Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 105 of 173
Found at i:32543556 original size:27 final size:27
Alignment explanation
Indices: 32543516--32543668 Score: 143
Period size: 27 Copynumber: 5.7 Consensus size: 27
32543506 AATGGGACAC
* *
32543516 AAATTACCAAAATACACCT-ATAGGGTA
1 AAATTATCAAAATACCCCTGA-AGGGTA
* *
32543543 ATATTATCGAAATA-CCCTCGAAGGGTA
1 AAATTATCAAAATACCCCT-GAAGGGTA
*
32543570 AAATTATTAAAATACCCCT-ATAGGGTA
1 AAATTATCAAAATACCCCTGA-AGGGTA
*
32543597 AAATTACCAAAATACCCCTGAAGGGTA
1 AAATTATCAAAATACCCCTGAAGGGTA
* * *
32543624 AAATGACCAAAATATCCCC-GAAAGGTA
1 AAATTATCAAAATA-CCCCTGAAGGGTA
* *
32543651 AAATGACCAAAATACCCC
1 AAATTATCAAAATACCCC
32543669 ATAGGGTAAA
Statistics
Matches: 109, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
26 8 0.07
27 91 0.83
28 10 0.09
ACGTcount: A:0.45, C:0.21, G:0.13, T:0.21
Consensus pattern (27 bp):
AAATTATCAAAATACCCCTGAAGGGTA
Found at i:32543610 original size:54 final size:54
Alignment explanation
Indices: 32543516--32543668 Score: 175
Period size: 54 Copynumber: 2.8 Consensus size: 54
32543506 AATGGGACAC
* * * * *
32543516 AAATTACCAAAATACACCTATAGGGTAATATTATCGAAATA-CCCTCGAAGGGTA
1 AAATGACCAAAATACCCCTATAGGGTAAAATTACCAAAATACCCCT-GAAGGGTA
* **
32543570 AAATTATTAAAATACCCCTATAGGGTAAAATTACCAAAATACCCCTGAAGGGTA
1 AAATGACCAAAATACCCCTATAGGGTAAAATTACCAAAATACCCCTGAAGGGTA
* * *
32543624 AAATGACCAAAATATCCCCGA-AAGGTAAAATGACCAAAATACCCC
1 AAATGACCAAAATA-CCCCTATAGGGTAAAATTACCAAAATACCCC
32543669 ATAGGGTAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 76 0.89
55 9 0.11
ACGTcount: A:0.45, C:0.21, G:0.13, T:0.21
Consensus pattern (54 bp):
AAATGACCAAAATACCCCTATAGGGTAAAATTACCAAAATACCCCTGAAGGGTA
Found at i:32543651 original size:81 final size:80
Alignment explanation
Indices: 32543516--32543678 Score: 204
Period size: 81 Copynumber: 2.0 Consensus size: 80
32543506 AATGGGACAC
* * * * * * **
32543516 AAATTACCAAAATACACCTATAGGGTAATATTATCGAAATACCCTCGAAGGGTAAAATTATTAAA
1 AAATTACCAAAATACACCTATAGGGTAAAATGACCAAAATACCCTCGAAAGGTAAAATGACCAAA
32543581 ATACCCCTATAGGGTA
66 ATACCCC-ATAGGGTA
*
32543597 AAATTACCAAAATACCCCTGA-AGGGTAAAATGACCAAAATATCCC-CGAAAGGTAAAATGACCA
1 AAATTACCAAAATACACCT-ATAGGGTAAAATGACCAAAATA-CCCTCGAAAGGTAAAATGACCA
32543660 AAATACCCCATAGGGTA
64 AAATACCCCATAGGGTA
32543677 AA
1 AA
32543679 CTGACTGATA
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
80 10 0.14
81 57 0.80
82 4 0.06
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.21
Consensus pattern (80 bp):
AAATTACCAAAATACACCTATAGGGTAAAATGACCAAAATACCCTCGAAAGGTAAAATGACCAAA
ATACCCCATAGGGTA
Found at i:32543897 original size:26 final size:26
Alignment explanation
Indices: 32543862--32543960 Score: 99
Period size: 26 Copynumber: 3.8 Consensus size: 26
32543852 CCACAAATAC
*
32543862 TGTTACTGGCAGCTTTGCTGCATTAT
1 TGTTACTGGCAACTTTGCTGCATTAT
* * * *
32543888 TGTTATTGGCAACTTTGCTACGTTAC
1 TGTTACTGGCAACTTTGCTGCATTAT
* * * *
32543914 TGTTACTGGCAGCTCTGTTGCACTAT
1 TGTTACTGGCAACTTTGCTGCATTAT
* *
32543940 TATTTCTGGCAACTTTGCTGC
1 TGTTACTGGCAACTTTGCTGC
32543961 GATATTGGTG
Statistics
Matches: 55, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.41
Consensus pattern (26 bp):
TGTTACTGGCAACTTTGCTGCATTAT
Found at i:32543926 original size:52 final size:52
Alignment explanation
Indices: 32543859--32543958 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 52
32543849 TTGCCACAAA
* * *
32543859 TACTGTTACTGGCAGCTTTGCTGCATTATTGTTAT-TGGCAACTTTGCTACGT
1 TACTGTTACTGGCAGCTCTGCTGCACTATTATT-TCTGGCAACTTTGCTACGT
*
32543911 TACTGTTACTGGCAGCTCTGTTGCACTATTATTTCTGGCAACTTTGCT
1 TACTGTTACTGGCAGCTCTGCTGCACTATTATTTCTGGCAACTTTGCT
32543959 GCGATATTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 1 0.02
52 42 0.98
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.42
Consensus pattern (52 bp):
TACTGTTACTGGCAGCTCTGCTGCACTATTATTTCTGGCAACTTTGCTACGT
Found at i:32544114 original size:28 final size:28
Alignment explanation
Indices: 32544072--32544166 Score: 138
Period size: 28 Copynumber: 3.4 Consensus size: 28
32544062 ATTGTATTGT
* *
32544072 TTACTGTATTGGGCTAAGGCCCACGCTG
1 TTACTGTATTGGGCTAAGGCCCACACTA
*
32544100 TTACTGTATTAGGCTAAGGCCCACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
*
32544128 TTACTGTAATGGGCTAAGGCCCACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
32544156 -TACTGATATTG
1 TTACTG-TATTG
32544167 TATAGGGCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.08
28 55 0.92
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTA
Found at i:32545837 original size:55 final size:54
Alignment explanation
Indices: 32545758--32545866 Score: 132
Period size: 55 Copynumber: 2.0 Consensus size: 54
32545748 TAGAGACATT
* * * *
32545758 CTTTTTATCAAAGATTGCCACAAAG-GCTTCCGTTTAACAGAGATCGCCACAAAAG
1 CTTTTTATCAAAGACTACCACAAAGAACTT-C-TTTAACAGAGATAGCCACAAAAG
32545813 CTTTGTTATCAAA-ACTACCACAAAGACACTTCTTTAACAGAGATAGCCACAAAA
1 CTTT-TTATCAAAGACTACCACAAAGA-ACTTCTTTAACAGAGATAGCCACAAAA
32545867 ACATCTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
55 35 0.74
56 9 0.19
57 3 0.06
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.25
Consensus pattern (54 bp):
CTTTTTATCAAAGACTACCACAAAGAACTTCTTTAACAGAGATAGCCACAAAAG
Found at i:32545918 original size:26 final size:26
Alignment explanation
Indices: 32545851--32545918 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
32545841 CTTCTTTAAC
* *
32545851 AGAGATAGCCACAAAAACATCTTTTT
1 AGAGATAGCCACAAAGACATCCTTTT
32545877 AGAGATAGCCACAAAGACATCCTTTT
1 AGAGATAGCCACAAAGACATCCTTTT
32545903 AGAGATAGCCACAAAG
1 AGAGATAGCCACAAAG
32545919 GCTTACTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.21
Consensus pattern (26 bp):
AGAGATAGCCACAAAGACATCCTTTT
Found at i:32564403 original size:22 final size:22
Alignment explanation
Indices: 32564378--32564445 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
32564368 TGCACAAATA
32564378 CTAAAAAACCTAGCTCTCAAAC
1 CTAAAAAACCTAGCTCTCAAAC
** * * * *
32564400 CTAAGTAA-GTCAGCTCAC-TAG
1 CTAAAAAACCT-AGCTCTCAAAC
32564421 C-AAAAAACCTAGCTCTCAAAC
1 CTAAAAAACCTAGCTCTCAAAC
32564442 CTAA
1 CTAA
32564446 GTAAGTCGGC
Statistics
Matches: 30, Mismatches: 12, Indels: 8
0.60 0.24 0.16
Matches are distributed among these distances:
20 10 0.33
21 6 0.20
22 14 0.47
ACGTcount: A:0.43, C:0.29, G:0.09, T:0.19
Consensus pattern (22 bp):
CTAAAAAACCTAGCTCTCAAAC
Found at i:32564439 original size:42 final size:42
Alignment explanation
Indices: 32564380--32564463 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
32564370 CACAAATACT
32564380 AAAAAACCTAGCTCTCAAACCTAAGTAAGTCAGCTCACTAGC
1 AAAAAACCTAGCTCTCAAACCTAAGTAAGTCAGCTCACTAGC
*
32564422 AAAAAACCTAGCTCTCAAACCTAAGTAAGTCGGCTCACTAGC
1 AAAAAACCTAGCTCTCAAACCTAAGTAAGTCAGCTCACTAGC
32564464 GTCCCCAGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.39, C:0.29, G:0.13, T:0.19
Consensus pattern (42 bp):
AAAAAACCTAGCTCTCAAACCTAAGTAAGTCAGCTCACTAGC
Found at i:32567864 original size:14 final size:14
Alignment explanation
Indices: 32567845--32567872 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32567835 TAAATTTATT
32567845 AATGAATTATTAAA
1 AATGAATTATTAAA
32567859 AATGAATTATTAAA
1 AATGAATTATTAAA
32567873 TATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:32579705 original size:27 final size:26
Alignment explanation
Indices: 32579688--32579968 Score: 287
Period size: 27 Copynumber: 10.4 Consensus size: 26
32579678 GGGTATAACA
*
32579688 GTCATTTTACCCTATAGGAGTATTTC
1 GTCATTTTACCCTATAGGGGTATTTC
* *
32579714 GATCATTTTACCCTATGGGGGTATTTTG
1 G-TCATTTTACCCTATAGGGGTA-TTTC
* * *
32579742 GTCATTTTACACTATGGGGGAATTTC
1 GTCATTTTACCCTATAGGGGTATTTC
* *
32579768 GGTAATTTTACCCTATAGGGGTATTTTG
1 -GTCATTTTACCCTATAGGGGTA-TTTC
**
32579796 GTCATTTTACCCTATAAAGGTATTTC
1 GTCATTTTACCCTATAGGGGTATTTC
* *
32579822 GATCATTTTACCCTATGGGGGTATTTTG
1 G-TCATTTTACCCTATAGGGGTA-TTTC
*
32579850 GTTATTTTACCCTATAGGGGTATTTC
1 GTCATTTTACCCTATAGGGGTATTTC
*
32579876 GATCATTTTACCCAAT-GAGGGTATTTC
1 G-TCATTTTACCCTATAG-GGGTATTTC
*
32579903 GATCATTTTACCCTATGGGGGTATTTC
1 G-TCATTTTACCCTATAGGGGTATTTC
* *
32579930 AGTCATTTTATCCTA-AGAGGGTATTTTA
1 -GTCATTTTACCCTATAG-GGGTA-TTTC
32579958 GTCATTTTACC
1 GTCATTTTACC
32579969 TATTTTGGGG
Statistics
Matches: 214, Mismatches: 29, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
26 14 0.07
27 184 0.86
28 16 0.07
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (26 bp):
GTCATTTTACCCTATAGGGGTATTTC
Found at i:32579735 original size:54 final size:54
Alignment explanation
Indices: 32579688--32579968 Score: 375
Period size: 54 Copynumber: 5.2 Consensus size: 54
32579678 GGGTATAACA
*
32579688 GTCATTTTACCCTATAGGAGTATTTCGATCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTG
* * * * * *
32579742 GTCATTTTACACTATGGGGGAATTTCGGTAATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTG
**
32579796 GTCATTTTACCCTATAAAGGTATTTCGATCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTG
* * * *
32579850 GTTATTTTACCCTATAGGGGTATTTCGATCATTTTACCCAATGAGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTG
* * * * * *
32579904 ATCATTTTACCCTATGGGGGTATTTC-AGTCATTTTATCCTAAGAGGGTATTTTA
1 GTCATTTTACCCTATAGGGGTATTTCGA-TCATTTTACCCTATGGGGGTATTTTG
32579958 GTCATTTTACC
1 GTCATTTTACC
32579969 TATTTTGGGG
Statistics
Matches: 196, Mismatches: 30, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
53 1 0.01
54 195 0.99
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (54 bp):
GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTG
Found at i:32579801 original size:81 final size:81
Alignment explanation
Indices: 32579691--32579968 Score: 371
Period size: 81 Copynumber: 3.4 Consensus size: 81
32579681 TATAACAGTC
* * * * *
32579691 ATTTTACCCTATAGGAGTATTTCGATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACACTA
1 ATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTA
*
32579756 TGGGGGAATTTCGGTA
66 TGGGGGTATTTCGGTA
* * * *
32579772 ATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATAAAGGTATTTCGATCATTTTACCCTA
1 ATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTA
* *
32579837 TGGGGGTATTTTGGTT
66 TGGGGGTATTTCGGTA
*
32579853 ATTTTACCCTATAGGGGTATTTCGATCATTTTACCCAATGAGGGTATTTCGATCATTTTACCCTA
1 ATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTA
* *
32579918 TGGGGGTATTTCAGTC
66 TGGGGGTATTTCGGTA
* *
32579934 ATTTTATCCTA-AGAGGGTATTT-TAGTCATTTTACC
1 ATTTTACCCTATAG-GGGTATTTCGA-TCATTTTACC
32579969 TATTTTGGGG
Statistics
Matches: 173, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
80 3 0.02
81 170 0.98
