensus pattern (24 bp):
AAATCAGTCATACAAATCACAAAC
Found at i:31628213 original size:24 final size:24
Alignment explanation
Indices: 31628165--31628286 Score: 104
Period size: 24 Copynumber: 5.1 Consensus size: 24
31628155 TTAGTCATAC
*
31628165 AAATCACAAACAAATCAGTCATTT
1 AAATCATAAACAAATCAGTCATTT
*
31628189 AAATCATAGACAAATCAGT-ATTTT
1 AAATCATAAACAAATCAGTCA-TTT
* *
31628213 AAATCATAAAAAAATTAGTCATTT
1 AAATCATAAACAAATCAGTCATTT
* ** *
31628237 ACATC-TCGGACAAATCATTCATTT
1 AAATCAT-AAACAAATCAGTCATTT
* * * *
31628261 ACATCACAAGCAAATCAATCATTT
1 AAATCATAAACAAATCAGTCATTT
31628285 AA
1 AA
31628287 CCCCGAGGGG
Statistics
Matches: 77, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
23 2 0.03
24 74 0.96
25 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.30
Consensus pattern (24 bp):
AAATCATAAACAAATCAGTCATTT
Found at i:31628405 original size:27 final size:27
Alignment explanation
Indices: 31628304--31628405 Score: 141
Period size: 27 Copynumber: 3.8 Consensus size: 27
31628294 GGGAAAAATA
*
31628304 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
31628331 GTCATTTTACCTTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
31628358 GTCATTTTATCCTACAGGGGCATTGCA
1 GTCATTTTACCCTACAGGGGCATTACG
*
31628385 GTTATTTTACCCTACAGGGGC
1 GTCATTTTACCCTACAGGGGC
31628406 GTTATAGTTC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:31628422 original size:27 final size:27
Alignment explanation
Indices: 31628311--31628424 Score: 93
Period size: 27 Copynumber: 4.2 Consensus size: 27
31628301 ATAGTCATTT
* * * *
31628311 TACCCTATAGGGGCATTACGGTCATTT
1 TACCCTACAGGGGCATTACAGTTATTC
* * * * *
31628338 TACCTTATAGGGGCATTACGGTCATTT
1 TACCCTACAGGGGCATTACAGTTATTC
* * *
31628365 TATCCTACAGGGGCATTGCAGTTATTT
1 TACCCTACAGGGGCATTACAGTTATTC
* * *
31628392 TACCCTACAGGGGCGTTATAGTTCTTC
1 TACCCTACAGGGGCATTACAGTTATTC
31628419 TACCCT
1 TACCCT
31628425 TCGAGAGTAT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (27 bp):
TACCCTACAGGGGCATTACAGTTATTC
Found at i:31628473 original size:27 final size:28
Alignment explanation
Indices: 31628419--31628502 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 28
31628409 ATAGTTCTTC
* *
31628419 TACCCTTCGAGAGTA-TTTCGATAATTT
1 TACCCTTCGAGGGTATTTTAGATAATTT
*
31628446 TACCCTTCGAGGGTATTTTAG-TAGTTT
1 TACCCTTCGAGGGTATTTTAGATAATTT
** **
31628473 TACCCTTTAAGGGTATTCCAG-TAATTT
1 TACCCTTCGAGGGTATTTTAGATAATTT
31628500 TAC
1 TAC
31628503 AACCTTTCCA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 44 0.92
28 4 0.08
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.42
Consensus pattern (28 bp):
TACCCTTCGAGGGTATTTTAGATAATTT
Found at i:31632447 original size:50 final size:50
Alignment explanation
Indices: 31632331--31632623 Score: 424
Period size: 50 Copynumber: 5.8 Consensus size: 50
31632321 GATAATAACA
* * ** *
31632331 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
31632382 TGCCCATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
31632432 TGCCAGCGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
31632482 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGAGACCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
31632532 TGCCAGCGTCATGTCCCAGACATGATCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
31632582 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
31632624 TTACCCAAAT
Statistics
Matches: 215, Mismatches: 27, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
50 181 0.84
51 34 0.16
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:31663634 original size:27 final size:26
Alignment explanation
Indices: 31663570--31663715 Score: 141
Period size: 27 Copynumber: 5.5 Consensus size: 26
31663560 AGGTATAACA
* **
31663570 GTCATTTTACCCTAT-GGGGTACTTCA
1 GTCATTTTACCCT-TCGGGGTATTTTG
*
31663596 GTCATTTTACCCTTTGGGGCTATTTTG
1 GTCATTTTACCCTTCGGGG-TATTTTG
* *
31663623 GTTATTTTACCCTTCGACGGTATTTTG
1 GTCATTTTACCCTTCG-GGGTATTTTG
* *
31663650 ATCATTTTACCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTC-GGGGTATTTTG
* * *
31663677 ATTATTTTACCCTCCGGAGGTATTTTG
1 GTCATTTTACCCTTCGG-GGTATTTTG
31663704 GTCATTTTACCC
1 GTCATTTTACCC
31663716 ACGAATCGCA
Statistics
Matches: 100, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
25 1 0.01
26 19 0.19
27 77 0.77
28 3 0.03
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (26 bp):
GTCATTTTACCCTTCGGGGTATTTTG
Found at i:31663660 original size:54 final size:54
Alignment explanation
Indices: 31663597--31663715 Score: 168
Period size: 54 Copynumber: 2.2 Consensus size: 54
31663587 GGTACTTCAG
* * * *
31663597 TCATTTTACCCTTTGGGGCTATTTTGGTTATTTTACCCTTC-GACGGTATTTTGA
1 TCATTTTACCCTTCGGGGCTATTTCGATTATTTTACCCTCCGGA-GGTATTTTGA
* *
31663651 TCATTTTACCCTTCGGGGGTATTTCGATTATTTTACCCTCCGGAGGTATTTTGG
1 TCATTTTACCCTTCGGGGCTATTTCGATTATTTTACCCTCCGGAGGTATTTTGA
31663705 TCATTTTACCC
1 TCATTTTACCC
31663716 ACGAATCGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 56 0.97
55 2 0.03
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.45
Consensus pattern (54 bp):
TCATTTTACCCTTCGGGGCTATTTCGATTATTTTACCCTCCGGAGGTATTTTGA
Found at i:31670710 original size:28 final size:28
Alignment explanation
Indices: 31670666--31670785 Score: 170
Period size: 28 Copynumber: 4.3 Consensus size: 28
31670656 CCTATACAGT
31670666 AACAGT-ACAGTGTGGGCCTTAGCCCAA
1 AACAGTAACAGTGTGGGCCTTAGCCCAA
* *
31670693 AACAGTAACACTGTGGGCCTTAGCGCAA
1 AACAGTAACAGTGTGGGCCTTAGCCCAA
*
31670721 AACAGTAACAATGTGGGCCTTAGCCCAA
1 AACAGTAACAGTGTGGGCCTTAGCCCAA
* * *
31670749 TACAGTAATAGTGTGGGTCTTAGCCCAA
1 AACAGTAACAGTGTGGGCCTTAGCCCAA
*
31670777 TACAGTAAC
1 AACAGTAAC
31670786 CAGTATAGTG
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
27 6 0.07
28 77 0.93
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (28 bp):
AACAGTAACAGTGTGGGCCTTAGCCCAA
Found at i:31671130 original size:26 final size:27
Alignment explanation
Indices: 31671090--31671181 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
31671080 TTTCATCTCC
**
31671090 TAGGGGTATAACAGTCATTTT-CCCTT
1 TAGGGGTATTTCAGTCATTTTACCCTT
* *
31671116 TGGGGGTATTTCAGTCATTTTACCCTC
1 TAGGGGTATTTCAGTCATTTTACCCTT
*
31671143 TAAGGGTATTTC-GATCATTTTACCCTT
1 TAGGGGTATTTCAG-TCATTTTACCCTT
* *
31671170 CAAGGGTATTTC
1 TAGGGGTATTTC
31671182 GGTTGTAGTG
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
26 19 0.34
27 37 0.66
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.40
Consensus pattern (27 bp):
TAGGGGTATTTCAGTCATTTTACCCTT
Found at i:31686618 original size:43 final size:42
Alignment explanation
Indices: 31686547--31686708 Score: 130
Period size: 43 Copynumber: 3.8 Consensus size: 42
31686537 CAAAAAGCTC
* * *
31686547 ATACAATGTCAATGTCTCAGAC-GTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACAG-GGTCTTACATGTAATCAA
* * * * * *
31686589 ATAACGATGTCACTGTCCCAGATAGGGTCTTACGTGAAATCAT
1 AT-ACGATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAA
* * *
31686632 ATATGATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAA
1 ATACGATGCCAATGTCCCAGACAGGGTCTTACATGT-AA--TCAA
* * *
31686677 AT-CGATGCCAACGTCCCAAACATGGTCTTACA
1 ATACGATGCCAATGTCCCAGACAGGGTCTTACA
31686709 CGATATCACA
Statistics
Matches: 96, Mismatches: 19, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
42 28 0.29
43 35 0.36
44 28 0.29
45 5 0.05
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAA
Found at i:31693642 original size:43 final size:41
Alignment explanation
Indices: 31693550--31693698 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 41
31693540 GTTACTCGGT
* ***
31693550 GGAATCAGCACTTAGCAACCACC-TTA-TATTTTGTGATACGG
1 GGAATCAGCACTTAGCAACC-CCTTTACAATCAAG-GATACGG
* *
31693591 GGAATCAGCACATAACAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCCCTTT-ACAATCAAGGATACGG
* ** *
31693633 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGG
1 -GGAATCAGCACTTAGCAACC-CCTTTACAATCAAGGATACGG
*
31693676 GGAATCAACACTTAGCAACCCCT
1 GGAATCAGCACTTAGCAACCCCT
31693699 CGGGGAATCT
Statistics
Matches: 90, Mismatches: 13, Indels: 10
0.80 0.12 0.09
Matches are distributed among these distances:
40 2 0.02
41 23 0.26
42 27 0.30
43 33 0.37
44 5 0.06
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCCCTTTACAATCAAGGATACGG
Found at i:31693701 original size:26 final size:26
Alignment explanation
Indices: 31693672--31693724 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
31693662 AATCAATAAT
31693672 TCGGGGAATCAACACTTAGCAACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
* *
31693698 TCGGGGAATCTACATTTAGCAACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
31693724 T
1 T
31693725 TTTTTATTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (26 bp):
TCGGGGAATCAACACTTAGCAACCCC
Found at i:31693743 original size:41 final size:41
Alignment explanation
Indices: 31693698--31693807 Score: 166
Period size: 41 Copynumber: 2.7 Consensus size: 41
31693688 TAGCAACCCC
* * * *
31693698 TCGGGGAATCTACATTTAGCAACCCCTTTTTTATTAGAGTT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTT
*
31693739 TCGGGGAATCTGCACTTAGCAATCCCTTTTTGATCAGAGTT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTT
*
31693780 TCGGGGAATCTGTACTTAGCAACCCCTT
1 TCGGGGAATCTGCACTTAGCAACCCCTT
31693808 ACATTCAATG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (41 bp):
TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGAGTT
Found at i:31693898 original size:19 final size:20
Alignment explanation
Indices: 31693849--31693899 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
31693839 TTCAATCGGG
* *
31693849 AACCTTATTTTACAACATTT
1 AACCATATTTTTCAACATTT
*
31693869 TACCA-ACTTTTTCAA-ATTT
1 AACCATA-TTTTTCAACATTT
31693888 AACCATATTTTT
1 AACCATATTTTT
31693900 GTAATCTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (20 bp):
AACCATATTTTTCAACATTT
Found at i:31699622 original size:13 final size:12
Alignment explanation
Indices: 31699585--31699627 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
