Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 40 of 318
Found at i:11211115 original size:64 final size:64
Alignment explanation
Indices: 11211020--11211184 Score: 185
Period size: 64 Copynumber: 2.6 Consensus size: 64
11211010 TCCCCTGCTT
* * * * * *
11211020 ATGTGACTCTAAA-TCTGAACTGAGAGAGTTACACGGCT-TGGACACATGCCT-TATGTCTTGCC
1 ATGTGACTCCAAATTC-CAACTCAGAGAGTTACACGG-TGTGAACACAGGCCTGTATCTCTTG-C
11211082 CC
63 CC
* * *
11211084 GTGTGACTCCAAATTCCAACTCAGAGTGTTACACGGTGTGAACACAGGCCTGTGTCTCTTGCCC
1 ATGTGACTCCAAATTCCAACTCAGAGAGTTACACGGTGTGAACACAGGCCTGTATCTCTTGCCC
11211148 ATGTGACTCCAAATTCCAACTCA-AGAAGTTACACGGT
1 ATGTGACTCCAAATTCCAACTCAGAG-AGTTACACGGT
11211185 CTCCCACACG
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
63 3 0.03
64 74 0.86
65 9 0.10
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (64 bp):
ATGTGACTCCAAATTCCAACTCAGAGAGTTACACGGTGTGAACACAGGCCTGTATCTCTTGCCC
Found at i:11214662 original size:56 final size:53
Alignment explanation
Indices: 11214576--11214721 Score: 159
Period size: 56 Copynumber: 2.7 Consensus size: 53
11214566 TGATACATGT
* * *
11214576 TAGGTCCGGAAGCTTGTGTAGCCCCGTTGAGAGGCAT-GTAATTATGTGGTACACGC
1 TAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCATGGT-A--ATGT-GTACACGC
* * *
11214632 TAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCGTGGTAATGTGTGCATGC
1 TAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCATGGTAATGTGTACACGC
* *
11214685 TAGGTCCGGGTGCTCGTATATAGCCCTGTTGAGAGGC
1 TAGGTCCGGGAGCT--TATGTAGCCCTGTTGAGAGGC
11214722 GTGCTATGTC
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
53 19 0.24
54 4 0.05
55 20 0.25
56 34 0.43
57 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.35, T:0.27
Consensus pattern (53 bp):
TAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCATGGTAATGTGTACACGC
Found at i:11217185 original size:54 final size:54
Alignment explanation
Indices: 11217030--11217250 Score: 277
Period size: 54 Copynumber: 4.1 Consensus size: 54
11217020 GGTATCCTTA
* * * * **
11217030 TCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTGGTATGGCCTTACATG-GG
1 TCCTTGCCTTATAAAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATT
* * *
11217082 ACCTTTGCCTTATAATAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATT
1 TCC-TTGCCTTATAA-AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATT
* *
11217138 TCCTTGCCTTATAAAACTTATCAATGCCATGCCTTGGCATTGTCTTACATGATT
1 TCCTTGCCTTATAAAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATT
* *
11217192 TCCTTGCCTTATAGAAC-CTATCAATGCCATGCCTTGGCATGGTCTTACATGATA
1 TCCTTGCCTTATAAAACTC-ATCAATGCCATGCCTTGGCATGGTCTTACATGATT
11217246 TCCTT
1 TCCTT
11217251 ATCTTACGAA
Statistics
Matches: 146, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
52 2 0.01
53 9 0.06
54 90 0.62
55 43 0.29
56 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (54 bp):
TCCTTGCCTTATAAAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATT
Found at i:11217202 original size:109 final size:107
Alignment explanation
Indices: 11216996--11217250 Score: 280
Period size: 108 Copynumber: 2.3 Consensus size: 107
11216986 CTTACCATTA
* *
11216996 CCATGTCTTGACATGGTCTTACGTGGTATCCTTATCCTTGCCTTATGAACTCACCAATGCCATGC
1 CCATGTCTTGACATGGTCTTACAT-G-A---TT-TCCTTGCCTTATAAACTCACCAATGCCATGC
* *
11217061 CTTGGTATGGCCTTACATGGGACCTTTGCCTTATA-ATAACTCATCAATG
60 CTTGGCATGGCCTTACATGGGACCTTTGCCTTATAGA-ACCT-ATCAATG
* *