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (81 bp):
ATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTA
TGGGGGTATTTCGGTA
Found at i:32594853 original size:42 final size:42
Alignment explanation
Indices: 32594793--32594971 Score: 241
Period size: 42 Copynumber: 4.3 Consensus size: 42
32594783 AAGGGAAGCA
* * * * *
32594793 TTCATTGCATTTAAAGGCCCAGCTGTGGAGGTCCGTTTACCT
1 TTCATTGCATTTAGAGGCCCAGGTGTAGAGGTCCATTTACTT
* * *
32594835 TTCATTGCATTTAGAGGCCCAGGGGTGGTGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTAGAGGTCCATTTACTT
* *
32594877 TTCATTACATTTAGAGGCCCAGGTGCAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTAGAGGTCCATTTACTT
* * *
32594919 TTCATTACATTTAGAGGCCTAGGTGTAGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTAGAGGTCCATTTACTT
32594961 TTCATTGCATT
1 TTCATTGCATT
32594972 GTATATGAAG
Statistics
Matches: 122, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 122 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTAGAGGTCCATTTACTT
Found at i:32596754 original size:15 final size:15
Alignment explanation
Indices: 32596734--32596763 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32596724 TGAGAAGGAC
32596734 AAGAAAGAATATGCT
1 AAGAAAGAATATGCT
*
32596749 AAGAAAGAATCTGCT
1 AAGAAAGAATATGCT
32596764 CGAAACATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (15 bp):
AAGAAAGAATATGCT
Found at i:32600289 original size:50 final size:50
Alignment explanation
Indices: 32600171--32600469 Score: 391
Period size: 50 Copynumber: 5.8 Consensus size: 50
32600161 GATAATAACA
* ** *
32600171 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * **
32600222 TGCCCATGCCATATCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
32600272 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
32600322 TCCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
32600372 TGCTAATTCCATGTCCCAGAAATAGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
* *
32600427 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
32600470 TTACCCAAAT
Statistics
Matches: 216, Mismatches: 26, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
50 141 0.65
51 32 0.15
53 5 0.02
55 2 0.01
56 36 0.17
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:32606237 original size:21 final size:22
Alignment explanation
Indices: 32606200--32606249 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
32606190 TTTGATCTTT
* *
32606200 AAGAAAAGTTGTGATTTTTTAA
1 AAGAAAACTTGTGATTTTCTAA
32606222 AAGAAAACTT-TGATTTTCTAA
1 AAGAAAACTTGTGATTTTCTAA
*
32606243 AAAAAAA
1 AAGAAAA
32606250 GGGATTCCGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.50, C:0.04, G:0.12, T:0.34
Consensus pattern (22 bp):
AAGAAAACTTGTGATTTTCTAA
Found at i:32611309 original size:8 final size:8
Alignment explanation
Indices: 32611290--32611320 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
32611280 CTCCCTTGAG
32611290 AGATTAGTT
1 AGATT-GTT
32611299 AGATTGTT
1 AGATTGTT
32611307 AGATTGTT
1 AGATTGTT
32611315 AGATTG
1 AGATTG
32611321 CACGGGTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.77
9 5 0.23
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (8 bp):
AGATTGTT
Found at i:32614951 original size:18 final size:18
Alignment explanation
Indices: 32614907--32614944 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
32614897 AACCTTTTAT
32614907 AACATCATAATACATCCC
1 AACATCATAATACATCCC
32614925 AACATCATAATACATCCC
1 AACATCATAATACATCCC
32614943 AA
1 AA
32614945 TTACATACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (18 bp):
AACATCATAATACATCCC
Found at i:32615506 original size:29 final size:29
Alignment explanation
Indices: 32615474--32615630 Score: 140
Period size: 29 Copynumber: 5.4 Consensus size: 29
32615464 GTCGTAACCG
32615474 TCCCTTTTCATATTCGATGGTCGTCACTA
1 TCCCTTTTCATATTCGATGGTCGTCACTA
* ** * * *
32615503 TCCCTTTTCATAATAAATAGCCG-AAGCTA
1 TCCCTTTTCATATTCGATGGTCGTCA-CTA
* ***
32615532 TCCCTTTTCATATTCGATAG-CCAAAGCTA
1 TCCCTTTTCATATTCGATGGTCGTCA-CTA
* * *
32615561 TTCCTTTTCATATTCGATGGTTGTCACCA
1 TCCCTTTTCATATTCGATGGTCGTCACTA
*
32615590 TCCCTTTTCATAGTT-GATGGTCGTCACCA
1 TCCCTTTTCATA-TTCGATGGTCGTCACTA
32615619 TCCCTTTTCATA
1 TCCCTTTTCATA
32615631 ATTGATAGCC
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
28 2 0.02
29 100 0.95
30 3 0.03
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (29 bp):
TCCCTTTTCATATTCGATGGTCGTCACTA
Found at i:32615548 original size:58 final size:58
Alignment explanation
Indices: 32615474--32615665 Score: 183
Period size: 58 Copynumber: 3.3 Consensus size: 58
32615464 GTCGTAACCG
*
32615474 TCCCTTTTCATATTCGATGGTCGTCACTATCCCTTTTCATAATAAATAGCCGAAGCTA
1 TCCCTTTTCATATTCGATGGTCGTCACTATCCCTTTTCATAATAGATAGCCGAAGCTA
* *** * * * * ** * *
32615532 TCCCTTTTCATATTCGATAG-CCAAAGCTATTCCTTTTCATATTCGATGGTTGTCA-CCA
1 TCCCTTTTCATATTCGATGGTCGTCA-CTATCCCTTTTCATAATAGATAGCCG-AAGCTA
* * *
32615590 TCCCTTTTCATAGTT-GATGGTCGTCACCATCCCTTTTCATAATTGATAGCCAAAGCTA
1 TCCCTTTTCATA-TTCGATGGTCGTCACTATCCCTTTTCATAATAGATAGCCGAAGCTA
*
32615648 TCCCATTTCATATTCGAT
1 TCCCTTTTCATATTCGAT
32615666 AATCGAAGCT
Statistics
Matches: 100, Mismatches: 28, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
57 5 0.05
58 90 0.90
59 5 0.05
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (58 bp):
TCCCTTTTCATATTCGATGGTCGTCACTATCCCTTTTCATAATAGATAGCCGAAGCTA
Found at i:32615622 original size:87 final size:87
Alignment explanation
Indices: 32615474--32615665 Score: 253
Period size: 87 Copynumber: 2.2 Consensus size: 87
32615464 GTCGTAACCG
* *
32615474 TCCCTTTTCATATTCGATGGTCGTCACTATCCCTTTTCATAATAAATAGCCGAAGCTATCCCTTT
1 TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATAAATAGCCGAAGCCATCCCTTT
32615539 TCAT-ATTCGATAGCCAAAGCTA
66 TCATAATT-GATAGCCAAAGCTA
* * * ** * * *
32615561 TTCCTTTTCATATTCGATGGTTGTCACCATCCCTTTTCATAGTTGATGGTCGTCA-CCATCCCTT
1 TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATAAATAGCCG-AAGCCATCCCTT
32615625 TTCATAATTGATAGCCAAAGCTA
65 TTCATAATTGATAGCCAAAGCTA
*
32615648 TCCCATTTCATATTCGAT
1 TCCCTTTTCATATTCGAT
32615666 AATCGAAGCT
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
87 87 0.96
88 4 0.04
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (87 bp):
TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATAAATAGCCGAAGCCATCCCTTT
TCATAATTGATAGCCAAAGCTA
Found at i:32615635 original size:29 final size:29
Alignment explanation
Indices: 32615457--32615636 Score: 120
Period size: 29 Copynumber: 6.2 Consensus size: 29
32615447 AAATGGGTTA
*
32615457 AATT-ATGGTCGTAACCGTCCCTTTTCAT
1 AATTGATGGTCGTAACCATCCCTTTTCAT
* *
32615485 -ATTCGATGGTCGTCACTATCCCTTTTCAT
1 AATT-GATGGTCGTAACCATCCCTTTTCAT
** * * *
32615514 AATAAATAGCCG-AAGCTATCCCTTTTCAT
1 AATTGATGGTCGTAA-CCATCCCTTTTCAT
* ** * *
32615543 -ATTCGATAG-CCAAAGCTATTCCTTTTCAT
1 AATT-GATGGTCGTAA-CCATCCCTTTTCAT
* *
32615572 -ATTCGATGGTTGTCACCATCCCTTTTCAT
1 AATT-GATGGTCGTAACCATCCCTTTTCAT
* *
32615601 AGTTGATGGTCGTCACCATCCCTTTTCAT
1 AATTGATGGTCGTAACCATCCCTTTTCAT
32615630 AATTGAT
1 AATTGAT
32615637 AGCCAAAGCT
Statistics
Matches: 122, Mismatches: 22, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
27 3 0.02
28 4 0.03
29 110 0.90
30 5 0.04
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.38
Consensus pattern (29 bp):
AATTGATGGTCGTAACCATCCCTTTTCAT
Found at i:32615650 original size:29 final size:29
Alignment explanation
Indices: 32615618--32615687 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
32615608 GGTCGTCACC
32615618 ATCCCTTTTCATAATT-GATAGCCAAAGCT
1 ATCCCTTTTCAT-ATTCGATAGCCAAAGCT
* ** *
32615647 ATCCCATTTCATATTCGATAATCGAAGCT
1 ATCCCTTTTCATATTCGATAGCCAAAGCT
*
32615676 ACCCCTTTTCAT
1 ATCCCTTTTCAT
32615688 TAGTCGATGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.36
Consensus pattern (29 bp):
ATCCCTTTTCATATTCGATAGCCAAAGCT
Found at i:32615665 original size:116 final size:117
Alignment explanation
Indices: 32615474--32615702 Score: 327
Period size: 116 Copynumber: 2.0 Consensus size: 117
32615464 GTCGTAACCG
* * *
32615474 TCCCTTTTCATATTCGATGGTCGTCACTATCCCTTTTCATAATAAATAGCCGAAGCTATCCCTTT
1 TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATAAATAGCCAAAGCTATCCCATT
* ** * *
32615539 TCATATTCGATAGCCAAAGCTATTCCTTTTCA-TATTCGATGGTTGTCACCA
66 TCATATTCGATAACCAAAGCTACCCCTTTTCATTAGTCGATGATTGTCACCA
**
32615590 TCCCTTTTCATAGTT-GATGGTCGTCACCATCCCTTTTCATAATTGATAGCCAAAGCTATCCCAT
1 TCCCTTTTCATA-TTCGATGGTCGTCACCATCCCTTTTCATAATAAATAGCCAAAGCTATCCCAT
* *
32615654 TTCATATTCGATAATCGAAGCTACCCCTTTTCATTAGTCGATGATTGTC
65 TTCATATTCGATAACCAAAGCTACCCCTTTTCATTAGTCGATGATTGTC
32615703 GATACACCGT
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
116 84 0.85
117 15 0.15
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.38
Consensus pattern (117 bp):
TCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATAAATAGCCAAAGCTATCCCATT
TCATATTCGATAACCAAAGCTACCCCTTTTCATTAGTCGATGATTGTCACCA
Found at i:32615682 original size:87 final size:88
Alignment explanation
Indices: 32615531--32615696 Score: 212
Period size: 87 Copynumber: 1.9 Consensus size: 88
32615521 AGCCGAAGCT
* * ** * * *
32615531 ATCCCTTTTCATATTCGATAGCCAAAGCTATTCCTTTTCATATTCGATGGTTGTCACCATCCCTT
1 ATCCCTTTTCATATTCGATAGCCAAAGCTATCCCATTTCATATTCGATAATCGTAACCACCCCTT
*
32615596 TTCA-TAGTTGATGGTCGTCACC
66 TTCATTAGTCGATGGTCGTCACC
*
32615618 ATCCCTTTTCATAATT-GATAGCCAAAGCTATCCCATTTCATATTCGATAATCG-AAGCTACCCC
1 ATCCCTTTTCAT-ATTCGATAGCCAAAGCTATCCCATTTCATATTCGATAATCGTAA-CCACCCC
32615681 TTTTCATTAGTCGATG
64 TTTTCATTAGTCGATG
32615697 ATTGTCGATA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
86 1 0.01
87 55 0.82
88 11 0.16
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (88 bp):
ATCCCTTTTCATATTCGATAGCCAAAGCTATCCCATTTCATATTCGATAATCGTAACCACCCCTT
TTCATTAGTCGATGGTCGTCACC
Found at i:32617487 original size:51 final size:51
Alignment explanation
Indices: 32617428--32617524 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
32617418 AAGAAAATAG
32617428 TATGATGGTGGGTAGAAGTATTAATGACTAGTGATAATGGAATGGTGGATA
1 TATGATGGTGGGTAGAAGTATTAATGACTAGTGATAATGGAATGGTGGATA
*
32617479 TATGATGGTGGGTAGAAGTATTGATGACTAGTGATAATGGAATGGT
1 TATGATGGTGGGTAGAAGTATTAATGACTAGTGATAATGGAATGGT
32617525 TGGCTAAGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.32, C:0.02, G:0.34, T:0.32
Consensus pattern (51 bp):
TATGATGGTGGGTAGAAGTATTAATGACTAGTGATAATGGAATGGTGGATA
Found at i:32644126 original size:62 final size:62
Alignment explanation
Indices: 32643995--32644129 Score: 198
Period size: 62 Copynumber: 2.2 Consensus size: 62
32643985 CACGAATTGT