31699575 AAAAATTCTG
31699585 AAAATTTTATGG-
1 AAAATTTT-TGGA
*
31699597 AAAATTTTCGGA
1 AAAATTTTTGGA
*
31699609 AAAATTTTTGGG
1 AAAATTTTTGGA
31699621 AAAATTT
1 AAAATTT
31699628 ACAAAACTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 2 0.07
12 25 0.93
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (12 bp):
AAAATTTTTGGA
Found at i:31704369 original size:16 final size:16
Alignment explanation
Indices: 31704348--31704379 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31704338 ATTTTGTTGC
*
31704348 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
31704364 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
31704380 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:31716191 original size:16 final size:18
Alignment explanation
Indices: 31716170--31716206 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
31716160 TTTGAGTTAA
31716170 AAAACTAA-ATTG-AAAT
1 AAAACTAATATTGAAAAT
31716186 AAAACTAATATTGAAAAT
1 AAAACTAATATTGAAAAT
31716204 AAA
1 AAA
31716207 CTCCTAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 4 0.21
18 7 0.37
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAACTAATATTGAAAAT
Found at i:31718373 original size:19 final size:18
Alignment explanation
Indices: 31718349--31718384 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
31718339 TCTAAAAAAA
*
31718349 TTTAATATTACAATTTTAT
1 TTTAATAATA-AATTTTAT
31718368 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
31718385 ACTTTAAACG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:31718390 original size:19 final size:19
Alignment explanation
Indices: 31718349--31718391 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
31718339 TCTAAAAAAA
* *
31718349 TTTAATATTACAATTTTAT
1 TTTAATAATACAATTTTAC
31718368 TTTAATAATA-AATTTTAAC
1 TTTAATAATACAATTTT-AC
31718387 TTTAA
1 TTTAA
31718392 ACGCAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTAATAATACAATTTTAC
Found at i:31723201 original size:44 final size:44
Alignment explanation
Indices: 31723138--31723226 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
31723128 CCAAGATACA
31723138 TAGTTTTAACATGCACTACCATTTACTAAAAAAATCGTATTTCT
1 TAGTTTTAACATGCACTACCATTTACTAAAAAAATCGTATTTCT
31723182 TAGTTTTAACATGCACTACCATTTACTAAAAAAATCGTATTTCT
1 TAGTTTTAACATGCACTACCATTTACTAAAAAAATCGTATTTCT
31723226 T
1 T
31723227 TCTCCTATCG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (44 bp):
TAGTTTTAACATGCACTACCATTTACTAAAAAAATCGTATTTCT
Found at i:31724546 original size:25 final size:25
Alignment explanation
Indices: 31724518--31724565 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
31724508 ATGTAAATAC
31724518 TGATGT-ATCTTTGCTTTATAATATA
1 TGATGTAAT-TTTGCTTTATAATATA
*
31724543 TGATTTAATTTTGCTTTATAATA
1 TGATGTAATTTTGCTTTATAATA
31724566 ATATATATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.54
Consensus pattern (25 bp):
TGATGTAATTTTGCTTTATAATATA
Found at i:31730446 original size:29 final size:29
Alignment explanation
Indices: 31730374--31730461 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
31730364 CCACCACTGA
* * **
31730374 TACATAGTACCTGATAAATATAACACTAG
1 TACAAAGTACCTGATAACTATAACACCGG
* * * *
31730403 CACAGAGTGCTTGATAACTATAACACCGG
1 TACAAAGTACCTGATAACTATAACACCGG
31730432 TACAAAGTACCTGATAACTATAATCACCGG
1 TACAAAGTACCTGATAACTATAA-CACCGG
31730462 CACATAATGT
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
29 41 0.87
30 6 0.13
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.24
Consensus pattern (29 bp):
TACAAAGTACCTGATAACTATAACACCGG
Found at i:31730478 original size:30 final size:28
Alignment explanation
Indices: 31730415--31730478 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 28
31730405 CAGAGTGCTT
* *
31730415 GATAACTATAACACCGGTACAAAGTACCT
1 GATAACTATAACACCGGCACAAAGTA-CA
31730444 GATAACTATAATCACCGGCACATAATGT-CA
1 GATAACTATAA-CACCGGCACA-AA-GTACA
31730474 GATAA
1 GATAA
31730479 ATCCTAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
29 11 0.37
30 15 0.50
31 2 0.07
32 2 0.07
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (28 bp):
GATAACTATAACACCGGCACAAAGTACA
Found at i:31749503 original size:21 final size:20
Alignment explanation
Indices: 31749456--31749515 Score: 84
Period size: 21 Copynumber: 3.0 Consensus size: 20
31749446 AAGTCTAAGA
*
31749456 ACCATTCCATTTTCTTAGTT
1 ACCATTCCATTTACTTAGTT
*
31749476 ACCATTCCATTTACTTACTTT
1 ACCATTCCATTTACTTA-GTT
*
31749497 TCCATTCCATTTACTTAGT
1 ACCATTCCATTTACTTAGT
31749516 ATAAACTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 17 0.49
21 18 0.51
ACGTcount: A:0.22, C:0.27, G:0.03, T:0.48
Consensus pattern (20 bp):
ACCATTCCATTTACTTAGTT
Found at i:31753211 original size:40 final size:39
Alignment explanation
Indices: 31753126--31753218 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 39
31753116 ATATTTATTG
* **
31753126 CCTGAATGCACATTCGTGCCCCTGTTTGTACTTCGGTAC
1 CCTGAATGCACATTCGTGCCCCTGTTAGTACTTCGACAC
* *
31753165 CACTGAATGCACATTCGTGCTCTTGTTAGTACTTCGACAC
1 C-CTGAATGCACATTCGTGCCCCTGTTAGTACTTCGACAC
*
31753205 TCCTGAAGGCACAT
1 -CCTGAATGCACAT
31753219 ACATGCTCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.02
40 44 0.96
41 1 0.02
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.31
Consensus pattern (39 bp):
CCTGAATGCACATTCGTGCCCCTGTTAGTACTTCGACAC
Found at i:31768720 original size:44 final size:44
Alignment explanation
Indices: 31768672--31768899 Score: 131
Period size: 44 Copynumber: 5.0 Consensus size: 44
31768662 ATCTTAATCC
*
31768672 GCTCCGCTGTAATCTCAGAGAGATAGGATTACTAGCTTCAATTT
1 GCTCCGCTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATTT
* * * *
31768716 GCTCCGCTGTGATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGAT
1 GCTCCGCTGTAATCTCAGAGAGATAAGATTACTAGCTTCAAT-T--T
* * * **
31768763 GCGATCTACTCTGCTGTAAAT-TCAGAGAGATAAGATCCT-TTA-TTTTAATCC
1 --G--CT-C-C-GCTGT-AATCTCAGAGAGATAAGAT--TACTAGCTTCAATTT
* * * * *
31768814 GCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
1 GCTCCGCTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATTT
* * * *
31768858 GCTCCGCTATAATCTCA-AGGAAATAAGATTTCTGGCTTCAAT
1 GCTCCGCTGTAATCTCAGA-GAGATAAGATTACTAGCTTCAAT
31768900 CTAATGCGAC
Statistics
Matches: 140, Mismatches: 27, Indels: 34
0.70 0.13 0.17
Matches are distributed among these distances:
42 1 0.01
43 5 0.04
44 94 0.67
45 2 0.01
46 1 0.01
47 3 0.02
49 2 0.01
51 2 0.01
52 1 0.01
53 1 0.01
54 24 0.17
55 3 0.02
56 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
GCTCCGCTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATTT
Found at i:31768873 original size:142 final size:142
Alignment explanation
Indices: 31768616--31769037 Score: 673
Period size: 142 Copynumber: 3.0 Consensus size: 142
31768606 GAGATAAGAC
* * * * *
31768616 CTGATGCGATCTACTCTACTGTAACTTCATAAAGATAAGATCCTTTATCTTAATCCGCTCCGCTG
1 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* * * *
31768681 TAATCTCAGAGAGATAGGATTACTAGCTTCAATTTGCTCCGCTGTGATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATT
31768746 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* *
31768758 CTGATGCGATCTACTCTGCTGTAAATTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTA
1 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
31768823 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAAGGAAATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATT
31768888 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* *
31768900 CTAATGCGACCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* ** *
31768965 TAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCTACTATAATCTCAGGGAGATAAGAAT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATT
31769030 TCTGGCTT
131 TCTGGCTT
31769038 TGATCTGCTC
Statistics
Matches: 257, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
142 257 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (142 bp):
CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATT
TCTGGCTTCAAT
Found at i:31769044 original size:44 final size:44
Alignment explanation
Indices: 31768951--31769051 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 44
31768941 CCTTTATTTT
* * * *
31768951 AATCCGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTATAATCTCAGGGAGATAGAATTACTAGCTTC
* * *
31768995 AATCTGCTCTACTATAATCTCAGGGAGATAAGAATT-CTGGCTTT
1 AATCTGCTCCACTATAATCTCAGGGAGAT-AGAATTACTAGCTTC
*
31769039 GATCTGCTCCACT
1 AATCTGCTCCACT
31769052 GTTGCTTAGG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 42 0.89
45 5 0.11
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTATAATCTCAGGGAGATAGAATTACTAGCTTC
Found at i:31777043 original size:20 final size:20
Alignment explanation
Indices: 31777006--31777043 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31776996 TTGCCTTAAA
* *
31777006 ATTCTCCTCAATCCATTTCC
1 ATTCTCCTCAAACAATTTCC
31777026 ATTCTCCTCAAACAATTT
1 ATTCTCCTCAAACAATTT
31777044 TGGTAATTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTCTCCTCAAACAATTTCC
Found at i:31783166 original size:31 final size:31
Alignment explanation
Indices: 31783128--31783191 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
31783118 AAGATAAAAA
*
31783128 ATTGGGTTAAGTGCGATTGGTGTTCCAAGCT
1 ATTGGGTTAAGTGCGATTGGTGTTCCAAACT
*
31783159 ATTGGGTTAAGTGTGATTGGTGTTCCAAACT
1 ATTGGGTTAAGTGCGATTGGTGTTCCAAACT
31783190 AT
1 AT
31783192 GTGATTCTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.11, G:0.30, T:0.38
Consensus pattern (31 bp):
ATTGGGTTAAGTGCGATTGGTGTTCCAAACT
Found at i:31788171 original size:43 final size:43
Alignment explanation
Indices: 31788113--31788357 Score: 216
Period size: 43 Copynumber: 5.8 Consensus size: 43
31788103 TTAAATTTAG
* *
31788113 TGATAC-GGGGAATCAGCAAATAGCAACCCCTTTCACAATCAA
1 TGATACAGTGGAATCAGCACATAGCAACCCCTTTCACAATCAA
* * * *
31788155 TGATACAGTGGAATCAGCACTTAGCAACCACCTTT-ATATTCAG
1 TGATACAGTGGAATCAGCACATAGCAACC-CCTTTCACAATCAA