* * ** *
32643995 TGTAACTTTTTTATGCTATAGAATTTAACATATAGATTACGGCATATAAGCTAATGACATTA
1 TGTAACTTTTTTATGCTATAAAATTTAACATATAGATTACAGCATATAAGCTAACAACATCA
** *
32644057 TCCAACTTTTTTATGCTATAAAATTTAACATATAGATTATAGCATATAAGCTAACAACATCA
1 TGTAACTTTTTTATGCTATAAAATTTAACATATAGATTACAGCATATAAGCTAACAACATCA
32644119 TGTAACTTTTT
1 TGTAACTTTTT
32644130 GTTAATGTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (62 bp):
TGTAACTTTTTTATGCTATAAAATTTAACATATAGATTACAGCATATAAGCTAACAACATCA
Found at i:32644431 original size:59 final size:57
Alignment explanation
Indices: 32644313--32644478 Score: 176
Period size: 59 Copynumber: 2.9 Consensus size: 57
32644303 TTTTTCTAAT
* * *
32644313 ATTATATATTA-TTTTTATTAATTCATATTTTAATAATAATCATATTAAGAATGTTATTAA
1 ATTATATATTATTTTTTA-AAATT-ATA-TTTAATAATAATCATATTAA-AATATGATTAA
**
32644373 ATTATATATTATTTTTTAAAAATTATATTTAATAATAATTGTATTAAATATATGATTAA
1 ATTATATATTATTTTTT-AAAATTATATTTAATAATAATCATATTAAA-ATATGATTAA
* * * *
32644432 ATTATTTATT-TTTATT-AAATTATATTTAATTATAATCCTATTAAAAT
1 ATTATATATTATTTTTTAAAATTATATTTAATAATAATCATATTAAAAT
32644479 TTAATAACAA
Statistics
Matches: 93, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
55 2 0.02
56 26 0.28
58 6 0.06
59 35 0.38
60 14 0.15
61 9 0.10
62 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (57 bp):
ATTATATATTATTTTTTAAAATTATATTTAATAATAATCATATTAAAATATGATTAA
Found at i:32644671 original size:16 final size:16
Alignment explanation
Indices: 32644650--32644683 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
32644640 ATTAATTGTT
32644650 GTTCTATTCCATTACA
1 GTTCTATTCCATTACA
32644666 GTTCTATTCCATTACA
1 GTTCTATTCCATTACA
32644682 GT
1 GT
32644684 GAACCAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.44
Consensus pattern (16 bp):
GTTCTATTCCATTACA
Found at i:32645270 original size:4 final size:4
Alignment explanation
Indices: 32645261--32645302 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
32645251 ACGAACCCCT
32645261 GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTAG GT
1 GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTAG GTAG GT
32645303 GTAATCCGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.24, C:0.00, G:0.50, T:0.26
Consensus pattern (4 bp):
GTAG
Found at i:32646940 original size:37 final size:37
Alignment explanation
Indices: 32646890--32646964 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
32646880 GCTTATTTGA
32646890 GTCTGATTTCACAACCTAAATTCCATGAGAAGAAACG
1 GTCTGATTTCACAACCTAAATTCCATGAGAAGAAACG
32646927 GTCTGATTTCACAACCTAAATTCCATGAGAAGAAACG
1 GTCTGATTTCACAACCTAAATTCCATGAGAAGAAACG
32646964 G
1 G
32646965 AAAACCCCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.24
Consensus pattern (37 bp):
GTCTGATTTCACAACCTAAATTCCATGAGAAGAAACG
Found at i:32649415 original size:17 final size:17
Alignment explanation
Indices: 32649393--32649426 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32649383 CAACTGCGGT
*
32649393 TGAAATAGGTGGGCAGG
1 TGAAATAAGTGGGCAGG
32649410 TGAAATAAGTGGGCAGG
1 TGAAATAAGTGGGCAGG
32649427 AAAGCGTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.44, T:0.18
Consensus pattern (17 bp):
TGAAATAAGTGGGCAGG
Found at i:32650107 original size:9 final size:9
Alignment explanation
Indices: 32650032--32650109 Score: 54
Period size: 10 Copynumber: 8.4 Consensus size: 9
32650022 TCTAAAATTT
32650032 AAATT-TAA
1 AAATTATAA
*
32650040 AAATACATAA
1 AAAT-TATAA
32650050 AAATTA-AA
1 AAATTATAA
32650058 AAATTATTAA
1 AAATTA-TAA
*
32650068 AATTTATAA
1 AAATTATAA
32650077 AAATATATGAA
1 AAAT-TAT-AA
* *
32650088 ATACTCA-AA
1 A-AATTATAA
32650097 AAATTATAA
1 AAATTATAA
32650106 AAAT
1 AAAT
32650110 ATATTGAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 15
0.70 0.10 0.19
Matches are distributed among these distances:
8 15 0.28
9 16 0.30
10 17 0.31
11 4 0.07
12 2 0.04
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (9 bp):
AAATTATAA
Found at i:32650886 original size:31 final size:31
Alignment explanation
Indices: 32650845--32650918 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
32650835 TTAACGGTAT
** *
32650845 AGTGACTAAAATTGATTACTTATCTAATGAG
1 AGTGACTAAAATTGACAACTTATCTAATAAG
* *
32650876 AGTGATTAAAATTGACAACTTATTTAATAAG
1 AGTGACTAAAATTGACAACTTATCTAATAAG
32650907 AGTGACTAAAAT
1 AGTGACTAAAAT
32650919 AACAAAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (31 bp):
AGTGACTAAAATTGACAACTTATCTAATAAG
Found at i:32658687 original size:55 final size:55
Alignment explanation
Indices: 32658616--32658727 Score: 154
Period size: 55 Copynumber: 2.0 Consensus size: 55
32658606 AGATAAGAAT
* * *
32658616 AATAAAAATGGAGAAATGAAAAATATTT-GAAAGATGTGGTTTTCTCCGAAATAAA
1 AATAAAAATGGAGAAATGAAAAACATTTGGAAA-ATATGGTTTTCTCCAAAATAAA
* **
32658671 AATAAAAATGGGGAAATGGGAAACATTTGGAAAATATGGTTTTCTCCAAAATAAA
1 AATAAAAATGGAGAAATGAAAAACATTTGGAAAATATGGTTTTCTCCAAAATAAA
32658726 AA
1 AA
32658728 ATGACCTAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
55 46 0.92
56 4 0.08
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.26
Consensus pattern (55 bp):
AATAAAAATGGAGAAATGAAAAACATTTGGAAAATATGGTTTTCTCCAAAATAAA
Found at i:32662976 original size:16 final size:17
Alignment explanation
Indices: 32662955--32662989 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
32662945 TTTTTCTTTA
32662955 TTTATTTACTTTT-TTC
1 TTTATTTACTTTTATTC
*
32662971 TTTATTTATTTTTATTC
1 TTTATTTACTTTTATTC
32662988 TT
1 TT
32662990 CTAAGTCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTATTTACTTTTATTC
Found at i:32662991 original size:20 final size:19
Alignment explanation
Indices: 32662939--32662991 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 19
32662929 TTTAATTCAT
32662939 TTTTTATTTTTCTTTATTTA
1 TTTTTA-TTTTCTTTATTTA
32662959 TTTACTT-TTTTCTTTATTTA
1 TTT--TTATTTTCTTTATTTA
32662979 TTTTTATTCTTCT
1 TTTTTATT-TTCT
32662992 AAGTCTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 2 0.07
19 2 0.07
20 23 0.79
22 2 0.07
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTATTTTCTTTATTTA
Found at i:32665747 original size:13 final size:13
Alignment explanation
Indices: 32665729--32665758 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
32665719 TAGAGTATTT
*
32665729 CAAGGATCGAATC
1 CAAGGATCGAACC
32665742 CAAGGATCGAACC
1 CAAGGATCGAACC
32665755 CAAG
1 CAAG
32665759 CGAATCATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.27, G:0.23, T:0.10
Consensus pattern (13 bp):
CAAGGATCGAACC
Found at i:32666909 original size:23 final size:23
Alignment explanation
Indices: 32666878--32666935 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
32666868 ACGATGTTGG
*
32666878 TATCATGATACCAAGGAATAGGA
1 TATCGTGATACCAAGGAATAGGA
*
32666901 TATCGTGATACCAATGAATAGGA
1 TATCGTGATACCAAGGAATAGGA
*
32666924 TATTGTGATACC
1 TATCGTGATACC
32666936 TCAGACAGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (23 bp):
TATCGTGATACCAAGGAATAGGA
Found at i:32672236 original size:98 final size:98
Alignment explanation
Indices: 32672062--32672258 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
32672052 GTACAATAAA
* *
32672062 ACTTTAAAAGAATATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
32672127 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
32672160 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
32672225 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
32672258 A
1 A
32672259 TAATTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:32673965 original size:13 final size:15
Alignment explanation
Indices: 32673935--32673973 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
32673925 GTTTCTAATT
32673935 TTTTCGGGCCATTGTA
1 TTTT-GGGCCATTGTA
32673951 -TTTGGGCCA-TGTA
1 TTTTGGGCCATTGTA
32673964 TTTTGGGCCA
1 TTTTGGGCCA
32673974 CCTTATCTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.18
14 15 0.68
15 3 0.14
ACGTcount: A:0.13, C:0.18, G:0.28, T:0.41
Consensus pattern (15 bp):
TTTTGGGCCATTGTA
Found at i:32674477 original size:125 final size:127
Alignment explanation
Indices: 32674324--32674563 Score: 358
Period size: 125 Copynumber: 1.9 Consensus size: 127
32674314 GTCCCGATGT
* * * *
32674324 GATCTACTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTATAATCCGCTCCACTGTAACTTC
1 GATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGAGGTTATAATCCACTCCACTATAACTTC
* * * *
32674389 AGGGAAATAGGATTGTCGCCTTTAATCTGTTCCGCTGCAAC-TCAGGGAGTAAACTAGATAC
66 AGGGAAATAGGATTATCGCCTTTAATCTGCTCCACCGCAACTTCAGGGAGTAAACTAGATAC
* *
32674450 GATCTACTCT-CTGCATCTTCAGAGAGATAAGATCTGAGGTTTTAATCCACTCCACTATAACTTC
1 GATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGAGGTTATAATCCACTCCACTATAACTTC
* *
32674514 AGGGAGATAGGATTATCGGCTTTAATCTGCTCCACCGCAACTTCAGGGAG
66 AGGGAAATAGGATTATCGCCTTTAATCTGCTCCACCGCAACTTCAGGGAG
32674564 ATAAGATTTG
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
125 83 0.82
126 18 0.18
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (127 bp):
GATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGAGGTTATAATCCACTCCACTATAACTTC
AGGGAAATAGGATTATCGCCTTTAATCTGCTCCACCGCAACTTCAGGGAGTAAACTAGATAC
Found at i:32686252 original size:98 final size:98
Alignment explanation
Indices: 32686073--32686269 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
32686063 GTACAATAAA
*
32686073 ACTTTAAAAGAATATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
32686138 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
32686171 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
32686236 CCTTTAAAATCTCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
32686269 A
1 A
32686270 TAATTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:32690372 original size:23 final size:23
Alignment explanation
Indices: 32690344--32690387 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
32690334 TTCTTTTATT
32690344 TTTATTATTTTAAAT-ATAAAATA
1 TTTATT-TTTTAAATAATAAAATA
*
32690367 TTTATTTTTTATATAATAAAA
1 TTTATTTTTTAAATAATAAAA
32690388 ATTAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTATTTTTTAAATAATAAAATA
Found at i:32691263 original size:23 final size:22
Alignment explanation
Indices: 32691233--32691285 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 22
32691223 TTTTTTAAAA
32691233 TTTTTAAAAAATAATTTAATGAT
1 TTTTTAAAAAATAATTTAAT-AT
* *
32691256 TTTTTAAAAAATATTTTTATAT
1 TTTTTAAAAAATAATTTAATAT
32691278 TTTTTAAA
1 TTTTTAAA
32691286 TTTTTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTTTAAAAAATAATTTAATAT
Found at i:32691264 original size:22 final size:21
Alignment explanation
Indices: 32691226--32691285 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
32691216 TTAATTATTT
* *
32691226 TTTAAAATTTTTAAAAAATAA
1 TTTAATATTTTTTAAAAATAA
*
32691247 TTTAATGATTTTTTAAAAAATAT
1 TTTAAT-ATTTTTT-AAAAATAA
*
32691270 TTTTATATTTTTTAAA
1 TTTAATATTTTTTAAA
32691286 TTTTTAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 8 0.24
22 13 0.39
23 12 0.36
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTAATATTTTTTAAAAATAA
Found at i:32694784 original size:22 final size:23
Alignment explanation
Indices: 32694731--32694786 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
32694721 CCCGTTTTTA
* * *
32694731 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
32694754 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
32694776 ATTAAAATTAA
1 ATTAAAATTAA
32694787 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:32694799 original size:16 final size:16
Alignment explanation
Indices: 32694762--32694801 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
32694752 TTAATAAAAT
* *
32694762 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
32694778 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
32694794 TAAAATTA
1 TAAAATTA
32694802 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:32694871 original size:66 final size:66
Alignment explanation
Indices: 32694790--32694988 Score: 331
Period size: 66 Copynumber: 3.1 Consensus size: 66
32694780 AAATTAATTG
*
32694790 TTAGTAAAATTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
32694855 A
66 A
32694856 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
32694921 A
66 A
*
32694922 TTAGTAAATTTATC-AA--ATT-A---TTAATTGTATTAATTGTTGTAACAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
32694980 A
66 A
32694981 TTAGTAAA
1 TTAGTAAA
32694989 ACAAACTTGA
Statistics
Matches: 131, Mismatches: 2, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
59 46 0.35
62 1 0.01
63 3 0.02
65 2 0.02
66 79 0.60
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (66 bp):
TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
A
Found at i:32695092 original size:22 final size:24
Alignment explanation
Indices: 32695052--32695095 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
32695042 AAATAAACTT
32695052 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
32695076 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
32695096 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:32695950 original size:20 final size:20
Alignment explanation
Indices: 32695925--32695974 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
32695915 AAGGAGCCAA
*
32695925 TAAATCAATTTGATTAAAAT
1 TAAATCAAATTGATTAAAAT
32695945 TAAATCAAATTGATTAAAAT
1 TAAATCAAATTGATTAAAAT
* *
32695965 CAAATAAAAT
1 TAAATCAAAT
32695975 AAGATAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (20 bp):
TAAATCAAATTGATTAAAAT
Found at i:32699421 original size:59 final size:59
Alignment explanation
Indices: 32699302--32699413 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 59
32699292 TTATGAAACA
* * * * * *
32699302 AAATCAAAATCAATTTTGTTAAATGACAGGACTAAATCCCGAAACTAAATTATATAATT
1 AAATCAAAATAAAATCTATTAAACGACAGGAATAAATCCCGAAACTAAATTATATAATT
*
32699361 AAATCAAAATAAAATCTATTAAACGACGGGAATAAATCCCGAAA-TAGAATTAT
1 AAATCAAAATAAAATCTATTAAACGACAGGAATAAATCCCGAAACTA-AATTAT
32699414 TTGATTAAGT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
58 2 0.04
59 43 0.96
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (59 bp):
AAATCAAAATAAAATCTATTAAACGACAGGAATAAATCCCGAAACTAAATTATATAATT
Found at i:32699477 original size:83 final size:83
Alignment explanation
Indices: 32699361--32699577 Score: 237
Period size: 83 Copynumber: 2.6 Consensus size: 83
32699351 TTATATAATT
* * *
32699361 AAATCAAAATAAAATC-TATTAAACGACGGGAATAAATCCCGAAATAGAATTATTTGA-TTAAGT
1 AAATC-AAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAATAGAATTATTTAATTTAA-T
** *
32699424 CT-TTCTTTGGAAACAAAACA
64 -TATAATTTGAAAACAAAACA
* * * * *
32699444 ATATCGAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAATTTAATT
1 AAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAATAGA-ATTATTTAATTTAATT
*
32699509 ATAATTTGAAAACAAAATA
65 ATAATTTGAAAACAAAACA
* *
32699528 AAATCAAAT-AAATTTTGTTAAACGGCGGGAATAAATCCCAAAATA-AATTA
1 AAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAATAGAATTA
32699578 GTCATTCAAT
Statistics
Matches: 111, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
81 3 0.03
82 10 0.09
83 65 0.59
84 29 0.26
85 4 0.04
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (83 bp):
AAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAATAGAATTATTTAATTTAATTA
TAATTTGAAAACAAAACA
Found at i:32700592 original size:12 final size:12
Alignment explanation
Indices: 32700575--32700603 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
32700565 CATCTGGACC
32700575 TTTTTTTCAATT
1 TTTTTTTCAATT
32700587 TTTTTTTCAATT
1 TTTTTTTCAATT
32700599 TTTTT
1 TTTTT
32700604 CTTTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTCAATT
Found at i:32700615 original size:10 final size:10
Alignment explanation
Indices: 32700575--32700623 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
32700565 CATCTGGACC
32700575 TTTTTTTCAATT
1 TTTTTTTC--TT
**
32700587 TTTTTTTCAA
1 TTTTTTTCTT
32700597 TTTTTTTCTT
1 TTTTTTTCTT
32700607 TTTTTTTCTT
1 TTTTTTTCTT
32700617 TTTTTTT
1 TTTTTTT
32700624 TTGAAGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 25 0.76
12 8 0.24
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:32706804 original size:4 final size:4
Alignment explanation
Indices: 32706795--32706842 Score: 55
Period size: 4 Copynumber: 11.8 Consensus size: 4
32706785 AGATGGATAA
32706795 AAAT AAAT AAAT AAAT AAAT AAAT AAAAT AGAAT --AT AAAT AAGAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A-AAT AAAT AAAT AA-AT AAA
32706843 GATAAGGTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 2 0.05
4 26 0.67
5 11 0.28
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:32707387 original size:44 final size:43
Alignment explanation
Indices: 32707271--32707406 Score: 182
Period size: 43 Copynumber: 3.1 Consensus size: 43
32707261 ACGTTTTACC
* * *
32707271 CACAAACGCCGCTAAAGAACATGACCTTTAACGACGCTTTTAT
1 CACAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTAT
* * * *
32707314 CACAAACGCCACTAAAGAGCATCACCTTTAGCGGCACTTTTTTT
1 CACAAACGCCGCTAAAGAACATGACCTTTAGCGGCAC-TTTTAT
* *
32707358 CACAAACGCCGCTAAAAAACATGATCTTTAGCGGCACTTTTAT
1 CACAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTAT
32707401 CACAAA
1 CACAAA
32707407 TTCTGCTAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 42 0.53
44 37 0.47
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (43 bp):
CACAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTAT
Found at i:32710039 original size:43 final size:43
Alignment explanation
Indices: 32709991--32710110 Score: 158
Period size: 43 Copynumber: 2.8 Consensus size: 43
32709981 GTAAGTTGTT
32709991 TATTTATAAGTATAATTGAGTTATG-AAGTTATGATATGATATA
1 TATTTATAAGTAT-ATTGAGTTATGTAAGTTATGATATGATATA
32710034 TATTTAT--GTATTATGTGAGTTATGTAAGTTATGATATGATATA
1 TATTTATAAGTA-TAT-TGAGTTATGTAAGTTATGATATGATATA
*
32710077 TATATATATAAGT-TATTAAGTTATGTAAGTTATG
1 TAT-T-TATAAGTATATTGAGTTATGTAAGTTATG
32710111 TAAGTTATGT
Statistics
Matches: 69, Mismatches: 1, Indels: 13
0.83 0.01 0.16
Matches are distributed among these distances:
41 5 0.07
42 10 0.14
43 28 0.41
44 18 0.26
45 6 0.09
47 2 0.03
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (43 bp):
TATTTATAAGTATATTGAGTTATGTAAGTTATGATATGATATA
Found at i:32710058 original size:9 final size:9
Alignment explanation
Indices: 32710044--32710173 Score: 88
Period size: 9 Copynumber: 14.3 Consensus size: 9
32710034 TATTTATGTA
*
32710044 TTATGTGAG
1 TTATGTAAG
32710053 TTATGTAAG
1 TTATGTAAG
*
32710062 TTATGATATG
1 TTATG-TAAG
* *
32710072 ATATAT-A-
1 TTATGTAAG
*
32710079 TATATATAAG
1 T-TATGTAAG
32710089 TTAT-TAAG
1 TTATGTAAG
32710097 TTATGTAAG
1 TTATGTAAG
32710106 TTATGTAAG
1 TTATGTAAG
*
32710115 TTATGTATG
1 TTATGTAAG
* *
32710124 CTATGTGAG
1 TTATGTAAG
*
32710133 TTATGCAAG
1 TTATGTAAG
*
32710142 TTATGATATG
1 TTATG-TAAG
*
32710152 ATATATATAAG
1 -T-TATGTAAG
32710163 TTAT-TAAG
1 TTATGTAAG
32710171 TTA
1 TTA
32710174 AGATCCAAAG
Statistics
Matches: 96, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
8 20 0.21
9 59 0.61
10 10 0.10
11 4 0.04
12 3 0.03
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:32712168 original size:40 final size:40
Alignment explanation
Indices: 32712111--32712187 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
32712101 AAACAAAATG
* * *
32712111 ACCTTTTGCGGCGTTTTTCTCCTAGCGCCTCTAATGCTCA
1 ACCTTTTGCGGCATTTTTCACCTAGCGCCGCTAATGCTCA
*
32712151 ACCTTTTGCGGCATTTTTCACCTAGCGTCGCTAATGC
1 ACCTTTTGCGGCATTTTTCACCTAGCGCCGCTAATGC
32712188 CACTAAAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.14, C:0.31, G:0.18, T:0.36
Consensus pattern (40 bp):
ACCTTTTGCGGCATTTTTCACCTAGCGCCGCTAATGCTCA
Found at i:32712457 original size:8 final size:8
Alignment explanation
Indices: 32712439--32712487 Score: 50
Period size: 7 Copynumber: 6.5 Consensus size: 8
32712429 ACAATAAACA
32712439 CTAAG-CC
1 CTAAGACC
*
32712446 CTAAGCCC
1 CTAAGACC
32712454 CTAAGACC
1 CTAAGACC
32712462 CTAA-ACC
1 CTAAGACC
32712469 CTAA-ACC
1 CTAAGACC
* *
32712476 TTAAGCCC
1 CTAAGACC
32712484 CTAA
1 CTAA
32712488 CCCCTAAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
7 18 0.50
8 18 0.50
ACGTcount: A:0.35, C:0.41, G:0.08, T:0.16
Consensus pattern (8 bp):
CTAAGACC
Found at i:32712467 original size:30 final size:29
Alignment explanation
Indices: 32712433--32712503 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
32712423 TTTCAAACAA
*
32712433 TAAACACTAAGCCCTAAGCCCCTAAGACCC
1 TAAACACTAAACCCTAAGCCCCTAA-ACCC
* * *
32712463 TAAACCCTAAACCTTAAGCCCCTAACCCC
1 TAAACACTAAACCCTAAGCCCCTAAACCC
*
32712492 TAAACTCTAAAC
1 TAAACACTAAAC
32712504 TTTAAACCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 14 0.39
30 22 0.61
ACGTcount: A:0.38, C:0.39, G:0.06, T:0.17
Consensus pattern (29 bp):
TAAACACTAAACCCTAAGCCCCTAAACCC
Found at i:32712470 original size:15 final size:14
Alignment explanation
Indices: 32712433--32712633 Score: 104
Period size: 14 Copynumber: 14.3 Consensus size: 14
32712423 TTTCAAACAA
* *
32712433 TAAACACTAAGCCC
1 TAAACCCTAAACCC
*
32712447 TAAGCCCCTAAGACCC
1 TAA-ACCCTAA-ACCC
*
32712463 TAAACCCTAAACCT
1 TAAACCCTAAACCC
* *
32712477 TAAGCCCCTAACCCC
1 TAA-ACCCTAAACCC
* **
32712492 TAAACTCTAAACTT
1 TAAACCCTAAACCC
*
32712506 TAAACCATAAAACCC