* * * *
31788198 TGATAGAG-GGAATCAACACACAGCAACCCCTTTCATAATCAAA
1 TGATACAGTGGAATCAGCACATAGCAACCCCTTTCACAATC-AA
* *
31788241 T-ATACGGTGGAATCAGCACATAGCAACCCCTTTCACAATAAAA
1 TGATACAGTGGAATCAGCACATAGCAACCCCTTTCACAAT-CAA
* * * * *
31788284 T-ATACGGTGGAATTAGCACTTAGCAACTACCTTT-AGAATCAA
1 TGATACAGTGGAATCAGCACATAGCAAC-CCCTTTCACAATCAA
* * * *
31788326 TAAT-CCGGGGAATCAGCACTTAGCAACCCCTT
1 TGATACAGTGGAATCAGCACATAGCAACCCCTT
31788358 GGGGAATCTG
Statistics
Matches: 168, Mismatches: 27, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
41 9 0.05
42 55 0.33
43 94 0.56
44 10 0.06
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (43 bp):
TGATACAGTGGAATCAGCACATAGCAACCCCTTTCACAATCAA
Found at i:31788223 original size:42 final size:41
Alignment explanation
Indices: 31788086--31788273 Score: 145
Period size: 43 Copynumber: 4.5 Consensus size: 41
31788076 CGGTGGATTT
* *
31788086 AGCACTTAGCAACCACC-TTAAATTTAGTGATACG-GGGAATC
1 AGCACATAGCAACC-CCTTTAAATTCAGTGATA-GAGGGAATC
* * *
31788127 AGCAAATAGCAACCCCTTTCACAA-TCAATGATACAGTGGAATC
1 AGCACATAGCAACCCCTTT-A-AATTCAGTGATAGAG-GGAATC
* *
31788170 AGCACTTAGCAACCACCTTTATATTCAGTGATAGAGGGAATC
1 AGCACATAGCAACC-CCTTTAAATTCAGTGATAGAGGGAATC
* * *
31788212 AACACACAGCAACCCCTTTCATAA-TCAAAT-ATACG-GTGGAATC
1 AGCACATAGCAACCCCTTT-A-AATTC-AGTGATA-GAG-GGAATC
31788255 AGCACATAGCAACCCCTTT
1 AGCACATAGCAACCCCTTT
31788274 CACAATAAAA
Statistics
Matches: 118, Mismatches: 17, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
40 2 0.02
41 19 0.16
42 34 0.29
43 58 0.49
44 5 0.04
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (41 bp):
AGCACATAGCAACCCCTTTAAATTCAGTGATAGAGGGAATC
Found at i:31788227 original size:85 final size:85
Alignment explanation
Indices: 31788086--31788273 Score: 258
Period size: 85 Copynumber: 2.2 Consensus size: 85
31788076 CGGTGGATTT
* * *
31788086 AGCACTTAGCAACCACC-TTAAATTTAGTGATACGGGGAATCAGCAAATAGCAACCCCTTTCACA
1 AGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAACAAACAGCAACCCCTTTCACA
31788150 ATC-AATGATACAGTGGAATC
66 ATCAAAT-ATACAGTGGAATC
* * *
31788170 AGCACTTAGCAACCACCTTTATATTCAGTGATA-GAGGGAATCAACACACAGCAACCCCTTTCAT
1 AGCACTTAGCAACCACCTTTAAATTCAGTGATACG-GGGAATCAACAAACAGCAACCCCTTTCAC
*
31788234 AATCAAATATACGGTGGAATC
65 AATCAAATATACAGTGGAATC
*
31788255 AGCACATAGCAACC-CCTTT
1 AGCACTTAGCAACCACCTTT
31788274 CACAATAAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
84 23 0.25
85 67 0.72
86 3 0.03
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (85 bp):
AGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAACAAACAGCAACCCCTTTCACA
ATCAAATATACAGTGGAATC
Found at i:31788351 original size:128 final size:127
Alignment explanation
Indices: 31788115--31788357 Score: 328
Period size: 128 Copynumber: 1.9 Consensus size: 127
31788105 AAATTTAGTG
*
31788115 ATACGGGGAATCAGCAAATAGCAACCCCTTTCACAATCAATGATACAGTGGAATCAGCACTTAGC
1 ATACGGGGAATCAGCAAATAGCAACCCCTTTCACAATAAATGATACAGTGGAATCAGCACTTAGC
* * * *
31788180 AACCACCTTTATATTCAGTGATAGAGGGAATCAACACACAGCAACCCCTTTCATAATCAAAT
66 AACCACCTTTAGAATCAATAATAGAGGGAATCAACACACAGCAACCCCTTTCATAATCAAAT
* * *
31788242 ATACGGTGGAATCAGCACATAGCAACCCCTTTCACAATAAAAT-ATACGGTGGAATTAGCACTTA
1 ATACGG-GGAATCAGCAAATAGCAACCCCTTTCACAAT-AAATGATACAGTGGAATCAGCACTTA
* * * **
31788306 GCAACTACCTTTAGAATCAATAATCCG-GGGAATCAGCACTTAGCAACCCCTT
64 GCAACCACCTTTAGAATCAATAAT-AGAGGGAATCAACACACAGCAACCCCTT
31788358 GGGGAATCTG
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
127 6 0.06
128 90 0.90
129 4 0.04
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.23
Consensus pattern (127 bp):
ATACGGGGAATCAGCAAATAGCAACCCCTTTCACAATAAATGATACAGTGGAATCAGCACTTAGC
AACCACCTTTAGAATCAATAATAGAGGGAATCAACACACAGCAACCCCTTTCATAATCAAAT
Found at i:31788361 original size:26 final size:26
Alignment explanation
Indices: 31788332--31788383 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
31788322 TCAATAATCC
31788332 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACTTAGCAACCCCTT
*
31788358 GGGGAATCTGCACTTAGCAACCCCTT
1 GGGGAATCAGCACTTAGCAACCCCTT
31788384 TTTGATTAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (26 bp):
GGGGAATCAGCACTTAGCAACCCCTT
Found at i:31788456 original size:41 final size:40
Alignment explanation
Indices: 31788356--31788464 Score: 200
Period size: 40 Copynumber: 2.7 Consensus size: 40
31788346 TAGCAACCCC
31788356 TTGGGGAATCTGCACTTAGCAACCCCTTTTTGATTAGAGT
1 TTGGGGAATCTGCACTTAGCAACCCCTTTTTGATTAGAGT
*
31788396 TTAGGGAATCTGCACTTAGCAACCCCTTTTTGATTAGAGTT
1 TTGGGGAATCTGCACTTAGCAACCCCTTTTTGATTAGAG-T
31788437 TTGGGGAATCTGCACTTAGCAACCCCTT
1 TTGGGGAATCTGCACTTAGCAACCCCTT
31788465 ACATTCAATG
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
40 38 0.58
41 28 0.42
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (40 bp):
TTGGGGAATCTGCACTTAGCAACCCCTTTTTGATTAGAGT
Found at i:31788555 original size:19 final size:20
Alignment explanation
Indices: 31788506--31788556 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
31788496 TTCAATCGAG
* *
31788506 AACCTTATTTTACAACATTT
1 AACCATATTTTTCAACATTT
*
31788526 TACCA-ACTTTTTCAA-ATTT
1 AACCATA-TTTTTCAACATTT
31788545 AACCATATTTTT
1 AACCATATTTTT
31788557 GTAATCTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (20 bp):
AACCATATTTTTCAACATTT
Found at i:31793746 original size:11 final size:11
Alignment explanation
Indices: 31793730--31793754 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31793720 GTTGGGCACC
31793730 AATAAGAAGAA
1 AATAAGAAGAA
31793741 AATAAGAAGAA
1 AATAAGAAGAA
31793752 AAT
1 AAT
31793755 GTATTTGCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (11 bp):
AATAAGAAGAA
Found at i:31794978 original size:40 final size:39
Alignment explanation
Indices: 31794934--31795174 Score: 252
Period size: 40 Copynumber: 6.1 Consensus size: 39
31794924 ATTATTGTTG
*
31794934 AATGCATATACGTGCCCCTGTTTGAACTTCGGTACCCCTA
1 AATGCACATACGTGCCCCTGTTT-AACTTCGGTACCCCTA
* * *
31794974 AATGCACATACGTGCCCCTATTTAAACTTCGGTACCCTTG
1 AATGCACATACGTGCCCCTGTTT-AACTTCGGTACCCCTA
* * * *
31795014 AATGCACATACGTGCCCCTTTTTGTACTTCAGTACCCCTG
1 AATGCACATACGTGCCCCTGTTT-AACTTCGGTACCCCTA
* * * * *
31795054 AATGCACATATGTGCCCCTATTTCTACTTTGGTACCCCTG
1 AATGCACATACGTGCCCCTGTTT-AACTTCGGTACCCCTA
*
31795094 AATGCACATACGTGCCCTTGTTTATACTTCGGTA-CCCTA
1 AATGCACATACGTGCCCCTGTTTA-ACTTCGGTACCCCTA
* * * *
31795133 AACGCACATACGTG-CCTTGTTTATACTTTGGTAACCCTA
1 AATGCACATACGTGCCCCTGTTTA-ACTTCGGTACCCCTA
31795172 AAT
1 AAT
31795175 CAAATAGTAT
Statistics
Matches: 175, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
38 18 0.10
39 24 0.14
40 133 0.76
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.32
Consensus pattern (39 bp):
AATGCACATACGTGCCCCTGTTTAACTTCGGTACCCCTA
Found at i:31795069 original size:80 final size:80
Alignment explanation
Indices: 31794931--31795148 Score: 305
Period size: 80 Copynumber: 2.7 Consensus size: 80
31794921 ATAATTATTG
* * *
31794931 TTGAATGCATATACGTGCCCCTGTTTGAACTTCGGTACCCCTAAATGCACATACGTGCCCCTATT
1 TTGAATGCACATACGTGCCCCTTTTTGTACTTCGGTACCCCTAAATGCACATACGTGCCCCTATT
31794996 TAAACTTCGGTACCC
66 TAAACTTCGGTACCC
* * *
31795011 TTGAATGCACATACGTGCCCCTTTTTGTACTTCAGTACCCCTGAATGCACATATGTGCCCCTATT
1 TTGAATGCACATACGTGCCCCTTTTTGTACTTCGGTACCCCTAAATGCACATACGTGCCCCTATT
** *
31795076 TCTACTTTGGTACCC
66 TAAACTTCGGTACCC
* * *
31795091 CTGAATGCACATACGTG-CCCTTGTTTATACTTCGGTA-CCCTAAACGCACATACGTGCC
1 TTGAATGCACATACGTGCCCCTT-TTTGTACTTCGGTACCCCTAAATGCACATACGTGCC
31795149 TTGTTTATAC
Statistics
Matches: 122, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
79 23 0.19
80 99 0.81
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.31
Consensus pattern (80 bp):
TTGAATGCACATACGTGCCCCTTTTTGTACTTCGGTACCCCTAAATGCACATACGTGCCCCTATT
TAAACTTCGGTACCC
Found at i:31800760 original size:26 final size:26
Alignment explanation
Indices: 31800724--31800776 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
31800714 TTATATAAAA
31800724 AGGGGTCGCTAAGTGTAGATTCCCCG
1 AGGGGTCGCTAAGTGTAGATTCCCCG
* *
31800750 AGGGGTTGCTAAGTGTTGATTCCCCG
1 AGGGGTCGCTAAGTGTAGATTCCCCG
31800776 A
1 A
31800777 ATTATTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.21, G:0.34, T:0.26
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGTAGATTCCCCG
Found at i:31800988 original size:85 final size:85
Alignment explanation
Indices: 31800750--31800991 Score: 358
Period size: 85 Copynumber: 2.8 Consensus size: 85
31800740 AGATTCCCCG
* * * * * * * *
31800750 AGGGGTTGCTAAGTGTTGATTCCCCGAATTATTGATTTTAAAGGTGGTTGCTAAGTGCTGATTTC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
**
31800815 ACTATATATTTGATTGTGAA
66 ACCGTATATTTGATTGTGAA
*
31800835 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTTATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
* *
31800900 ACCGTATATTTTATTTTGAA
66 ACCGTATATTTGATTGTGAA
*
31800920 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAATGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
31800985 ACCGTAT
66 ACCGTAT
31800992 CACTAAATAT
Statistics
Matches: 142, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 142 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (85 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
ACCGTATATTTGATTGTGAA
Found at i:31800991 original size:43 final size:43
Alignment explanation
Indices: 31800753--31801115 Score: 307
Period size: 43 Copynumber: 8.6 Consensus size: 43
31800743 TTCCCCGAGG
* * * * * *
31800753 GGTTGCTAAGTGTTGATTCC-CCGAATTATTGATTTTAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCACTGAATATAAAGGT
* ** * * *
31800795 GGTTGCTAAGTGCTGATTTCACTATAT-ATTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGTATCA-CTGAATAT-AAAGGT
*
31800838 GGTTGCTATGTGCTGATTCC-CCGTATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCACTGAATATAAAGGT
* * * * *
31800880 GGTTGCTAAGTGCTTATTCCACCGTAT-ATTTTATTTTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGTATCA-CTGAATAT-AAAGGT