1 TAAACCCT-AAACCC
* *
32712521 TAAGCTCT-AACCC
1 TAAACCCTAAACCC
*
32712534 ATAAA-CCT-ACCCC
1 -TAAACCCTAAACCC
* *
32712547 TAAACCATAAACAC
1 TAAACCCTAAACCC
* *
32712561 TAAACTCTTAACCC
1 TAAACCCTAAACCC
* * *
32712575 TAAATCATAAATCC
1 TAAACCCTAAACCC
* *
32712589 TAAACCTTAAACCA
1 TAAACCCTAAACCC
**
32712603 TAAACTATAAA-CC
1 TAAACCCTAAACCC
*
32712616 TACACCCTAAACCC
1 TAAACCCTAAACCC
32712630 TAAA
1 TAAA
32712634 TATATTACAA
Statistics
Matches: 133, Mismatches: 46, Indels: 16
0.68 0.24 0.08
Matches are distributed among these distances:
12 4 0.03
13 22 0.17
14 70 0.53
15 31 0.23
16 6 0.05
ACGTcount: A:0.43, C:0.35, G:0.02, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCC
Found at i:32712485 original size:22 final size:22
Alignment explanation
Indices: 32712455--32712496 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
32712445 CCTAAGCCCC
32712455 TAAGACCCTAAACCCTAAACCT
1 TAAGACCCTAAACCCTAAACCT
* *
32712477 TAAGCCCCTAACCCCTAAAC
1 TAAGACCCTAAACCCTAAAC
32712497 TCTAAACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.40, G:0.05, T:0.17
Consensus pattern (22 bp):
TAAGACCCTAAACCCTAAACCT
Found at i:32712585 original size:21 final size:22
Alignment explanation
Indices: 32712461--32712633 Score: 75
Period size: 21 Copynumber: 8.3 Consensus size: 22
32712451 CCCCTAAGAC
* * *
32712461 CCTAAACCCTAAACCTTAAGCC
1 CCTAAACCCTAAACCATAAACT
*
32712483 CCTAACCCCTAAACTC-TAAACT
1 CCTAAACCCTAAAC-CATAAACT
* * * *
32712505 -TTAAACCATAAAACCCTAAGCT
1 CCTAAACCCT-AAACCATAAACT
*
32712527 -CT-AACCCATAAACC-T--ACC
1 CCTAAACCC-TAAACCATAAACT
*
32712545 CCTAAACCATAAA-CACTAAACT
1 CCTAAACCCTAAACCA-TAAACT
* *
32712567 -CTTAACCCTAAATCATAAA-T
1 CCTAAACCCTAAACCATAAACT
*
32712587 CCTAAACCTTAAACCATAAACT
1 CCTAAACCCTAAACCATAAACT
* * *
32712609 -ATAAA-CCTACACCCTAAAC-
1 CCTAAACCCTAAACCATAAACT
32712628 CCTAAA
1 CCTAAA
32712634 TATATTACAA
Statistics
Matches: 114, Mismatches: 23, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
18 2 0.02
19 6 0.05
20 22 0.19
21 50 0.44
22 33 0.29
23 1 0.01
ACGTcount: A:0.43, C:0.35, G:0.01, T:0.21
Consensus pattern (22 bp):
CCTAAACCCTAAACCATAAACT
Found at i:32712821 original size:14 final size:15
Alignment explanation
Indices: 32712804--32712847 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
32712794 AATAAACCCC
32712804 AAACTAC-AAACTCT
1 AAACTACAAAACTCT
*
32712818 AAACCACAAAAC-CT
1 AAACTACAAAACTCT
32712832 AAACT-CAAAACTCT
1 AAACTACAAAACTCT
32712846 AA
1 AA
32712848 TCCCAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 6 0.23
14 16 0.62
15 4 0.15
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.16
Consensus pattern (15 bp):
AAACTACAAAACTCT
Found at i:32712854 original size:14 final size:14
Alignment explanation
Indices: 32712811--32712855 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
32712801 CCCAAACTAC
32712811 AAACTCTAAACCACA
1 AAACTCTAAACC-CA
*
32712826 AAAC-CTAAACTCA
1 AAACTCTAAACCCA
*
32712839 AAACTCTAATCCCA
1 AAACTCTAAACCCA
32712853 AAA
1 AAA
32712856 TAATAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 6 0.23
14 16 0.62
15 4 0.15
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACTCTAAACCCA
Found at i:32713111 original size:40 final size:40
Alignment explanation
Indices: 32713022--32713099 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
32713012 CAACTTTTTA
*
32713022 CGGTGTTTTGCTAAAAGCGCCGCTAATGCTCGACCTATAG
1 CGGTGTTTTTCTAAAAGCGCCGCTAATGCTCGACCTATAG
* * * *
32713062 CGGCGTTTTTC-AACAAGGGCCGCTAATTCTCGATCTAT
1 CGGTGTTTTTCTAA-AAGCGCCGCTAATGCTCGACCTAT
32713100 TATGGTGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.06
40 30 0.94
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (40 bp):
CGGTGTTTTTCTAAAAGCGCCGCTAATGCTCGACCTATAG
Found at i:32713526 original size:308 final size:308
Alignment explanation
Indices: 32712986--32713592 Score: 677
Period size: 308 Copynumber: 2.0 Consensus size: 308
32712976 GCCACAAAAT
* ** * * *
32712986 CTCAACAACAAACGGCGTTGTTTTCTCAACTTTTTACGGTGTTTTGCTAAAAGCGCCGCTAATGC
1 CTCAACAACAAACGGCGTCGTTTTCTCAACTTTTTACGGCATTTTCCAAAAAGAGCCGCTAATGC
* * * * **
32713051 TCGACCTATAGCGGCGTTTTTCAACAAGGGCCGCTAATTCTCGATCTATTATGGTGTTTTTAAAA
66 TCGACCTATAGCGCCGTTTTTCAACAAGGACCGCTAATGCTCGATCTACTACAGTGTTTTTAAAA
* * * *
32713116 AAAGCATCGCTAATGCCACTAATGCTAAAAAAACAAACGACGTCGTTTTGCTCAACTTTTTGCGG
131 AAAGCACCGCTAATGCCACTAAAGCTAAAAAAACAAACGACGTCGTTTTGCTAAACTTTTTGCGA
* * *
32713181 TGTTTCCAAAAAAGCGCAACTAATGCTCAATCTATAGCGGCATTTTTCGACAAGCGCTGCTAAT-
196 TGTTTCCAAAAAAGCACAACTAATGCTCAATCTATAGCGGCATTTTTCGAAAAGCGCCGCTAATG
* * * *
32713245 TTTCGATTTATTGCAGCGTTTTTTAAAAAGCGCCGCTAATACATTAAAG
261 CTT-GATCTATAGCAGCGTTTTTCAAAAAGCGCCGCTAATACATTAAAG
* ** * *
32713294 CTCAACAATAAACGGCGTCGTTTTGCTCAACTTTTTTGTGGCATTTTCCAAAAATAGCTGCTAAT
1 CTCAACAACAAACGGCGTCGTTTT-CTCAAC-TTTTTACGGCATTTTCCAAAAAGAGCCGCTAAT
* * * * *
32713359 GCTCGATCTATAGTGCCGTTTTTCAA-ATGGCACCTCTAATGCTCGATCTACTGCAGTGTTTTT-
64 GCTCGACCTATAGCGCCGTTTTTCAACAAGG-ACCGCTAATGCTCGATCTACTACAGTGTTTTTA
* * * * *
32713422 TAAAAAGCGCCGCTAATGCCACTAAAGCT-CAACAACAAACGATGT-GTTTTGCTAAACTTTTTT
128 AAAAAAGCACCGCTAATGCCACTAAAGCTAAAAAAACAAACGACGTCGTTTTGCTAAAC-TTTTT
* ** * ** * ** *
32713485 GC-ATCGTTTTCTGAAAAGTACCGCTAATGCTCTATCTATAGCGGTGTTTTTTGAAAAGCGCCGC
192 GCGAT-GTTTCCAAAAAAGCACAACTAATGCTCAATCTATAGCGGCATTTTTCGAAAAGCGCCGC
*
32713549 TAATGCTTGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAAT
256 TAATGCTTGATCTATAGCAGCGTTTTTCAAAAAGCGCCGCTAAT
32713593 GCTCGATCTA
Statistics
Matches: 244, Mismatches: 49, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
307 12 0.05
308 124 0.51
309 36 0.15
310 72 0.30
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (308 bp):
CTCAACAACAAACGGCGTCGTTTTCTCAACTTTTTACGGCATTTTCCAAAAAGAGCCGCTAATGC
TCGACCTATAGCGCCGTTTTTCAACAAGGACCGCTAATGCTCGATCTACTACAGTGTTTTTAAAA
AAAGCACCGCTAATGCCACTAAAGCTAAAAAAACAAACGACGTCGTTTTGCTAAACTTTTTGCGA
TGTTTCCAAAAAAGCACAACTAATGCTCAATCTATAGCGGCATTTTTCGAAAAGCGCCGCTAATG
CTTGATCTATAGCAGCGTTTTTCAAAAAGCGCCGCTAATACATTAAAG
Found at i:32713549 original size:40 final size:40
Alignment explanation
Indices: 32713489--32713635 Score: 190
Period size: 40 Copynumber: 3.7 Consensus size: 40
32713479 TTTTTTGCAT
* **
32713489 CGTTTTCTGAAAAGTACCGCTAATGCTCTATCTATAGCGG
1 CGTTTTTTGAAAAGCGCCGCTAATGCTCTATCTATAGCGG
*
32713529 TGTTTTTTGAAAAGCGCCGCTAATGCT-TGATCTATAGCGG
1 CGTTTTTTGAAAAGCGCCGCTAATGCTCT-ATCTATAGCGG
** * *
32713569 CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCAG
1 CGTTTTTTGAAAAGCGCCGCTAATGCTCTATCTATAGCGG
*
32713609 CG-TTTTTCAAAAGCGCCGCTAATGCTC
1 CGTTTTTTGAAAAGCGCCGCTAATGCTC
32713636 GACCTTTTAC
Statistics
Matches: 94, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 24 0.26
40 70 0.74
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (40 bp):
CGTTTTTTGAAAAGCGCCGCTAATGCTCTATCTATAGCGG
Found at i:32713594 original size:154 final size:153
Alignment explanation
Indices: 32712967--32713594 Score: 554
Period size: 154 Copynumber: 4.1 Consensus size: 153
32712957 TGATAAAAAT
* * * * *
32712967 GCCGCTAATGCCACAAAATCTCAACAACAAACGGCGTTGTTTT-CTCAACTTTTTACGGTGTTTT
1 GCCGCTAATGCCACTAAAGCTCAACAACAAACGACGTCGTTTTGCTCAACTTTTTGCGGTGTTTT
* * * *
32713031 GCTAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGTTTTTCAACAAGGGCCGCTAATTCTCGAT
66 -CTAAAAGCACCGCTAATGCTCGATCTATAGCGGCGTTTTTCAA-AAGCGCCGCTAATGCTCGAT
* * *
32713096 CTATTATG--GTGTTTTTAAAAAAAGC
129 CTACTA-GCAGCGTTTTT-TAAAAAGC
** * * *
32713121 ATCGCTAATGCCACTAATGCTAAAAAAACAAACGACGTCGTTTTGCTCAACTTTTTGCGGTGTTT
1 GCCGCTAATGCCACTAAAGCT-CAACAACAAACGACGTCGTTTTGCTCAACTTTTTGCGGTGTTT
* * * ** * * * * **
32713186 CCAAAAAAGCGCAACTAATGCTCAATCTATAGCGGCATTTTTCGACAAGCGCTGCTAATTTTCGA
65 TC-TAAAAGCACCGCTAATGCTCGATCTATAGCGGCGTTTTTC-AAAAGCGCCGCTAATGCTCGA
* *
32713251 TTTA-TTGCAGCGTTTTTTAAAAAGC
128 TCTACTAGCAGCGTTTTTTAAAAAGC
* * * * * **
32713276 GCCGCTAAT-ACATTAAAGCTCAACAATAAACGGCGTCGTTTTGCTCAACTTTTTTGTGGCATTT
1 GCCGCTAATGCCACTAAAGCTCAACAACAAACGACGTCGTTTTGCTCAAC-TTTTTGCGGTGTTT
* ** * * * * * *
32713340 TCCAAAAATAGCTGCTAATGCTCGATCTATAGTGCCGTTTTTCAAATGGCACCTCTAATGCTCGA
65 TCTAAAAGCA-CCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAA-AGCGCCGCTAATGCTCGA
*
32713405 TCTACT-GCAGTGTTTTTTAAAAAGC
128 TCTACTAGCAGCGTTTTTTAAAAAGC
* * *
32713430 GCCGCTAATGCCACTAAAGCTCAACAACAAACGATGT-GTTTTGCTAAACTTTTTTGC-ATCGTT
1 GCCGCTAATGCCACTAAAGCTCAACAACAAACGACGTCGTTTTGCTCAAC-TTTTTGCGGT-GTT
* * * * *
32713493 TTCTGAAAAGTACCGCTAATGCTCTATCTATAGCGGTGTTTTTTGAAAAGCGCCGCTAATGCTTG
64 TTCT-AAAAGCACCGCTAATGCTCGATCTATAGCGGCG-TTTTTCAAAAGCGCCGCTAATGCTCG
* *
32713558 ATCTA-TAGCGGCGTTTTTCAAAAAGC
127 ATCTACTAGCAGCGTTTTTTAAAAAGC
32713584 GCCGCTAATGC
1 GCCGCTAATGC
32713595 TCGATCTATA
Statistics
Matches: 377, Mismatches: 82, Indels: 30
0.77 0.17 0.06
Matches are distributed among these distances:
153 32 0.08
154 194 0.51
155 71 0.19
156 79 0.21
157 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (153 bp):
GCCGCTAATGCCACTAAAGCTCAACAACAAACGACGTCGTTTTGCTCAACTTTTTGCGGTGTTTT
CTAAAAGCACCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAGCGCCGCTAATGCTCGATCT
ACTAGCAGCGTTTTTTAAAAAGC
Found at i:32713655 original size:40 final size:39
Alignment explanation
Indices: 32713505--32713637 Score: 203
Period size: 40 Copynumber: 3.4 Consensus size: 39
32713495 CTGAAAAGTA
* * *
32713505 CCGCTAATGCTCTATCTATAGCGGTGTTTTTTGAAAAGCG
1 CCGCTAATGCTCGATCTATAGCGGCG-TTTTTCAAAAGCG
*
32713545 CCGCTAATGCTTGATCTATAGCGGCGTTTTTCAAAAAGCG
1 CCGCTAATGCTCGATCTATAGCGGCGTTTTTC-AAAAGCG
*
32713585 CCGCTAATGCTCGATCTATAGCAGCGTTTTTCAAAAGCG
1 CCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAGCG
32713624 CCGCTAATGCTCGA
1 CCGCTAATGCTCGA
32713638 CCTTTTACGG
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 26 0.30
40 60 0.70
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (39 bp):
CCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAGCG
Found at i:32714073 original size:11 final size:11
Alignment explanation
Indices: 32714057--32714081 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32714047 GCGGTTATTG
32714057 TATTTATTGTA
1 TATTTATTGTA
32714068 TATTTATTGTA
1 TATTTATTGTA
32714079 TAT
1 TAT
32714082 AAAGGGACCC
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TATTTATTGTA
Found at i:32714698 original size:21 final size:21
Alignment explanation
Indices: 32714659--32714698 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32714649 TTCATTTAAA
* *
32714659 AATATAAATGATATAGAATAT
1 AATATAAATCAAATAGAATAT
*
32714680 AATATAAATCAAATGGAAT
1 AATATAAATCAAATAGAAT