*
31800923 GGTTGCTATGTGCTGATTCC-CCGTATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCACTGAATATAAAGGT
* *
31800965 GGTTGCTAAATGCTGATTCCACCGTATCACTAAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCACTGAATATAAAGGT
* * * * * *
31801008 GGTTGCTAAATACTGATTCCATCGTATC-TTTAACTGTAAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGTATCACTGAA-TAT-AAAGGT
* * *
31801051 GGTTGCTATGTGCTGATTCC-TCGTATCACTGAAT-TTAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGTATCACTGAATATAAAGGT
* *
31801092 GGTTACTAAGTGCTGAATCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
31801116 AGTAACGGAT
Statistics
Matches: 262, Mismatches: 43, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
40 4 0.02
41 28 0.11
42 88 0.34
43 127 0.48
44 15 0.06
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCACTGAATATAAAGGT
Found at i:31801001 original size:128 final size:127
Alignment explanation
Indices: 31800833--31801115 Score: 399
Period size: 128 Copynumber: 2.2 Consensus size: 127
31800823 TTTGATTGTG
* * * * *
31800833 AAAGG-GGTTGCTATGTGCTGATTCC-CCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTTA
1 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCACTAAATATAAAGGTGGTTGCTAAATACTGA
* * * *
31800896 TTCCACCGTATATTTTATTTTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATAT
66 TTCCACCGTATATTTAACTGTAAAAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-T
*
31800959 AAAGGTGGTTGCTAAATGCTGATTCCACCGTATCACTAAATATAAAGGTGGTTGCTAAATACTGA
1 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCACTAAATATAAAGGTGGTTGCTAAATACTGA
* * *
31801024 TTCCATCGTATCTTTAACTGTAAAAGGGGTTGCTATGTGCTGATTCCTCGTATCACTGAATT
66 TTCCACCGTATATTTAACTGTAAAAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATT
* * *
31801086 TAAGGTGGTTACTAAGTGCTGAATCCACCG
1 AAAGGTGGTTGCTAAGTGCTGATTCCACCG
31801116 AGTAACGGAT
Statistics
Matches: 138, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
126 5 0.04
127 45 0.33
128 88 0.64
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (127 bp):
AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCACTAAATATAAAGGTGGTTGCTAAATACTGA
TTCCACCGTATATTTAACTGTAAAAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATT
Found at i:31801012 original size:85 final size:84
Alignment explanation
Indices: 31800750--31801107 Score: 316
Period size: 85 Copynumber: 4.2 Consensus size: 84
31800740 AGATTCCCCG
* * * * * * *
31800750 AGGGGTTGCTAAGTGTTGATTCCCCGAATTATTGATTTTAAAGGTGGTTGCTAAGTGCTGATTTC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
** * *
31800815 ACTATATATTTGATTGTGAA
66 ACCGTATATCTGAAT-TGAA
* *
31800835 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTTATTCC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
* * *
31800900 ACCGTATATTTTATTTTGAA
66 ACCGTATATCTGA-ATTGAA
* *
31800920 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAATGCTGATTCC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
*
31800985 ACCGTATCA-CTAAATAT-AA
66 ACCGTAT-ATCTGAAT-TGAA
* * * * * * *
31801004 AGGTGGTTGCTAAATACTGATTCCATCGTATC-TTTAACTGTAAAAGG-GGTTGCTATGTGCTGA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATCACTGAA-TAT-AAAGGTGGTTGCTAAGTGCTGA
* *
31801067 TTCC-TCGTATCA-CTGAATT-TA
62 TTCCACCGTAT-ATCTGAATTGAA
*
31801088 AGGTGGTTACTAAGTGCTGA
1 AGG-GGTTGCTAAGTGCTGA
31801108 ATCCACCGAG
Statistics
Matches: 234, Mismatches: 32, Indels: 15
0.83 0.11 0.05
Matches are distributed among these distances:
84 25 0.11
85 175 0.75
86 29 0.12
87 5 0.02
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.36
Consensus pattern (84 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
ACCGTATATCTGAATTGAA
Found at i:31810105 original size:25 final size:27
Alignment explanation
Indices: 31810077--31810137 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
31810067 AGGGGTAAAA
*
31810077 TGGTAATTTTA-CCATAG-GGGTATTT
1 TGGTCATTTTACCCATAGAGGGTATTT
* *
31810102 TGGTCATTTTACCCTTCGAGGGTATTT
1 TGGTCATTTTACCCATAGAGGGTATTT
31810129 TGGTCATTT
1 TGGTCATTT
31810138 AACAACCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 10 0.32
26 4 0.13
27 17 0.55
ACGTcount: A:0.18, C:0.13, G:0.23, T:0.46
Consensus pattern (27 bp):
TGGTCATTTTACCCATAGAGGGTATTT
Found at i:31816043 original size:17 final size:18
Alignment explanation
Indices: 31816029--31816112 Score: 80
Period size: 19 Copynumber: 4.4 Consensus size: 18
31816019 ATAATCTTCG
31816029 AGGATATGCAATCTTAGA
1 AGGATATGCAATCTTAGA
*
31816047 TATGATATGCAATCTTAGA
1 -AGGATATGCAATCTTAGA
*
31816066 TATGATATATGCAATCTTAGA
1 -A-G-GATATGCAATCTTAGA
* *
31816087 TATGATATGTAATCTTAGA
1 -AGGATATGCAATCTTAGA
31816106 A-GATATG
1 AGGATATG
31816113 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
17 6 0.11
18 1 0.02
19 33 0.58
21 17 0.30
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (18 bp):
AGGATATGCAATCTTAGA
Found at i:31816055 original size:19 final size:19
Alignment explanation
Indices: 31816031--31816105 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
31816021 AATCTTCGAG
31816031 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
31816050 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
31816069 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
31816090 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
31816106 AGATATGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 34 0.64
21 19 0.36
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:31816077 original size:21 final size:21
Alignment explanation
Indices: 31816032--31816094 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
31816022 ATCTTCGAGG
31816032 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
31816051 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
31816072 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
31816093 AT
1 AT
31816095 GTAATCTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.45
21 23 0.55
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:31816124 original size:23 final size:22
Alignment explanation
Indices: 31816044--31816128 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
31816034 ATGCAATCTT
*
31816044 AGATATGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
31816065 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
31816084 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
31816106 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
31816129 GATTTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 15 0.28
22 10 0.19
23 13 0.24
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:31816138 original size:22 final size:23
Alignment explanation
Indices: 31816094--31816138 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
31816084 AGATATGATA
*
31816094 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
31816117 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
31816139 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:31816687 original size:25 final size:25
Alignment explanation
Indices: 31816637--31816687 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
31816627 TCCATTTTCT
*
31816637 TTATTTTTTATTAATTAGTTTTTTA
1 TTATTTTTTATTAATTAGTTTATTA
31816662 TTATTTTTT-TTATATTTAG-TTATTA
1 TTATTTTTTATTA-A-TTAGTTTATTA
31816687 T
1 T
31816688 AAAAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 3 0.13
25 16 0.70
26 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (25 bp):
TTATTTTTTATTAATTAGTTTATTA
Found at i:31816777 original size:27 final size:27
Alignment explanation
Indices: 31816730--31816808 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 27
31816720 TCATATACGC
*
31816730 ATATTTATTT-TTTGTAGTATAATATAA
1 ATATTTATTTATTTATAGTAT-ATATAA
* *
31816757 ATATTTATTTATTTAT-TTATATGTAA
1 ATATTTATTTATTTATAGTATATATAA
* * *
31816783 TTATTTTTTTATCTATATGTATATAT
1 ATATTTATTTATTTATA-GTATATAT
31816809 TTATTTTAGT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
26 18 0.44
27 13 0.32
28 10 0.24
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (27 bp):
ATATTTATTTATTTATAGTATATATAA
Found at i:31816812 original size:26 final size:26
Alignment explanation
Indices: 31816730--31816815 Score: 74
Period size: 22 Copynumber: 3.4 Consensus size: 26
31816720 TCATATACGC
* * *
31816730 ATATTTATTTTTTGTA-GTATAATATAA
1 ATATTTATTTTTT-TATCTAT-ATGTAT
* *
31816757 ATATTTATTTATTTATTTATATG--T
1 ATATTTATTTTTTTATCTATATGTAT
31816781 A-A-TTATTTTTTTATCTATATGTAT
1 ATATTTATTTTTTTATCTATATGTAT
31816805 ATATTTATTTT
1 ATATTTATTTT
31816816 AGTATACATA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
22 17 0.35
23 1 0.02
24 3 0.06
25 1 0.02
26 11 0.23
27 15 0.31
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (26 bp):
ATATTTATTTTTTTATCTATATGTAT
Found at i:31821067 original size:6 final size:6
Alignment explanation
Indices: 31821058--31821090 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
31821048 TAAAAGTGAT
31821058 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
31821091 TGGAGAGGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:31822602 original size:176 final size:176
Alignment explanation
Indices: 31822294--31822758 Score: 614
Period size: 176 Copynumber: 2.6 Consensus size: 176
31822284 GCAGATCAGT
* * * * *
31822294 GAAGATAGCAGGTCCTGTCTTC-CTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTGTC
1 GAAGAT-GCAGATCTTGTCTTCAC-ATAATGGTCGTGAAGTAGATCGAAGATAGCAGATCTTGTC
* * * * *
31822356 TTCCCATATTAGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTATTCATTTATTGGCGTGAAGT
64 TTCCTATATTGGT-GCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGACGTGAAGT
* *
31822421 AGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATC
128 AGATCGAAAATAGCAGGTCCTGTCTTCCTATATTAGTAGGAAGTGGATC
** * ***
31822470 GAAGATGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCAATCTT
1 GAAGATGCAGATCTTGTCTTCACATAATGGTCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTT
*
31822534 CCTATATTGGTAGCGAAATAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGACGTGAAGTAG
66 CCTATATTGGT-GCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGACGTGAAGTAG
31822599 ATCGAAAATAGCAGGTCCTGTCTTCCTATATTAGTAGGAAGTGGATC
130 ATCGAAAATAGCAGGTCCTGTCTTCCTATATTAGTAGGAAGTGGATC
* * *
31822646 GAAGATGCAGATCTTGTCTTCCCATAATGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
1 GAAGATGCAGATCTTGTCTTCACATAATGGTCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTT
* * * * * *
31822711 CATGTATTGGTGTGAAGTAGATCGAAGATAGTAGATCTTGCCTTCATG
66 CCTATATTGGTGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATG
31822759 CACCGACAGC
Statistics
Matches: 251, Mismatches: 34, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
174 1 0.00
175 34 0.14
176 178 0.71
177 38 0.15
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (176 bp):
GAAGATGCAGATCTTGTCTTCACATAATGGTCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTT
CCTATATTGGTGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGA
TCGAAAATAGCAGGTCCTGTCTTCCTATATTAGTAGGAAGTGGATC
Found at i:31822758 original size:44 final size:45
Alignment explanation
Indices: 31822294--31822757 Score: 473
Period size: 44 Copynumber: 10.5 Consensus size: 45
31822284 GCAGATCAGT
* * * *
31822294 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATC
** * * *
31822338 GAAGAT-GCAGATCTTGTCTTCCCATATTAGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATC
* * * *
31822382 GAAGAAAGCAGATCTTGTATTCATTTATTGG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATC
* * * *
31822426 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATC
* *
31822470 GAAGAT-GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATC
*** * * *
31822513 GAAGATAGCAGATCCAATCTTCCTATATTGGTAGCGAAATAGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATC
* *
31822558 GAAGAAAGCAGATCTTGTCTTCATGTATT-G-ACGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTA-GTGAAGTAGATC
* * * * * *
31822602 GAAAATAGCAGGTCCTGTCTTCCTATATTAGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATC
** * *
31822646 GAAGAT-GCAGATCTTGTCTTCCCATAATGGTGGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATC
* *
31822690 GAAGAAAGCAGATCTTGTCTTCATGTATTGGT-GTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATC
* *
31822734 GAAGATAGTAGATCTTGCCTTCAT
1 GAAGATAGCAGATCTTGTCTTCAT
31822758 GCACCGACAG
Statistics
Matches: 342, Mismatches: 67, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
42 1 0.00
43 79 0.23
44 185 0.54
45 76 0.22
46 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCATATATTGGTAGTGAAGTAGATC
Found at i:31822947 original size:44 final size:44
Alignment explanation
Indices: 31822879--31823084 Score: 222
Period size: 44 Copynumber: 4.7 Consensus size: 44
31822869 TGACCTCAGC
* *
31822879 CCTATCTCCCTGGTCAGCAATGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * *
31822923 CCTATCTCCCTGGTCAACAGTGGAATAGGGTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * * *
31822967 TCTATCTTCCTGGGT-AGTAGTGGAAT-GGATTGAAGATTGT-AGGT
1 CCTATCTCCCT-GGTCAGCAGTGGAATAGG-TTGAAGATTGTGA-AT
* * *
31823011 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGTAGATCGTGAAC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
31823055 CCTATCTCCCTGAGT-AGTAGTGGAGTAGGT
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGT
31823085 GGAAAATAGC
Statistics
Matches: 134, Mismatches: 21, Indels: 14
0.79 0.12 0.08
Matches are distributed among these distances:
43 6 0.04
44 120 0.90
45 8 0.06
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:31823619 original size:128 final size:129
Alignment explanation
Indices: 31823391--31823642 Score: 319
Period size: 128 Copynumber: 2.0 Consensus size: 129
31823381 ATGACAAATT
* ** * *
31823391 TTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGTCGATAATCCTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGTAAATAATCCTATCTCCCTAAAGTTGCAGC
* * * *
31823456 GAAGCGGATTAAAACCTTGGGTCTTATCTCTCTGAAGTTTCAG-AGAGCAGAACGCATCTAGTC
66 GAAGCGGATTAAAACCATGGATCTTATCTCTCTGAAATTACAGTAGAGCAGAACGCATCTAGTC
* * *
31823519 TTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAA-TAAACTAATCCTATCTCCCTAAAGTTGTAG
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGTAAA-TAATCCTATCTCCCTAAAGTTGCAG
* * * ** *
31823583 CGGAGTGGATTAGAATGATGGATCTTATCTCTCTGAAATTACAGTAGAGCAGATCGCATC
65 CGAAGCGGATTAAAACCATGGATCTTATCTCTCTGAAATTACAGTAGAGCAGAACGCATC
31823643 AAATTCATCT
Statistics
Matches: 104, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
127 2 0.02
128 88 0.85
129 14 0.13
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (129 bp):
TTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGTAAATAATCCTATCTCCCTAAAGTTGCAGC
GAAGCGGATTAAAACCATGGATCTTATCTCTCTGAAATTACAGTAGAGCAGAACGCATCTAGTC
Found at i:31823949 original size:19 final size:19
Alignment explanation
Indices: 31823925--31823978 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
31823915 AATCTTCGAG
31823925 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
31823944 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
31823963 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
31823979 AGTTATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:31824546 original size:33 final size:33
Alignment explanation
Indices: 31824487--31824551 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
31824477 TTACAGTTTA
*
31824487 AATTAGTCTTTTTTCCATTTTCTTTATTTTTAAT
1 AATTAGTCTTTTTT-CATTTTCTTTATATTTAAT
31824521 AATTAGT-TTTTTT-ATTCTTCTTTTATATTTA
1 AATTAGTCTTTTTTCATT-TTC-TTTATATTTA
31824552 GTTATTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 3 0.11
32 3 0.11
33 15 0.54
34 7 0.25
ACGTcount: A:0.22, C:0.09, G:0.03, T:0.66
Consensus pattern (33 bp):
AATTAGTCTTTTTTCATTTTCTTTATATTTAAT
Found at i:31840558 original size:28 final size:27
Alignment explanation
Indices: 31840495--31840564 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
31840485 ATATTAAGTC
*
31840495 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
31840522 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
31840550 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31840565 GTACAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:31848417 original size:29 final size:27
Alignment explanation
Indices: 31848399--31848468 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
31848389 ATATTAAGTC
31848399 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
31848426 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
31848454 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
31848469 GTACAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:31848462 original size:28 final size:28
Alignment explanation
Indices: 31848399--31848496 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
31848389 ATATTAAGTC
*
31848399 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
31848426 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
31848454 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
31848483 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31848497 CAATCTCAGG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.34
28 22 0.35
29 19 0.31
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:31861994 original size:25 final size:25
Alignment explanation
Indices: 31861966--31862040 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
31861956 AACAACCTCT
31861966 CAAATTAGATAATCACCTAACTTAA
1 CAAATTAGATAATCACCTAACTTAA
*
31861991 CAAA-TAG-TCAAACAACCT--C-T--
1 CAAATTAGAT-AATC-ACCTAACTTAA
*
31862011 CAAATTAGATAATCACGTAACTTAA
1 CAAATTAGATAATCACCTAACTTAA
31862036 CAAAT
1 CAAAT
31862041 CATCCTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 18
0.64 0.05 0.31
Matches are distributed among these distances:
20 7 0.18
21 6 0.16
22 3 0.08
23 3 0.08
24 6 0.16
25 13 0.34
ACGTcount: A:0.48, C:0.21, G:0.05, T:0.25
Consensus pattern (25 bp):
CAAATTAGATAATCACCTAACTTAA
Found at i:31864689 original size:21 final size:21
Alignment explanation
Indices: 31864641--31864709 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
31864631 AACTGGGCCA
* *
31864641 TGTGGCTTTCCC-ACATGACCG
1 TGTGGC-TTCCCTACATGGCTG
*
31864662 TGAGGCTTCCCTACATGGCTG
1 TGTGGCTTCCCTACATGGCTG
* *
31864683 TGTGGCTTTCCTATAT-GCATG
1 TGTGGCTTCCCTACATGGC-TG
31864704 TGTGGC
1 TGTGGC
31864710 CAGACCGTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
20 7 0.17
21 33 0.82
ACGTcount: A:0.13, C:0.26, G:0.28, T:0.33
Consensus pattern (21 bp):
TGTGGCTTCCCTACATGGCTG
Found at i:31865619 original size:34 final size:34
Alignment explanation
Indices: 31865580--31865647 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
31865570 CCTATGAATA
31865580 GCCCATACATTTCTTTATTTCCCAACATCCTCAT
1 GCCCATACATTTCTTTATTTCCCAACATCCTCAT
*
31865614 GCCCATACATTTCTTTATTTCCCAACATTCTCAT
1 GCCCATACATTTCTTTATTTCCCAACATCCTCAT
31865648 AAACTTTTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.24, C:0.34, G:0.03, T:0.40
Consensus pattern (34 bp):
GCCCATACATTTCTTTATTTCCCAACATCCTCAT
Found at i:31866937 original size:43 final size:43
Alignment explanation
Indices: 31866890--31867019 Score: 174
Period size: 43 Copynumber: 3.0 Consensus size: 43
31866880 CATGGTCGTA
*
31866890 TCACTTTGCCGTGTGTCACACATGGCTGAGACACACACCTATG
1 TCACTTTGCCGTGTGTCACACATGGCTGAGACACACACCCATG
* * * *
31866933 TCACTTGGCTGTGTGTCACACATGACTGAGACACACACCCGTG
1 TCACTTTGCCGTGTGTCACACATGGCTGAGACACACACCCATG
* *
31866976 T--CTCTGCCCGTGTGTCACACACGGCTGAGACACACACCCATG
1 TCACTTTG-CCGTGTGTCACACATGGCTGAGACACACACCCATG
31867018 TC
1 TC
31867020 TCTGCTTGTG
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
41 3 0.04
42 32 0.43
43 39 0.53
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.23
Consensus pattern (43 bp):
TCACTTTGCCGTGTGTCACACATGGCTGAGACACACACCCATG
Found at i:31867004 original size:42 final size:42
Alignment explanation
Indices: 31866898--31867024 Score: 182
Period size: 42 Copynumber: 3.0 Consensus size: 42
31866888 TATCACTTTG
* * *
31866898 CCGTGTGTCACACATGGCTGAGACACACACCTATGTCACTTGG
1 CCGTGTGTCACACATGGCTGAGACACACACCCATGTCTC-TGC
* * *
31866941 CTGTGTGTCACACATGACTGAGACACACACCCGTGTCTCTGC
1 CCGTGTGTCACACATGGCTGAGACACACACCCATGTCTCTGC
*
31866983 CCGTGTGTCACACACGGCTGAGACACACACCCATGTCTCTGC
1 CCGTGTGTCACACATGGCTGAGACACACACCCATGTCTCTGC
31867025 TTGTGTGGAT
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 40 0.54
43 34 0.46
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.22
Consensus pattern (42 bp):
CCGTGTGTCACACATGGCTGAGACACACACCCATGTCTCTGC
Found at i:31876273 original size:26 final size:26
Alignment explanation
Indices: 31876223--31876273 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
31876213 CCAATATCGC
* *
31876223 AGCATAGCTGCCAATAGTAATAATGT
1 AGCAGAGCTGCCAATAGTAAGAATGT
* *
31876249 AGCAGAGCTGCCAGTAGTCAGAATG
1 AGCAGAGCTGCCAATAGTAAGAATG
31876274 GCTAAAAGCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (26 bp):
AGCAGAGCTGCCAATAGTAAGAATGT
Found at i:31876304 original size:22 final size:22
Alignment explanation
Indices: 31876267--31876331 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
31876257 TGCCAGTAGT
* * *
31876267 CAGAATGGCTAAAAGCCGTAAA
1 CAGAATAGCTATAAGCCATAAA
* *
31876289 CAGGATAGCTATAAGCTATAAA
1 CAGAATAGCTATAAGCCATAAA
*
31876311 CAGAATGGCTATAAGCCATAA
1 CAGAATAGCTATAAGCCATAA
31876332 GTACAGTAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.18
Consensus pattern (22 bp):
CAGAATAGCTATAAGCCATAAA
Found at i:31876393 original size:32 final size:32
Alignment explanation
Indices: 31876323--31876493 Score: 204
Period size: 32 Copynumber: 5.4 Consensus size: 32
31876313 GAATGGCTAT
* * *
31876323 AAGCCATAAGT-ACAGTAATATGATTGGCTCA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
31876354 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
31876386 CAA-CCATCAGTAACAGTAATATGATCAGCGCC
1 -AAGCCATCAGTAACAGTAATATGATCGGCACA
*
31876418 AAGCCATCAGTAAC-GATAATATGATCGACACA
1 AAGCCATCAGTAACAG-TAATATGATCGGCACA
* *
31876450 AAGCCATCAGTAACGGTAATATGATCGGCATA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
31876482 AAGCCATCAGTA
1 AAGCCATCAGTA
31876494 GTATCGCAGT
Statistics
Matches: 119, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
31 13 0.11
32 103 0.87
33 3 0.03
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:31876739 original size:27 final size:27
Alignment explanation
Indices: 31876701--31877552 Score: 921
Period size: 27 Copynumber: 31.6 Consensus size: 27
31876691 CCACTAGGGC
* * *
31876701 ATTACGGTTATTTTACCCTATAGGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
* * *
31876728 ATTACGATTATTTTACCCTATAGGGGC
1 ATTACGATCATTTTACCCTACAGGGGT
* *
31876755 ATTACAATCATTATACCCTACAGGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
* * *
31876782 ATTACGATCATTTTATCCTACAGTGGC
1 ATTACGATCATTTTACCCTACAGGGGT
* * * *
31876809 ATTA-TAGTTATTTTACCCTATAGGGGC
1 ATTACGA-TCATTTTACCCTACAGGGGT
*
31876836 ATTA-TAGTCATTTTACCCTACAGGGGT
1 ATTACGA-TCATTTTACCCTACAGGGGT
* *
31876863 ATTACGGTCATTTTACCCTACAGGGGC
1 ATTACGATCATTTTACCCTACAGGGGT
*
31876890 ATTAC-AGTCATTTTACCCTACAGGGGC
1 ATTACGA-TCATTTTACCCTACAGGGGT
* * *
31876917 ATTACGACCATTTTACCCTACAAGAGT
1 ATTACGATCATTTTACCCTACAGGGGT
31876944 ATTAC-AGTCATTTTACCCTACAGGGGT
1 ATTACGA-TCATTTTACCCTACAGGGGT
* * *
31876971 ATTAC-AGTTATTTTACCCTATAGGGGC
1 ATTACGA-TCATTTTACCCTACAGGGGT
* * * *
31876998 ATTATGGTCATTTTACCGTACAGGGGC
1 ATTACGATCATTTTACCCTACAGGGGT
* * *
31877025 ATTGCGGTCATTTTACCCAACAGGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
* *
31877052 ATTA-TAGTCATTTTACCCTACAGGGGC
1 ATTACGA-TCATTTTACCCTACAGGGGT
* *
31877079 ATTACGATCATTTTACCCTACATGGGC
1 ATTACGATCATTTTACCCTACAGGGGT
*
31877106 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
* * *
31877133 ATTACGGTCATTTTATCCTACGGGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
31877160 ATTACGATCATTTTACCCTACAGGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
*
31877187 ATTAC-AGTCATTTTACCCTACAGGGGC
1 ATTACGA-TCATTTTACCCTACAGGGGT
* * * * *
31877214 ATTATGGTCATTTTACCGTACATGGGC
1 ATTACGATCATTTTACCCTACAGGGGT
31877241 ATTACGATCATTTTACCCTACAGGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
* * * *
31877268 ATTA-TAGTCATTTTACCCCACAGAGGC
1 ATTACGA-TCATTTTACCCTACAGGGGT
* *
31877295 ATTACGATCATTTTACCCTACATGGGC
1 ATTACGATCATTTTACCCTACAGGGGT
*
31877322 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
* **
31877349 ATTACGGTCATTTTACCCTATGGGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
*
31877376 ATTACGATCATTTTACCCTACAGGGGC
1 ATTACGATCATTTTACCCTACAGGGGT
* * * *
31877403 ATTACGGTCATTTTACCTTATAGGTGT
1 ATTACGATCATTTTACCCTACAGGGGT
* *
31877430 ATTATGATCATTTTACCCTACAAGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
* *
31877457 ATTAC-AGTCATTTTACCTTACAAGGGT
1 ATTACGA-TCATTTTACCCTACAGGGGT
* *
31877484 ATTACGGTCATTTTACCCTACAAGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
* **
31877511 ATTACGGTCATTTTACCCTGTAGGGGT
1 ATTACGATCATTTTACCCTACAGGGGT
*
31877538 ATTACGGTCATTTTA
1 ATTACGATCATTTTA
31877553 TAAATATTGG
Statistics
Matches: 707, Mismatches: 104, Indels: 28
0.84 0.12 0.03
Matches are distributed among these distances:
26 5 0.01
27 699 0.99
28 3 0.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
ATTACGATCATTTTACCCTACAGGGGT
Found at i:31879572 original size:43 final size:42
Alignment explanation
Indices: 31879524--31879695 Score: 136
Period size: 43 Copynumber: 4.1 Consensus size: 42
31879514 GTGTGATTTC
* *
31879524 GTGTAATACCATGTCTGGGACATTGGCATCGATATGAGATTAT
1 GTGTAAGACCATATCTGGGACATTGGCATCG-TATGAGATTAT
* * *
31879567 GTGTAAGGCCATGTCTAGGACATTGGCAT-GTAT-ATGATT-T
1 GTGTAAGACCATATCTGGGACATTGGCATCGTATGA-GATTAT
* * ** * * *
31879607 GTGTAAGACCCTATCTGAGACAGAGGCATCGATATGTGATAAC
1 GTGTAAGACCATATCTGGGACATTGGCATCG-TATGAGATTAT
* * * *
31879650 ATGTAAGACCATATCTGGGATA-TGGCATTGTATGTGATATAT
1 GTGTAAGACCATATCTGGGACATTGGCATCGTATGAGAT-TAT
31879692 GTGT
1 GTGT
31879696 TTTTGAGTAT
Statistics
Matches: 101, Mismatches: 22, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
40 24 0.24
41 16 0.16
42 17 0.17
43 44 0.44
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGACATTGGCATCGTATGAGATTAT
Found at i:31882928 original size:47 final size:47
Alignment explanation
Indices: 31882841--31883008 Score: 255
Period size: 47 Copynumber: 3.6 Consensus size: 47
31882831 CCCTTCGGGA
* * * * * *
31882841 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
31882888 CCTGTTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31882935 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31882982 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
31883009 ACCAACCCTT
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 109 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31883304 original size:39 final size:40
Alignment explanation
Indices: 31883214--31883374 Score: 170
Period size: 40 Copynumber: 4.0 Consensus size: 40
31883204 CAGAATTTAA
** *
31883214 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
31883254 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31883293 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
31883333 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
31883373 CC
1 CC
31883375 AGACATCATT
Statistics
Matches: 102, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 55 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:31901736 original size:24 final size:24
Alignment explanation
Indices: 31901709--31901756 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
31901699 CACGTGATTC
* *
31901709 TGTATGATGCCTTTATGGTGTATT
1 TGTATGACGCCTTTATGGAGTATT
*
31901733 TGTATGACGCCTTTGTGGAGTATT
1 TGTATGACGCCTTTATGGAGTATT
31901757 CCATAAGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.10, G:0.27, T:0.46
Consensus pattern (24 bp):
TGTATGACGCCTTTATGGAGTATT
Found at i:31910168 original size:27 final size:27
Alignment explanation
Indices: 31910138--31910427 Score: 327
Period size: 27 Copynumber: 10.8 Consensus size: 27
31910128 CATCTTTTAG
*
31910138 GGGTATTTCGGGCATTTTACCCTATGA
1 GGGTATTTCGGTCATTTTACCCTATGA
* *
31910165 GGGTATTTCGATCATTTTATCCTATGA
1 GGGTATTTCGGTCATTTTACCCTATGA
*
31910192 GGGTATTTTGGTCATTTTACCCTATG-
1 GGGTATTTCGGTCATTTTACCCTATGA
**
31910218 GGTGTATTTCGGTCATTTTTTCCTATG-
1 GG-GTATTTCGGTCATTTTACCCTATGA
* *
31910245 GGGATCTTTCAGTCATTTTACCCTAT-A
1 GGG-TATTTCGGTCATTTTACCCTATGA
* *
31910272 GGGGTATTTTGGTTATTTTACCCTATGA
1 -GGGTATTTCGGTCATTTTACCCTATGA
* *
31910300 GGGTATTTCGGTTATTTTACCTTATGA
1 GGGTATTTCGGTCATTTTACCCTATGA
* ** *
31910327 GGGTATTTTGGTCATTTTTTCCTATAA
1 GGGTATTTCGGTCATTTTACCCTATGA
* *
31910354 GGGTATTTCAGTCATTTTATCCTATG-
1 GGGTATTTCGGTCATTTTACCCTATGA
* *
31910380 GGGTATTTCGGTCATTTTACCTTATGG
1 GGGTATTTCGGTCATTTTACCCTATGA
**
31910407 GGGTATTTTAGTCATTTTACC
1 GGGTATTTCGGTCATTTTACC
31910428 TATTTTGGGG
Statistics
Matches: 223, Mismatches: 34, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
26 26 0.12
27 193 0.87
28 4 0.02
ACGTcount: A:0.18, C:0.15, G:0.21, T:0.46
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTATGA
Found at i:31919279 original size:16 final size:15
Alignment explanation
Indices: 31919252--31919285 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
31919242 ATAACTAGTA
*
31919252 TATAATTATATTTAT
1 TATAATTATATTAAT
31919267 TATAATATATATTAAT
1 TATAAT-TATATTAAT
31919283 TAT
1 TAT
31919286 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:31919981 original size:25 final size:24
Alignment explanation
Indices: 31919942--31920000 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
31919932 ACTTTTCTCC
*
31919942 TAAATTTTAATTTTATTTAATTATT
1 TAAATTTTAATTTTATTGAATTA-T
31919967 TAAATTTTCAA-TTTATTGAATTAT
1 TAAATTTT-AATTTTATTGAATTAT
31919991 TAATATTTTA
1 TAA-ATTTTA