32714699 TACTGATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (21 bp):
AATATAAATCAAATAGAATAT
Found at i:32714739 original size:21 final size:21
Alignment explanation
Indices: 32714706--32714746 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
32714696 AATTACTGAT
* *
32714706 AAAAGTTCTATATCTCTATAG
1 AAAAGTTCGATATATCTATAG
*
32714727 AAAAGTTGGATATATCTATA
1 AAAAGTTCGATATATCTATA
32714747 TAATCAATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
AAAAGTTCGATATATCTATAG
Found at i:32714823 original size:19 final size:19
Alignment explanation
Indices: 32714799--32714857 Score: 91
Period size: 19 Copynumber: 3.1 Consensus size: 19
32714789 ATATCTATGG
32714799 ATTAATAATAATCTATATA
1 ATTAATAATAATCTATATA
*
32714818 ATTAATAATACTCTATATA
1 ATTAATAATAATCTATATA
*
32714837 GATAAATAATAATCTATATA
1 -ATTAATAATAATCTATATA
32714857 A
1 A
32714858 CATAATCTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 19 0.53
20 17 0.47
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.39
Consensus pattern (19 bp):
ATTAATAATAATCTATATA
Found at i:32714825 original size:16 final size:16
Alignment explanation
Indices: 32714804--32714871 Score: 50
Period size: 14 Copynumber: 3.9 Consensus size: 16
32714794 TATGGATTAA
32714804 TAATAATCTATATAAT
1 TAATAATCTATATAAT
32714820 TAATAATACTCTATATAGAT
1 TAAT-A-A-TCTATATA-AT
32714840 AAATAATAATCTATATAA-
1 ---TAATAATCTATATAAT
*
32714858 -CATAATCTATATAA
1 TAATAATCTATATAA
32714872 CAAAGTAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 16
0.72 0.02 0.26
Matches are distributed among these distances:
14 13 0.30
16 4 0.09
17 1 0.02
18 1 0.02
19 9 0.20
20 10 0.23
21 1 0.02
22 1 0.02
23 4 0.09
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.38
Consensus pattern (16 bp):
TAATAATCTATATAAT
Found at i:32714846 original size:20 final size:19
Alignment explanation
Indices: 32714802--32714857 Score: 85
Period size: 20 Copynumber: 2.9 Consensus size: 19
32714792 TCTATGGATT
*
32714802 AATAATAATCTATATAATT
1 AATAATAATCTATATAATA
*
32714821 AATAATACTCTATATAGATA
1 AATAATAATCTATATA-ATA
32714841 AATAATAATCTATATAA
1 AATAATAATCTATATAA
32714858 CATAATCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATAATCTATATAATA
Found at i:32714864 original size:14 final size:14
Alignment explanation
Indices: 32714845--32714873 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
32714835 TAGATAAATA
32714845 ATAATCTATATAAC
1 ATAATCTATATAAC
32714859 ATAATCTATATAAC
1 ATAATCTATATAAC
32714873 A
1 A
32714874 AAGTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATCTATATAAC
Found at i:32715939 original size:7 final size:7
Alignment explanation
Indices: 32715929--32715967 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
32715919 TTATTGAGCT
32715929 TATAATA
1 TATAATA
32715936 TATAATA
1 TATAATA
32715943 TATAATA
1 TATAATA
32715950 TATAATA
1 TATAATA
32715957 TATAATA
1 TATAATA
32715964 TATA
1 TATA
32715968 TTAGATGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:32716054 original size:58 final size:56
Alignment explanation
Indices: 32715990--32716114 Score: 148
Period size: 56 Copynumber: 2.2 Consensus size: 56
32715980 ATATTAATTC
*
32715990 TATTATATATTTATCAATTCTATTATATATATTCTAATATATATTAGTATTAGAAT-TTA
1 TATTATATATTTATCAATT-TATT-TATATATT-TAATATATAATA-TATTAGAATATTA
* * *
32716049 T-TTATATATTTTATTAATTTATTTATATATTTTATTTATAATATATTAGAATATTA
1 TATTATATA-TTTATCAATTTATTTATATATTTAATATATAATATATTAGAATATTA
32716105 TATT-TATATT
1 TATTATATATT
32716115 ATATTTATAT
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
55 11 0.19
56 17 0.29
57 10 0.17
58 11 0.19
59 10 0.17
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (56 bp):
TATTATATATTTATCAATTTATTTATATATTTAATATATAATATATTAGAATATTA
Found at i:32716063 original size:13 final size:13
Alignment explanation
Indices: 32716045--32716088 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
32716035 AGTATTAGAA
32716045 TTTATTTATATAT
1 TTTATTTATATAT
32716058 TTTA--T-TA-A-
1 TTTATTTATATAT
32716066 TTTATTTATATAT
1 TTTATTTATATAT
32716079 TTTATTTATA
1 TTTATTTATA
32716089 ATATATTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
8 4 0.15
9 1 0.04
10 3 0.12
11 3 0.12
12 1 0.04
13 14 0.54
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTATTTATATAT
Found at i:32716069 original size:21 final size:21
Alignment explanation
Indices: 32716043--32716084 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
32716033 TTAGTATTAG
32716043 AATTTATTTATATATTTTATT
1 AATTTATTTATATATTTTATT
32716064 AATTTATTTATATATTTTATT
1 AATTTATTTATATATTTTATT
32716085 TATAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
AATTTATTTATATATTTTATT
Found at i:32716095 original size:24 final size:24
Alignment explanation
Indices: 32715994--32716124 Score: 87
Period size: 24 Copynumber: 5.5 Consensus size: 24
32715984 TAATTCTATT
*
32715994 ATATATTTATCA-ATTCTA-TTAT-
1 ATATATTTAT-ATATTTTATTTATA
* *
32716016 ATATATTCTAATATATATTAGTATTAGA
1 ATATATT-T-ATATATTTTA-T-TTATA
*
32716044 ATTTATTTATATATTTTA--T-TA
1 ATATATTTATATATTTTATTTATA
*
32716065 ATTTATTTATATATTTTATTTATA
1 ATATATTTATATATTTTATTTATA
* *
32716089 ATATA-TTAGAATATTATATTTATA
1 ATATATTTA-TATATTTTATTTATA
*
32716113 TTATATTTATAT
1 ATATATTTATAT
32716125 TACTTATCTA
Statistics
Matches: 86, Mismatches: 11, Indels: 22
0.72 0.09 0.18
Matches are distributed among these distances:
21 19 0.22
22 8 0.09
23 6 0.07
24 31 0.36
25 3 0.03
26 9 0.10
27 4 0.05
28 6 0.07
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
ATATATTTATATATTTTATTTATA
Found at i:32716124 original size:11 final size:11
Alignment explanation
Indices: 32716044--32716126 Score: 63
Period size: 11 Copynumber: 7.9 Consensus size: 11
32716034 TAGTATTAGA
32716044 ATTTAT-TTAT
1 ATTTATATTAT
*
32716054 ATATTTTATTA-
1 AT-TTATATTAT
32716065 ATTTAT-TTAT
1 ATTTATATTAT
32716075 A--TAT-TT-T
1 ATTTATATTAT
*
32716082 ATTTATAATAT
1 ATTTATATTAT
*
32716093 ATTAGAATATTAT
1 ATT--TATATTAT
32716106 ATTTATATTAT
1 ATTTATATTAT
32716117 ATTTATATTA
1 ATTTATATTA
32716127 CTTATCTATT
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
7 2 0.03
8 5 0.09
9 6 0.10
10 7 0.12
11 26 0.45
12 3 0.05
13 9 0.16
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (11 bp):
ATTTATATTAT
Found at i:32736413 original size:33 final size:29
Alignment explanation
Indices: 32736346--32736413 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 29
32736336 AGTATGTACC
*
32736346 AGTATATATTTACAAAATAAGAATGTATA
1 AGTATATATTTACAAAATAAAAATGTATA
*
32736375 TGTATATATTTACAAAAATAAAAAAAATGTATA
1 AGTATATATTTAC-AAAAT---AAAAATGTATA
32736408 AGTATA
1 AGTATA
32736414 CATGTACTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 12 0.38
30 5 0.16
33 15 0.47
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (29 bp):
AGTATATATTTACAAAATAAAAATGTATA
Found at i:32736813 original size:18 final size:18
Alignment explanation
Indices: 32736790--32736839 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
32736780 GTTAGAAAAA
*
32736790 ATTATAAAAAATATATAT
1 ATTATAAAAAATATAAAT
32736808 ATTATAAAATACATATAAAT
1 ATTATAAAA-A-ATATAAAT
* *
32736828 AATATAATAAAT
1 ATTATAAAAAAT
32736840 GATGCAACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 11 0.41
19 2 0.07
20 14 0.52
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTATAAAAAATATAAAT
Found at i:32738206 original size:43 final size:45
Alignment explanation
Indices: 32738130--32738835 Score: 240
Period size: 44 Copynumber: 16.0 Consensus size: 45
32738120 AAGACTTGTA
*
32738130 TCTTCGATCTACTTCACCACCAGTATGGGAAGAC-AGATCTGCTT
1 TCTTCGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGCTT
* * *
32738174 TCTTTGATCTACTTCA-CGCCAGTACGTGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGCTT
* * * * * * *
32738218 TCTTCAATCTACTCCACCACCAGTATGTGG-AGATAAAAT-TACTG
1 TCTTCGATCTACTTCACCACCAGTACG-GGAAGACAAGATCTGCTT
* * * * ** * * * **
32738262 GCTTCAATATACTCCACTGCCACCT-CAGGGAGGTA-AA-ATCCGCCA
1 TCTTCGATCTACTTCACCACCA-GTAC-GGGAAG-ACAAGATCTGCTT
* * * * * *
32738307 TCTTCGATCTGCTCCACTACTGC-TTA-GGG-AGATAAGATCTGTTT
1 TCTTCGATCTACTTCACCAC--CAGTACGGGAAGACAAGATCTGCTT
* * * *
32738351 TCCTCGATCTACTTCGCCACCAGTA-TGG--G--AAGA--TG-TA
1 TCTTCGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGCTT
* * * * * ** * * * *
32738388 TATTCGATCCACTTCGCTACCAATATAGGAAGACAGGACCTACTA
1 TCTTCGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGCTT
* * * * ** * * **
32738433 TCTTTGATCTCCTTTA-CGCCAGTACATGAAAACAGGATCTATTT
1 TCTTCGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGCTT
* * * * *
32738477 TCTTCGACCTACTCCACCACCAGTATGGGGAGACAAGATCT-ATT
1 TCTTCGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGCTT
* * **
32738521 TCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGCTT
* * * *
32738565 TCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TT
1 TCTTCGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGCTT
* * * ** *
32738609 GACTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGATTTT
1 -TCTTCGATCTACTTCACCACCAGTACGGGAAGACAAGATCTG--CTT
* * * * * * *
32738656 TCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATTTG-TA
1 T-CTTCGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGCTT
* * **
32738701 TCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTTTT
1 TCTTCGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGC--TT
* * * * * *
32738747 TCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTG-TA
1 T-CTTCGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGCTT
* * * * * ** *
32738792 TATTTGATCTACTTCGCTACCAATATAGGAAGACAAGACCTGCT
1 TCTTCGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGCT
32738836 GCTTCTCAAC
Statistics
Matches: 481, Mismatches: 144, Indels: 73
0.69 0.21 0.10
Matches are distributed among these distances:
37 21 0.04
38 4 0.01
40 5 0.01
42 6 0.01
43 58 0.12
44 214 0.44
45 105 0.22
46 4 0.01
47 27 0.06
48 37 0.08
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (45 bp):
TCTTCGATCTACTTCACCACCAGTACGGGAAGACAAGATCTGCTT
Found at i:32738543 original size:88 final size:90
Alignment explanation
Indices: 32738431--32738806 Score: 465
Period size: 91 Copynumber: 4.2 Consensus size: 90
32738421 CAGGACCTAC
* * * * *
32738431 TATCTTTGATCTCCTTTACGCCAGTACATGAAAACAGGATCT-ATTTT-CTTCGACCTACTCCAC
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGATTTTCCTTCGATCTACTCCAC
* *
32738494 CACCAGTATGGGGAGACAAGATCTA
66 CACCAGTATGGGAAGACAAGATCTG
* * *
32738519 TTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-CTTT-CTTTGATCTACTCCAC
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGATTTTCCTTCGATCTACTCCAC
*
32738582 CACCAGTATGGGGAGACAAGATCTG
66 CACCAGTATGGGAAGACAAGATCTG
* *
32738607 T-TGACTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGATTTTTCCTTCGATCTGCTT
1 TAT--CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGA-TTTTCCTTCGATCTACTC
* * * *
32738671 CGCCACCAGTATGGGAAGGCGAGATTTG
63 CACCACCAGTATGGGAAGACAAGATCTG
* * * *
32738699 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCG
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-ATTTTCCTTCGATCTACTCCA
* *
32738764 CCACCAGTATGGGAAGGCGAGATCTG
65 CCACCAGTATGGGAAGACAAGATCTG
*
32738790 TATATTTGATCTACTTC
1 TATCTTTGATCTACTTC
32738807 GCTACCAATA
Statistics
Matches: 259, Mismatches: 21, Indels: 13
0.88 0.07 0.04
Matches are distributed among these distances:
87 1 0.00
88 79 0.31
89 40 0.15
91 104 0.40
92 34 0.13
93 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (90 bp):
TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGATTTTCCTTCGATCTACTCCAC
CACCAGTATGGGAAGACAAGATCTG
Found at i:32738733 original size:180 final size:179
Alignment explanation
Indices: 32738434--32738806 Score: 484
Period size: 180 Copynumber: 2.1 Consensus size: 179
32738424 GACCTACTAT
* * *
32738434 CTTTGATCTCCTTTACGCCAGTACATGAAAACAGGATCTATTTTCTTCGACCTACTCCACCACCA
1 CTTTGATCTACTTCACGCCAGTACATGAAAACAAGATCTATTTTCTTCGACCTACTCCACCACCA
* *
32738499 GTATGGGGAGACAAGATCTATTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC-
66 GTATGGGAAGACAAGATCTATATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT
* *
32738563 TTT-CTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGT-TGA
131 TTTCCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGTAT-A
* * * * *
32738611 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGATTTTTCCTTCGATCTGCTTCGCCA
1 CTTTGATCTACTTCACGCCAGTACATGAAAACAAGATCT-A-TTTT-CTTCGACCTACTCCACCA
* * * *
32738676 CCAGTATGGGAAGGCGAGATTTGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCT
63 CCAGTATGGGAAGACAAGATCTATATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCT
* * * * *
32738741 GCTTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATA
128 GC-TTTTCCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGTATA
32738794 -TTTGATCTACTTC
1 CTTTGATCTACTTC
32738807 GCTACCAATA
Statistics
Matches: 168, Mismatches: 21, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
177 35 0.21
178 1 0.01
179 4 0.02
180 75 0.45
182 16 0.10
183 36 0.21
184 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (179 bp):
CTTTGATCTACTTCACGCCAGTACATGAAAACAAGATCTATTTTCTTCGACCTACTCCACCACCA
GTATGGGAAGACAAGATCTATATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT
TTTCCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGTATA
Found at i:32738787 original size:48 final size:47
Alignment explanation
Indices: 32738644--32738790 Score: 149
Period size: 48 Copynumber: 3.2 Consensus size: 47
32738634 CATGAAGACA
32738644 AGATCTGATTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCG
1 AGATCTG-TTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCG
* * * * * * *** * *
32738692 AGAT-T-TGTAT-CTTTGATCTACTTC-ACGCCAGTACATGAAGACA
1 AGATCTGTTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCG
32738735 AGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCG
1 AGATCTG-TTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCG
32738783 AGATCTGT
1 AGATCTGT
32738791 ATATTTGATC
Statistics
Matches: 72, Mismatches: 22, Indels: 11
0.69 0.21 0.10
Matches are distributed among these distances:
43 16 0.22
44 13 0.18
45 3 0.04
46 3 0.04
47 14 0.19
48 23 0.32
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (47 bp):
AGATCTGTTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCG
Found at i:32740099 original size:17 final size:17
Alignment explanation
Indices: 32740077--32740115 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
32740067 AACTCAAATC
32740077 CCCTTTGGTCTAAAGCG
1 CCCTTTGGTCTAAAGCG
32740094 CCCTTTGGTCTAAAGCG
1 CCCTTTGGTCTAAAGCG
32740111 CCCTT
1 CCCTT
32740116 AGCCTCTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.33, G:0.21, T:0.31
Consensus pattern (17 bp):
CCCTTTGGTCTAAAGCG
Found at i:32740197 original size:47 final size:47
Alignment explanation
Indices: 32740126--32740217 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 47
32740116 AGCCTCTCCA
* *
32740126 TTTTTTTTTTACTCAAGGCTCCCTTTATAGGGTTTCACCCTGGTCTC
1 TTTTTTTTTTACTCAAAGCTCCCTTTATAGGCTTTCACCCTGGTCTC
* *
32740173 TTTTTTTTTTACTCAAAG-TGCCCTTTGTAGGCTTTCACCTTGGTC
1 TTTTTTTTTTACTCAAAGCT-CCCTTTATAGGCTTTCACCCTGGTC
32740218 CCACCTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 1 0.03
47 39 0.98
ACGTcount: A:0.13, C:0.24, G:0.15, T:0.48
Consensus pattern (47 bp):
TTTTTTTTTTACTCAAAGCTCCCTTTATAGGCTTTCACCCTGGTCTC
Found at i:32740227 original size:47 final size:47
Alignment explanation
Indices: 32740129--32740228 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 47
32740119 CTCTCCATTT
* * * ***
32740129 TTTTTTTACTCAAGGCTCCCTTTATAGGGTTTCACCCTGGTCTCTTT
1 TTTTTTTACTCAAAGCTCCCTTTATAGGCTTTCACCCTGGTCCCACC
* *
32740176 TTTTTTTACTCAAAG-TGCCCTTTGTAGGCTTTCACCTTGGTCCCACC
1 TTTTTTTACTCAAAGCT-CCCTTTATAGGCTTTCACCCTGGTCCCACC
32740223 TTTTTT
1 TTTTTT
32740229 AAGCAGAATA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
46 1 0.02
47 43 0.98
ACGTcount: A:0.13, C:0.26, G:0.14, T:0.47
Consensus pattern (47 bp):
TTTTTTTACTCAAAGCTCCCTTTATAGGCTTTCACCCTGGTCCCACC
Found at i:32745352 original size:18 final size:18
Alignment explanation
Indices: 32745329--32745378 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
32745319 GTTAGAAAAA
*
32745329 ATTATAAAAAATATATAT
1 ATTATAAAAAATATAAAT
32745347 ATTATAAAATACATATAAAT
1 ATTATAAAA-A-ATATAAAT
* *
32745367 AATATAATAAAT
1 ATTATAAAAAAT
32745379 GATGCAACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 11 0.41
19 2 0.07
20 14 0.52
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTATAAAAAATATAAAT
Found at i:32754292 original size:14 final size:15
Alignment explanation
Indices: 32754262--32754294 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
32754252 CCACGGATCA
*
32754262 AATCATTGGTGCCGG
1 AATCATTGGTACCGG
32754277 AATCATTGG-ACCGG
1 AATCATTGGTACCGG
32754291 AATC
1 AATC
32754295 TCAAACCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (15 bp):
AATCATTGGTACCGG
Found at i:32756830 original size:19 final size:20
Alignment explanation
Indices: 32756784--32756839 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
32756774 CCAGGGCTCG
32756784 TGGCACACGAAGTGCAT-AC
1 TGGCACACGAAGTGCATCAC
* *
32756803 TAGCGCACGAAGTGCATCA-
1 TGGCACACGAAGTGCATCAC
*
32756822 TGGCACACGAGGTGCATC
1 TGGCACACGAAGTGCATC
32756840 GTAGCGTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 30 0.97
20 1 0.03
ACGTcount: A:0.29, C:0.27, G:0.29, T:0.16
Consensus pattern (20 bp):
TGGCACACGAAGTGCATCAC
Found at i:32760172 original size:28 final size:28
Alignment explanation
Indices: 32760112--32760214 Score: 145
Period size: 28 Copynumber: 3.7 Consensus size: 28
32760102 AACCTGATCT
***
32760112 ACAGCTTGTGTGAGC-AGCCCAAATATC
1 ACAGCTTGTGTGAGCAAATTCAAATATC
32760139 ACAGCTTGTGTGAGCAAATTCAAATATC
1 ACAGCTTGTGTGAGCAAATTCAAATATC
**
32760167 TTAGCTTGTGTGAGCAAATTCAAATATC
1 ACAGCTTGTGTGAGCAAATTCAAATATC
*
32760195 ACAGCATGTGTGAGCAAATT
1 ACAGCTTGTGTGAGCAAATT
32760215 GAATAATTCT
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 15 0.22
28 52 0.78
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (28 bp):
ACAGCTTGTGTGAGCAAATTCAAATATC
Found at i:32762001 original size:20 final size:20
Alignment explanation
Indices: 32761976--32762121 Score: 55
Period size: 20 Copynumber: 7.3 Consensus size: 20
32761966 TATTGAATGA
32761976 TTGTACATATGTGCCCCTGT
1 TTGTACATATGTGCCCCTGT
* * ** **
32761996 TTGTAC-TTTGGTACCATTAA
1 TTGTACATAT-GTGCCCCTGT
*
32762016 TTGCACATATGTGCCCCAT-T
1 TTGTACATATGTGCCCC-TGT
* * **
32762036 TTGTAC-TTTGGTACCCCTAA
1 TTGTACATAT-GTGCCCCTGT
* * *
32762056 ATGCACATACGTGCCCCTGT
1 TTGTACATATGTGCCCCTGT
* ** * *
32762076 TTGTACTTCGGTACCCCTGA
1 TTGTACATATGTGCCCCTGT
* *
32762096 TTGCACATACGTGCCCCTGT
1 TTGTACATATGTGCCCCTGT
32762116 TTGTAC
1 TTGTAC
32762122 TTCAGTACCC
Statistics
Matches: 83, Mismatches: 37, Indels: 12
0.63 0.28 0.09
Matches are distributed among these distances:
19 5 0.06
20 74 0.89
21 4 0.05
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.36
Consensus pattern (20 bp):
TTGTACATATGTGCCCCTGT
Found at i:32762039 original size:40 final size:40
Alignment explanation
Indices: 32761973--32762391 Score: 435
Period size: 40 Copynumber: 10.5 Consensus size: 40
32761963 AATTATTGAA
* * **
32761973 TGATTGTACATATGTGCCCCTGTTTGTACTTTGGTACCAT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* *
32762013 TAATTGCACATATGTGCCCCAT-TTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCC-TGTTTGTACTTTGGTACCCC
* * *
32762053 TAAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
** *
32762093 TGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * * * * * *
32762133 TGATTACACATATGTGCTCTTATTTGTACTTCGGCACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * * * * *
32762173 TGATTGCACATACATGCTCTTATTTGTACTTCGGCACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * * * *
32762213 TGATTGCACATACGTGCTCCTATTTGTACTTTGGCATCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
*
32762253 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * *
32762293 TGAATGCACATACGTGCTCATGTTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* ** * * *
32762333 TGAATGCACATACGTGCCATTGCTTGTACTTCGGTACACC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * *
32762373 TGGTTGCACTTTCGTGCCC
1 TGATTGCACATACGTGCCC
32762392 TGGTTATACT
Statistics
Matches: 331, Mismatches: 46, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
39 1 0.00
40 329 0.99
41 1 0.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.36
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
Found at i:32762199 original size:120 final size:119
Alignment explanation
Indices: 32761973--32762369 Score: 479
Period size: 120 Copynumber: 3.3 Consensus size: 119
32761963 AATTATTGAA
* * * * * *
32761973 TGATTGTACATATGTGCCCCTGTTTGTACTTTGGTACCATTAATTGCACATATGTGCCCCATTTT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGATTGCACATATGTGCCCTA-TTT
* * *
32762038 GTACTTTGGTACCCCTAAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
65 GTACTTTGGTACCCCTGAATGCACATACGTGCTCATGTTTGTACTTCGGTACCCC
* * *
32762093 TGATTGCACATACGTGCCCCTGTTTGTACTTCAGTACCCTTGATTACACATATGTGCTCTTATTT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGATTGCACATATGTGC-CCTATTT