31920001 TACTAACTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 5 0.16
25 24 0.77
26 2 0.06
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
TAAATTTTAATTTTATTGAATTAT
Found at i:31937677 original size:72 final size:72
Alignment explanation
Indices: 31937560--31937704 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 72
31937550 TTCCCAAGTC
*
31937560 CTGGCTTGAACTTGGGACCTCCCAAACACTCCGAGAACACATAACCACTAAAGCTGACAAATATT
1 CTGGCTTGAACTTGGGACCTCCCAAACACTCCCAGAACACATAACCACTAAAGCTGACAAATATT
31937625 TATGTCA
66 TATGTCA
31937632 CTGGCTTGAACTTGGGACCTCCCAAACACTCCCAGAACACATAACCACTAAAGCTGACAAATATT
1 CTGGCTTGAACTTGGGACCTCCCAAACACTCCCAGAACACATAACCACTAAAGCTGACAAATATT
*
31937697 TGTGTCA
66 TATGTCA
31937704 C
1 C
31937705 ACATTCACAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (72 bp):
CTGGCTTGAACTTGGGACCTCCCAAACACTCCCAGAACACATAACCACTAAAGCTGACAAATATT
TATGTCA
Found at i:31939869 original size:15 final size:15
Alignment explanation
Indices: 31939845--31939876 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31939835 CATTCATCCA
*
31939845 CCATTGTTCTTCATT
1 CCATTATTCTTCATT
31939860 CCATTATTCTTCATT
1 CCATTATTCTTCATT
31939875 CC
1 CC
31939877 CTTGCCAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.31, G:0.03, T:0.50
Consensus pattern (15 bp):
CCATTATTCTTCATT
Found at i:31941311 original size:22 final size:19
Alignment explanation
Indices: 31941286--31941327 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
31941276 TGGTAATCAT
31941286 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
31941308 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
31941327 T
1 T
31941328 CAACTTTACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:31942929 original size:3 final size:3
Alignment explanation
Indices: 31942921--31942958 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
31942911 CGAGGATCCC
* *
31942921 GAA GAA GAA GAA AAA GAA GAA GAA GAC GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
31942959 TCCCACAGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.66, C:0.03, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:31944933 original size:10 final size:10
Alignment explanation
Indices: 31944918--31944969 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
31944908 ATTTACATGT
31944918 TTAATTTTAA
1 TTAATTTTAA
31944928 TTAATTTTATA
1 TTAATTTTA-A
* *
31944939 TCAAATTTTGA
1 T-TAATTTTAA
*
31944950 TTAATTTTGA
1 TTAATTTTAA
*
31944960 TTATTTTTAA
1 TTAATTTTAA
31944970 CAGATATGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 25 0.71
11 4 0.11
12 6 0.17
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:31948110 original size:17 final size:16
Alignment explanation
Indices: 31948083--31948117 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
31948073 TAGTTAGAGT
31948083 AAACTGAAACTGTAGG
1 AAACTGAAACTGTAGG
*
31948099 AAACTGGAAACTGTTGG
1 AAACT-GAAACTGTAGG
31948116 AA
1 AA
31948118 GACCATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.43, C:0.11, G:0.26, T:0.20
Consensus pattern (16 bp):
AAACTGAAACTGTAGG
Found at i:31951825 original size:54 final size:53
Alignment explanation
Indices: 31951767--31952021 Score: 271
Period size: 54 Copynumber: 4.7 Consensus size: 53
31951757 TATAACAGTT
*
31951767 ATTTTACCCTATGGGGGTATTTTAGTCATTTTATCCTATGGACGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTTAGTCATTTTA-CCTATGGAGGTATTTCGGTC
* * * *
31951821 ATTTTACCTTATGGGGGTATTTTGGTCAATTTACCCTATGG-GTGTATTTAGGTC
1 ATTTTACCCTATGGGGGTATTTTAGTCATTTTA-CCTATGGAG-GTATTTCGGTC
* * * **
31951875 AATTTACCCTATGAGGGTA-TTTCGATCATTTTACCTTATCCTAGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTTAG-TCATTTTACC-TAT-GGAGGTATTTCGGTC
* * * * *
31951930 ATTTTACCCTATTGGGGTATTTCAATCATTTTACCCTATGGAGGTACTTCGATC
1 ATTTTACCCTATGGGGGTATTTTAGTCATTTTA-CCTATGGAGGTATTTCGGTC
* * *
31951984 ATTTTACCCTATGAGGGTATTTTGGTTATTTTACCTAT
1 ATTTTACCCTATGGGGGTATTTTAGTCATTTTACCTAT
31952022 TTTTGGGTCT
Statistics
Matches: 164, Mismatches: 30, Indels: 15
0.78 0.14 0.07
Matches are distributed among these distances:
53 11 0.07
54 111 0.68
55 37 0.23
56 5 0.03
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (53 bp):
ATTTTACCCTATGGGGGTATTTTAGTCATTTTACCTATGGAGGTATTTCGGTC
Found at i:31951951 original size:82 final size:80
Alignment explanation
Indices: 31951767--31952022 Score: 286
Period size: 81 Copynumber: 3.2 Consensus size: 80
31951757 TATAACAGTT
* * * *
31951767 ATTTTACCCTATGGGGGTATTTTAGTCATTTTATCCTATGGACGTATTTCGGTCATTTTACCTTA
1 ATTTTACCCTATTGGGGTA-TTTAGTCATTTTACCCTATGGAGGTATTTCGATCATTTTACCTTA
* * *
31951832 TGGGGGTATTTTGGTC
65 TCGAGGTATTTCGGTC
* *
31951848 AATTTACCCTA-TGGGTGTATTTAGGTCAATTTACCCTAT-GAGGGTATTTCGATCATTTTACCT
1 ATTTTACCCTATTGGG-GTATTTA-GTCATTTTACCCTATGGA-GGTATTTCGATCATTTTACCT
*
31951911 TATCCTAGGTATTTCGGTC
63 TAT-CGAGGTATTTCGGTC
* * *
31951930 ATTTTACCCTATTGGGGTATTTCAATCATTTTACCCTATGGAGGTACTTCGATCATTTTACCCTA
1 ATTTTACCCTATTGGGGTATTT-AGTCATTTTACCCTATGGAGGTATTTCGATCATTTTACCTTA
* *
31951995 T-GAGGGTATTTTGGTT
65 TCGA-GGTATTTCGGTC
31952011 ATTTTA-CCTATT
1 ATTTTACCCTATT
31952023 TTTGGGTCTC
Statistics
Matches: 149, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
80 16 0.11
81 64 0.43
82 62 0.42
83 7 0.05
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (80 bp):
ATTTTACCCTATTGGGGTATTTAGTCATTTTACCCTATGGAGGTATTTCGATCATTTTACCTTAT
CGAGGTATTTCGGTC
Found at i:31951963 original size:109 final size:109
Alignment explanation
Indices: 31951810--31952019 Score: 287
Period size: 109 Copynumber: 1.9 Consensus size: 109
31951800 TCCTATGGAC
* *** * *
31951810 GTATTTCGGTCATTTTACCTTATGGGGGTATTTTGGTCAATTTACCCTATGG-GTGTATTTAGGT
1 GTATTTCGGTCATTTTACCCTATGGGGGTATTTCAATCAATTTACCCTATGGAG-GTACTTAGAT
31951874 CAATTTACCCTATGAGGGTATTTCGATCATTTTACCTTATCCTAG
65 CAATTTACCCTATGAGGGTATTTCGATCATTTTACCTTATCCTAG
* * *
31951919 GTATTTCGGTCATTTTACCCTATTGGGGTATTTCAATCATTTTACCCTATGGAGGTACTTCGATC
1 GTATTTCGGTCATTTTACCCTATGGGGGTATTTCAATCAATTTACCCTATGGAGGTACTTAGATC
* * * *
31951984 ATTTTACCCTATGAGGGTATTTTGGTTATTTTACCT
66 AATTTACCCTATGAGGGTATTTCGATCATTTTACCT
31952020 ATTTTTGGGT
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
109 86 0.99
110 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (109 bp):
GTATTTCGGTCATTTTACCCTATGGGGGTATTTCAATCAATTTACCCTATGGAGGTACTTAGATC
AATTTACCCTATGAGGGTATTTCGATCATTTTACCTTATCCTAG
Found at i:31952014 original size:27 final size:26
Alignment explanation
Indices: 31951767--31952018 Score: 243
Period size: 27 Copynumber: 9.3 Consensus size: 26
31951757 TATAACAGTT
**
31951767 ATTTTACCCTATGGGGGTATTTTAGTC
1 ATTTTACCCTAT-GGGGTATTTCGGTC
* *
31951794 ATTTTATCCTATGGACGTATTTCGGTC
1 ATTTTACCCTATGG-GGTATTTCGGTC
* *
31951821 ATTTTACCTTATGGGGGTATTTTGGTC
1 ATTTTACCCTAT-GGGGTATTTCGGTC
* *
31951848 AATTTACCCTATGGGTGTATTTAGGTC
1 ATTTTACCCTATGGG-GTATTTCGGTC
* *
31951875 AATTTACCCTATGAGGGTATTTCGATC
1 ATTTTACCCTATG-GGGTATTTCGGTC
* **
31951902 ATTTTACCTTATCCTAGGTATTTCGGTC
1 ATTTTACCCTAT--GGGGTATTTCGGTC
**
31951930 ATTTTACCCTATTGGGGTATTTCAATC
1 ATTTTACCCTA-TGGGGTATTTCGGTC
* *
31951957 ATTTTACCCTATGGAGGTACTTCGATC
1 ATTTTACCCTATGG-GGTATTTCGGTC
* *
31951984 ATTTTACCCTATGAGGGTATTTTGGTT
1 ATTTTACCCTATG-GGGTATTTCGGTC
31952011 ATTTTACC
1 ATTTTACC
31952019 TATTTTTGGG
Statistics
Matches: 187, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
26 8 0.04
27 152 0.81
28 26 0.14
29 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (26 bp):
ATTTTACCCTATGGGGTATTTCGGTC
Found at i:31958193 original size:30 final size:30
Alignment explanation
Indices: 31958071--31958196 Score: 121
Period size: 30 Copynumber: 4.2 Consensus size: 30
31958061 TTATTACCAC
* *
31958071 CCCTTTTCATAGTTCGATAGCCGAAGCTAT
1 CCCTTTTCATAATTCGATAGCCGAAGCCAT
* * * * *
31958101 CCATTTCCATATTTTGATAGCCGAATCCAT
1 CCCTTTTCATAATTCGATAGCCGAAGCCAT
* * *
31958131 CCCTTTTCATAATTCAATGGTC-ATCA-CCAT
1 CCCTTTTCATAATTCGATAGCCGA--AGCCAT
*
31958161 CCCTTTTCATAATTCGATAGCCGAAGCTAT
1 CCCTTTTCATAATTCGATAGCCGAAGCCAT
31958191 CCCTTT
1 CCCTTT
31958197 CCATTGGTCG
Statistics
Matches: 75, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
29 2 0.03
30 71 0.95
31 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.36
Consensus pattern (30 bp):
CCCTTTTCATAATTCGATAGCCGAAGCCAT
Found at i:31961025 original size:6 final size:6
Alignment explanation
Indices: 31961014--31961041 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
31961004 AGGATTGCAA
31961014 ATTTCC ATTTCC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTT
31961042 TTGGAAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTCC
Found at i:31967755 original size:18 final size:18
Alignment explanation
Indices: 31967732--31967774 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
31967722 ACTCAATCCA
**
31967732 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
31967750 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
31967768 AACCCAA
1 AACCCAA
31967775 TCATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:31967891 original size:9 final size:9
Alignment explanation
Indices: 31967879--31967929 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
31967869 TTCAATTCGA
31967879 TTAATTCAG
1 TTAATTCAG
*
31967888 TTAATTCGG
1 TTAATTCAG
* * *
31967897 GTAATCCGG
1 TTAATTCAG
*
31967906 TTAATTTAG
1 TTAATTCAG
31967915 TTAATTCAG
1 TTAATTCAG
31967924 TTAATT
1 TTAATT
31967930 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (9 bp):
TTAATTCAG
Found at i:31967895 original size:18 final size:18
Alignment explanation
Indices: 31967872--31967929 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
31967862 GTAGTGATTC
31967872 AATTCGATTAATTCAGTT
1 AATTCGATTAATTCAGTT
** * *
31967890 AATTCGGGTAATCCGGTT
1 AATTCGATTAATTCAGTT
*
31967908 AATT-TAGTTAATTCAGTT
1 AATTCGA-TTAATTCAGTT
31967926 AATT
1 AATT
31967930 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (18 bp):
AATTCGATTAATTCAGTT
Found at i:31973324 original size:26 final size:26
Alignment explanation
Indices: 31973286--31973458 Score: 172
Period size: 26 Copynumber: 6.7 Consensus size: 26
31973276 AAAATTATTA
31973286 AAATTACTGAAATACCCTTAATGGGT
1 AAATTACTGAAATACCCTTAATGGGT
* * *
31973312 AAATTACTAAAATACCCCTAATGAGT
1 AAATTACTGAAATACCCTTAATGGGT
* *
31973338 AAATTA-TCAAAATACCCTTGATGGGT
1 AAATTACT-GAAATACCCTTAATGGGT
* ** *
31973364 AAATTACCGAAATACCCTCGATGCGT
1 AAATTACTGAAATACCCTTAATGGGT
*
31973390 AAATTACCGAAATA-CCTCTAATGGGT
1 AAATTACTGAAATACCCT-TAATGGGT
* ** *
31973416 AAATTATTGAAATACCCTCGATGGAT
1 AAATTACTGAAATACCCTTAATGGGT
31973442 AAATTA-TCGAAATACCC
1 AAATTACT-GAAATACCC
31973459 CCAAAGGGTC
Statistics
Matches: 124, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
25 5 0.04
26 116 0.94
27 3 0.02
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (26 bp):
AAATTACTGAAATACCCTTAATGGGT
Found at i:31973351 original size:52 final size:51
Alignment explanation
Indices: 31973286--31973458 Score: 208
Period size: 52 Copynumber: 3.3 Consensus size: 51
31973276 AAAATTATTA
* *
31973286 AAATTA-CTGAAATACCCTTAATGGGTAAATTACTAAAATACCC-CTAATGAGT
1 AAATTATC-GAAATACCCTTAATGGGTAAATTACTGAAATACCCTC-GATG-GT
* * *
31973338 AAATTATCAAAATACCCTTGATGGGTAAATTACCGAAATACCCTCGATGCGT
1 AAATTATCGAAATACCCTTAATGGGTAAATTACTGAAATACCCTCGATG-GT
* *
31973390 AAATTACCGAAATA-CCTCTAATGGGTAAATTATTGAAATACCCTCGATGGAT
1 AAATTATCGAAATACCCT-TAATGGGTAAATTACTGAAATACCCTCGATGG-T
31973442 AAATTATCGAAATACCC
1 AAATTATCGAAATACCC
31973459 CCAAAGGGTC
Statistics
Matches: 104, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
51 4 0.04
52 96 0.92
53 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (51 bp):
AAATTATCGAAATACCCTTAATGGGTAAATTACTGAAATACCCTCGATGGT
Found at i:31973418 original size:78 final size:78
Alignment explanation
Indices: 31973286--31973458 Score: 229
Period size: 78 Copynumber: 2.2 Consensus size: 78
31973276 AAAATTATTA
* * * *
31973286 AAATTACTGAAATACCCTTAATGGGTAAATTACTAAAATACCCCTAATGAGTAAATTATCAAAAT
1 AAATTACCGAAATACCCTCAATGCGTAAATTACCAAAATACCCCTAATGAGTAAATTATCAAAAT
* *
31973351 ACCCTTGATGGGT
66 ACCCTCGATGGAT
* * * * **
31973364 AAATTACCGAAATACCCTCGATGCGTAAATTACCGAAATACCTCTAATGGGTAAATTATTGAAAT
1 AAATTACCGAAATACCCTCAATGCGTAAATTACCAAAATACCCCTAATGAGTAAATTATCAAAAT
31973429 ACCCTCGATGGAT
66 ACCCTCGATGGAT
*
31973442 AAATTATCGAAATACCC
1 AAATTACCGAAATACCC
31973459 CCAAAGGGTC
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 82 1.00
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (78 bp):
AAATTACCGAAATACCCTCAATGCGTAAATTACCAAAATACCCCTAATGAGTAAATTATCAAAAT
ACCCTCGATGGAT
Found at i:31973919 original size:28 final size:28
Alignment explanation
Indices: 31973865--31973943 Score: 77
Period size: 33 Copynumber: 2.6 Consensus size: 28
31973855 TACTGTAAAC
*
31973865 GGGCTTAGGCCCACACTGTTTCCATATT
1 GGGCTAAGGCCCACACTGTTTCCATATT
* **
31973893 GGGCTAAGGCTCACACTGTATTGATATTGTATT
1 GGGCTAAGGCCCACACTGT-TT-CCA---TATT
31973926 GGGCTAAGGCCCACACTG
1 GGGCTAAGGCCCACACTG
31973944 ATACTGGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 17 0.41
29 2 0.05
30 1 0.02
33 21 0.51
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (28 bp):
GGGCTAAGGCCCACACTGTTTCCATATT
Found at i:31984904 original size:13 final size:13
Alignment explanation
Indices: 31984867--31984904 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
31984857 CATTAATTTG
*
31984867 GAAAA-AAAAAGA
1 GAAAAGAAAAAAA
*
31984879 GAAAAGCAAAAAA
1 GAAAAGAAAAAAA
31984892 GAAAAGAAAAAAA
1 GAAAAGAAAAAAA
31984905 TATGAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (13 bp):
GAAAAGAAAAAAA
Found at i:31995741 original size:31 final size:30
Alignment explanation
Indices: 31995701--31995761 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
31995691 TCAAGTTTCC
*
31995701 ATATACATGTAACATCCATAT-CATGTATTT
1 ATATACATGTAAAAT-CATATCCATGTATTT
*
31995731 ATATATCATGTAAAATCATTTCCATGTATTT
1 ATATA-CATGTAAAATCATATCCATGTATTT
31995762 CATGTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.43
Consensus pattern (30 bp):
ATATACATGTAAAATCATATCCATGTATTT
Found at i:31995933 original size:25 final size:25
Alignment explanation
Indices: 31995905--31995954 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
31995895 ATCCTGTATA
*
31995905 GGTATGCT-TATACGAGTTGTAAATC
1 GGTATGCTCTAT-CGAGCTGTAAATC
*
31995930 GGTATGCTCTCTCGAGCTGTAAATC
1 GGTATGCTCTATCGAGCTGTAAATC
31995955 AGTAAGCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (25 bp):
GGTATGCTCTATCGAGCTGTAAATC
Found at i:31996418 original size:21 final size:23
Alignment explanation
Indices: 31996377--31996418 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
31996367 CTAGATCTAT
31996377 ACATATAAATTTAACTCAATTCA
1 ACATATAAATTTAACTCAATTCA
31996400 ACATAT-AATTTAA-TCAATT
1 ACATATAAATTTAACTCAATT
31996419 TAATCCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 7 0.37
23 6 0.32
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (23 bp):
ACATATAAATTTAACTCAATTCA
Found at i:32010546 original size:21 final size:23
Alignment explanation
Indices: 32010521--32010568 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
32010511 ATCATATTTA
* *
32010521 AAAAATTCTAATTTTC-AA-AAT
1 AAAAATTATAATATTCTAATAAT
32010542 AAAAATTATAATATTCTAATAAT
1 AAAAATTATAATATTCTAATAAT
32010565 AAAA
1 AAAA
32010569 TTCATTAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 14 0.61
22 2 0.09
23 7 0.30
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAAATTATAATATTCTAATAAT
Found at i:32010643 original size:20 final size:21
Alignment explanation
Indices: 32010606--32010655 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
32010596 TTGATAAATT
32010606 TTACAAATATAATTTTATTTA
1 TTACAAATATAATTTTATTTA
*
32010627 TTACAAA-ATATTTTTATTTA
1 TTACAAATATAATTTTATTTA
*
32010647 ATA-AAATAT
1 TTACAAATAT
32010656 GAATAATAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 3 0.12
20 16 0.62
21 7 0.27
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (21 bp):
TTACAAATATAATTTTATTTA
Found at i:32018920 original size:22 final size:21
Alignment explanation
Indices: 32018881--32018921 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
32018871 ATCAAATAGT
**
32018881 TCAATTCACATCCCATCATTC
1 TCAATTCACATCAAATCATTC
32018902 TCAATTCAACATCAAATCAT
1 TCAATTC-ACATCAAATCAT
32018922 CATTTCATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.37, C:0.32, G:0.00, T:0.32
Consensus pattern (21 bp):
TCAATTCACATCAAATCATTC
Found at i:32019593 original size:20 final size:19
Alignment explanation
Indices: 32019555--32019593 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
32019545 AGTTTTAAAA
**
32019555 TATTTTTAAAATACTTTTT
1 TATTTTTAAAATAAATTTT
*
32019574 TATTTTTAAAATAAAATTT
1 TATTTTTAAAATAAATTTT
32019593 T
1 T
32019594 GGTGTTTATT
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:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTTAAAATAAATTTT
Found at i:32025271 original size:72 final size:73
Alignment explanation
Indices: 32025127--32025274 Score: 244
Period size: 72 Copynumber: 2.0 Consensus size: 73
32025117 ATGACACTCA
* * *
32025127 AGAATTTTGAAAATAATTATTCCCTAGGTTATTCAGAACTTACAAGGAAAAAACTACTTGGTCAA
1 AGAATTTCGAAAATAATTATTCCCTAGGTTATTCAGAACCTACAAGGAAAAAACTACTTGGTAAA
32025192 TATTATTG
66 TATTATTG
* *
32025200 AGAATTTCGAAAATAATTATTCCCTAGGTTGTT-AGAACCTATAAGGAAAAAACTACTTGGTAAA
1 AGAATTTCGAAAATAATTATTCCCTAGGTTATTCAGAACCTACAAGGAAAAAACTACTTGGTAAA
32025264 TATTATTG
66 TATTATTG
32025272 AGA
1 AGA
32025275 TGGCATTGAA
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
72 39 0.56
73 31 0.44
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (73 bp):
AGAATTTCGAAAATAATTATTCCCTAGGTTATTCAGAACCTACAAGGAAAAAACTACTTGGTAAA
TATTATTG
Found at i:32027274 original size:21 final size:22
Alignment explanation
Indices: 32027236--32027279 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
32027226 CGAAGCTCAA
32027236 TCAAAAAGAGGTATTTTGACAT
1 TCAAAAAGAGGTATTTTGACAT
32027258 TCAAAAAGAGGTA-TTTGACAT
1 TCAAAAAGAGGTATTTTGACAT
32027279 T
1 T
32027280 GAAGTACCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (22 bp):
TCAAAAAGAGGTATTTTGACAT
Found at i:32034386 original size:34 final size:34
Alignment explanation
Indices: 32034343--32034412 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
32034333 TCATGAGTGT
32034343 CTAATAGTCACCTCTCTATAGTAGACAAATAGCA
1 CTAATAGTCACCTCTCTATAGTAGACAAATAGCA
32034377 CTAATAGTCACCTCTCTATAGTAGACAAATAGCA
1 CTAATAGTCACCTCTCTATAGTAGACAAATAGCA
32034411 CT
1 CT
32034413 CTTATAGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.27
Consensus pattern (34 bp):
CTAATAGTCACCTCTCTATAGTAGACAAATAGCA
Found at i:32040698 original size:130 final size:130
Alignment explanation
Indices: 32040460--32040729 Score: 436
Period size: 130 Copynumber: 2.1 Consensus size: 130
32040450 TTGATTAATT
* * * *
32040460 AAATTCCATTAATGCAATTAAAACCATTGTAGGTGATTCATTGACTTTTTTTTGTTGTTTGTTCA
1 AAATTCCATTAATGCAATTAAAACCATTGCAGGTGATTCATTGACTTTCTTTTATTGATTGTTCA
*
32040525 CTTTTCTTTTATCAATACTAAAGCTAGAAACGGTGGTTCTTTTATTTGAGATGTT-TTATCAATA
66 CTTTTCTTTTATCAATACTAAAGCTAGAAACGGTGGTTCTTTTATTTCAGAT-TTGTTATCAATA
32040589 A
130 A
32040590 AAATTCCATTAATGCAATTTAAAACCATTGCAGGTGATTCATTGAC-TTCTTTTATTGATTGTTC
1 AAATTCCATTAATGCAA-TTAAAACCATTGCAGGTGATTCATTGACTTTCTTTTATTGATTGTTC
* *
32040654 ACTTTTCTTTTATCAATACTAAAGCTAGAAATGGTGGTTTTTTTATTTCAGATTTGTTATCAATA
65 ACTTTTCTTTTATCAATACTAAAGCTAGAAACGGTGGTTCTTTTATTTCAGATTTGTTATCAATA
32040719 A
130 A
*
32040720 AAATTTCATT
1 AAATTCCATT
32040730 CCAAACATTT
Statistics
Matches: 130, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
129 2 0.02
130 101 0.78
131 27 0.21
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.45
Consensus pattern (130 bp):
AAATTCCATTAATGCAATTAAAACCATTGCAGGTGATTCATTGACTTTCTTTTATTGATTGTTCA
CTTTTCTTTTATCAATACTAAAGCTAGAAACGGTGGTTCTTTTATTTCAGATTTGTTATCAATAA
Done.