* * * * * * *
32762158 GTACTTCGGCACCCCTGATTGCACATACATGCTCTTATTTGTACTTCGGCACCCC
65 GTACTTTGGTACCCCTGAATGCACATACGTGCTCATGTTTGTACTTCGGTACCCC
* * * * * * *
32762213 TGATTGCACATACGTGCTCCTATTTGTACTTTGGCATCCTTGATTGCACATACGTGCCCCTGTTT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGATTGCACATATGTG-CCCTATTT
* *
32762278 GTACTTTGGTACCCTTGAATGCACATACGTGCTCATGTTTGTACTTTGGTACCCC
65 GTACTTTGGTACCCCTGAATGCACATACGTGCTCATGTTTGTACTTCGGTACCCC
* ** *
32762333 TGAATGCACATACGTGCCATTGCTTGTACTTCGGTAC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
32762370 ACCTGGTTGC
Statistics
Matches: 229, Mismatches: 46, Indels: 4
0.82 0.16 0.01
Matches are distributed among these distances:
120 226 0.99
121 3 0.01
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (119 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGATTGCACATATGTGCCCTATTTG
TACTTTGGTACCCCTGAATGCACATACGTGCTCATGTTTGTACTTCGGTACCCC
Found at i:32767186 original size:6 final size:6
Alignment explanation
Indices: 32767177--32767202 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32767167 GAATTATAAT
32767177 TGGAAC TGGAAC TGGAAC TGGAAC TG
1 TGGAAC TGGAAC TGGAAC TGGAAC TG
32767203 TAAGTGGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.35, T:0.19
Consensus pattern (6 bp):
TGGAAC
Found at i:32769569 original size:134 final size:129
Alignment explanation
Indices: 32769354--32769615 Score: 346
Period size: 134 Copynumber: 2.0 Consensus size: 129
32769344 AGAAACTTCA
** * * *
32769354 GAAGACTATGTTATGACAAAGATTATATCCTTTAACAGAGATCCATTTTTACTTTGTGCTCAGAG
1 GAAGACTATGCCATGACAAAGATTATATCCTTTAAAAGAGATCCATTTTTACTTTGAGCTCAGAA
* * *
32769419 TCTTAAACTTTTCCAAATGCTGAAAACTTCTTTTTATGTAACTTCTGTGTTTATCTAGAATGTGT
66 TCTCAAACTCTTCCAAATGCTGAAAACTTC---TTATGTAACTTATGTGTTTATCTAGAATGTGT
32769484 TT
128 TT
* *
32769486 GAAGACTATGCCATGGA-AAAGATTATATCCTTTAGCAAAGATATTCATTTTTACTTTGAGCTCA
1 GAAGACTATGCCAT-GACAAAGATTATATCCTTTA--AAAGAGATCCATTTTTACTTTGAGCTCA
* * *
32769550 GAATCTCAAACTCTTCCAAATGCTGAAAACTTCTTCTGTTACTTATGTGTTTTTCTAGAATGTGT
63 GAATCTCAAACTCTTCCAAATGCTGAAAACTTCTTATGTAACTTATGTGTTTATCTAGAATGTGT
32769615 T
128 T
32769616 CAATACTCAT
Statistics
Matches: 114, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
131 29 0.25
132 29 0.25
133 2 0.02
134 54 0.47
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (129 bp):
GAAGACTATGCCATGACAAAGATTATATCCTTTAAAAGAGATCCATTTTTACTTTGAGCTCAGAA
TCTCAAACTCTTCCAAATGCTGAAAACTTCTTATGTAACTTATGTGTTTATCTAGAATGTGTTT
Found at i:32773615 original size:24 final size:26
Alignment explanation
Indices: 32773562--32773609 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
32773552 TTAGTAATGA
32773562 ATTTGAAAAATATAAAATGTTTTTAG
1 ATTTGAAAAATATAAAATGTTTTTAG
*
32773588 ATTTGACAAAT-T-AAATGTTTTT
1 ATTTGAAAAATATAAAATGTTTTT
32773610 GTATTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 1 0.05
26 10 0.48
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (26 bp):
ATTTGAAAAATATAAAATGTTTTTAG
Found at i:32774539 original size:10 final size:10
Alignment explanation
Indices: 32774524--32774562 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
32774514 TAGATACAAA
32774524 AAAAAAAAGG
1 AAAAAAAAGG
*
32774534 AAAAAAAAAG
1 AAAAAAAAGG
32774544 AAAAGAAAA-G
1 AAAA-AAAAGG
32774554 AAAAAAAAG
1 AAAAAAAAG
32774563 AAACCTCTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 4 0.15
10 18 0.69
11 4 0.15
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGG
Found at i:32778077 original size:57 final size:57
Alignment explanation
Indices: 32777989--32778100 Score: 215
Period size: 57 Copynumber: 2.0 Consensus size: 57
32777979 TCATTTGGGA
*
32777989 ATCAGGGTAAAAAGTTAGCCTTGCCAAATCTAGGATTCTGTTATCTAAGAACACTAG
1 ATCAGGGTAAAAAGTTACCCTTGCCAAATCTAGGATTCTGTTATCTAAGAACACTAG
32778046 ATCAGGGTAAAAAGTTACCCTTGCCAAATCTAGGATTCTGTTATCTAAGAACACT
1 ATCAGGGTAAAAAGTTACCCTTGCCAAATCTAGGATTCTGTTATCTAAGAACACT
32778101 GGCCATATTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (57 bp):
ATCAGGGTAAAAAGTTACCCTTGCCAAATCTAGGATTCTGTTATCTAAGAACACTAG
Found at i:32780079 original size:31 final size:31
Alignment explanation
Indices: 32780031--32780113 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 31
32780021 GAAAGCTTTT
* *
32780031 TATGGGAGTTCTCTGTGATAAATAAGCTCCC
1 TATGCGAGCTCTCTGTGATAAATAAGCTCCC
* *
32780062 TATGCGAGCTCTTTGTGATAAATAAGCTCTC
1 TATGCGAGCTCTCTGTGATAAATAAGCTCCC
* *
32780093 TATGTGAGCTCTCTATGATAA
1 TATGCGAGCTCTCTGTGATAA
32780114 GTCTCTGTGC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (31 bp):
TATGCGAGCTCTCTGTGATAAATAAGCTCCC
Found at i:32780118 original size:13 final size:14
Alignment explanation
Indices: 32780083--32780119 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
32780073 TTTGTGATAA
32780083 ATAAGCTCTCTATG
1 ATAAGCTCTCTATG
*
32780097 -TGAGCTCTCTATG
1 ATAAGCTCTCTATG
32780110 ATAAG-TCTCT
1 ATAAGCTCTCT
32780120 GTGCGTGCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 17 0.85
14 3 0.15
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (14 bp):
ATAAGCTCTCTATG
Found at i:32780472 original size:49 final size:49
Alignment explanation
Indices: 32780396--32780529 Score: 160
Period size: 49 Copynumber: 2.7 Consensus size: 49
32780386 AGGGTGGGCT
* * * * * *
32780396 TGAACATATCTTATGCTCCTCAACCATTCTGATAAGTGTGTTAGGTGTG
1 TGAACATATTTTATGTTCTTCAGCCATTCTGATAAGTGTGTTAAGTGCG
*
32780445 TGAACATATTTTATGTTCTTCAGCCATTCTCATAAGTGTGTTAAGTGCG
1 TGAACATATTTTATGTTCTTCAGCCATTCTGATAAGTGTGTTAAGTGCG
* * * * *
32780494 AGAACATATTTTATGTTTTTTAGCCGTTTTGATAAG
1 TGAACATATTTTATGTTCTTCAGCCATTCTGATAAG
32780530 ATAAGCATGT
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 72 1.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (49 bp):
TGAACATATTTTATGTTCTTCAGCCATTCTGATAAGTGTGTTAAGTGCG
Found at i:32796202 original size:23 final size:22
Alignment explanation
Indices: 32796176--32796222 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 22
32796166 CTTTCGATCA
32796176 ATATTCA-ATTCAATTCCACACTT
1 ATATTCACATTCAATT--ACACTT
32796199 ATATTCATCATTCAATTACACTT
1 ATATTCA-CATTCAATTACACTT
32796222 A
1 A
32796223 ATCGTTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 14 0.64
25 8 0.36
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATTCACATTCAATTACACTT
Found at i:32796344 original size:23 final size:23
Alignment explanation
Indices: 32796318--32796439 Score: 174
Period size: 23 Copynumber: 5.3 Consensus size: 23
32796308 ATAAGTGCCA
32796318 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
**
32796341 CACTGATGCGTAGCC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
*
32796364 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
32796387 CACTGATATGTAGCTGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
32796410 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
32796433 CACTGAT
1 CACTGAT
32796440 TAATAACATT
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
22 1 0.01
23 83 0.98
24 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:32796385 original size:46 final size:46
Alignment explanation
Indices: 32796318--32796439 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
32796308 ATAAGTGCCA
* *
32796318 CACTGATATGTAGCCGAAGCTACCACTGATGCGTAGCCATAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCATAGCTAC
* **
32796364 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCTGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCATAGCTAC
32796410 CACTGAAATGTAGCCGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
32796440 TAATAACATT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCATAGCTAC
Found at i:32801392 original size:21 final size:21
Alignment explanation
Indices: 32801366--32801409 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
32801356 TTTGAGGAAA
32801366 GATTGGTCTTGCCGATTGGAT
1 GATTGGTCTTGCCGATTGGAT
32801387 GATTGGTCTTGCCGATTGGAT
1 GATTGGTCTTGCCGATTGGAT
32801408 GA
1 GA
32801410 CGCTTTATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.14, G:0.34, T:0.36
Consensus pattern (21 bp):
GATTGGTCTTGCCGATTGGAT
Found at i:32803746 original size:18 final size:18
Alignment explanation
Indices: 32803723--32803759 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32803713 AAGTTGCTGC
32803723 TACAGAAAAGAAAGTTGT
1 TACAGAAAAGAAAGTTGT
* *
32803741 TACAGAAGAGGAAGTTGT
1 TACAGAAAAGAAAGTTGT
32803759 T
1 T
32803760 GCTGAAGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.05, G:0.27, T:0.24
Consensus pattern (18 bp):
TACAGAAAAGAAAGTTGT
Found at i:32804252 original size:17 final size:17
Alignment explanation
Indices: 32804230--32804263 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32804220 GATAAATATA
*
32804230 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
32804247 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
32804264 CATGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:32807056 original size:31 final size:31
Alignment explanation
Indices: 32807011--32807070 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
32807001 TTTCAAGCAA
* * *
32807011 GCTCCTTATGCGAGCTTTCTGTGATAAGTAT
1 GCTCCCTATACGAGCTCTCTGTGATAAGTAT
32807042 GCTCCCTATACGAGCTCTCTGTGATAAGT
1 GCTCCCTATACGAGCTCTCTGTGATAAGT
32807071 CTCTGTGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (31 bp):
GCTCCCTATACGAGCTCTCTGTGATAAGTAT
Found at i:32807471 original size:24 final size:25
Alignment explanation
Indices: 32807416--32807473 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
32807406 ATTTAAAATG
32807416 TAAATTATATTTAAAATAATAATAA
1 TAAATTATATTTAAAATAATAATAA
* *
32807441 TAAATTAT-TTT-TAATAATATTGAA
1 TAAATTATATTTAAAATAATAAT-AA
32807465 TAAATTATA
1 TAAATTATA
32807474 AAATAGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 8 0.28
24 13 0.45
25 8 0.28
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
TAAATTATATTTAAAATAATAATAA
Found at i:32808245 original size:13 final size:13
Alignment explanation
Indices: 32808227--32808304 Score: 78
Period size: 13 Copynumber: 6.5 Consensus size: 13
32808217 AATTTTAAAT
32808227 TATTTAGTAATAA
1 TATTTAGTAATAA
32808240 TATTTAG-AAT--
1 TATTTAGTAATAA
*
32808250 TATTTAGTGATAA
1 TATTTAGTAATAA
*
32808263 TATTTAGTGATAA
1 TATTTAGTAATAA
32808276 TATTTAG-AAT--
1 TATTTAGTAATAA
* *
32808286 TATTTAATGATAA
1 TATTTAGTAATAA
32808299 TATTTA
1 TATTTA
32808305 AGAAAAATCT
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
10 13 0.24
11 4 0.07
12 5 0.09
13 33 0.60
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (13 bp):
TATTTAGTAATAA
Done.