11217110 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAAAACTTATCAATGCCATGCCTTGG
1 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAT-AAACTCACCAATGCCATGCCTTGG
* * ***
11217175 CATTGTCTTACATGATTTCC-TTGCCTTATAGAACCTATCAATG
65 CATGGCCTTACATG-GGACCTTTGCCTTATAGAACCTATCAATG
* * *
11217218 CCATGCCTTGGCATGGTCTTACATGATATCCTT
1 CCATGTCTTGACATGGTCTTACATGATTTCCTT
11217251 ATCTTACGAA
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
108 49 0.40
109 47 0.38
110 3 0.02
112 1 0.01
113 1 0.01
114 23 0.19
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (107 bp):
CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAAACTCACCAATGCCATGCCTTGGC
ATGGCCTTACATGGGACCTTTGCCTTATAGAACCTATCAATG
Found at i:11217284 original size:47 final size:47
Alignment explanation
Indices: 11217229--11217350 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
11217219 CATGCCTTGG
* * *
11217229 CATGGTCTTACATGATATCCTTATCTTACGAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
11217276 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
* *
11217323 CATGGTTTTCCATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
11217351 GTGCCAATGC
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:11219787 original size:20 final size:21
Alignment explanation
Indices: 11219759--11219797 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
11219749 ACCTAGCAAA
*
11219759 CCCAGACTTAAACTAGACCAG
1 CCCAGACTTAAACCAGACCAG
11219780 CCCA-ACTTAAACCAGACC
1 CCCAGACTTAAACCAGACC
11219798 CAAACAGACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.13
Consensus pattern (21 bp):
CCCAGACTTAAACCAGACCAG
Found at i:11220994 original size:24 final size:25
Alignment explanation
Indices: 11220940--11220991 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
11220930 TGTTATTTTT
11220940 TTATT-TTAAAAAACTATACATATA
1 TTATTATTAAAAAACTATACATATA
**
11220964 TTATTATTAAAAATACTATTTATATA
1 TTATTATTAAAAA-ACTATACATATA
11220990 TT
1 TT
11220992 TATATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 7 0.29
26 12 0.50
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (25 bp):
TTATTATTAAAAAACTATACATATA
Found at i:11221023 original size:14 final size:14
Alignment explanation
Indices: 11221004--11221050 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
11220994 TATAAAATTT
11221004 TTATTTATCATATA
1 TTATTTATCATATA
*
11221018 TTATTT-TCCTATA
1 TTATTTATCATATA
* *
11221031 TATATTTATTATATT
1 T-TATTTATCATATA
11221046 TTATT
1 TTATT
11221051 ATATAACATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 7 0.26
14 15 0.56
15 5 0.19
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATTTATCATATA
Found at i:11221072 original size:25 final size:25
Alignment explanation
Indices: 11221034--11221104 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 25
11221024 TCCTATATAT
11221034 ATTTATTATA-TTTTATTATATAAC
1 ATTTATTATATTTTTATTATATAAC
**
11221058 ATTTATTATATTTTTATTATATATT
1 ATTTATTATATTTTTATTATATAAC
* *
11221083 ACTTATTATTTTTTTATTATAT
1 ATTTATTATATTTTTATTATAT
11221105 GTTATGTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 10 0.24
25 32 0.76
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (25 bp):
ATTTATTATATTTTTATTATATAAC
Found at i:11221073 original size:11 final size:11
Alignment explanation
Indices: 11221029--11221104 Score: 64
Period size: 11 Copynumber: 6.5 Consensus size: 11
11221019 TATTTTCCTA
*
11221029 TATATATTTAT
1 TATATTTTTAT
11221040 TATA-TTTTAT
1 TATATTTTTAT
*
11221050 TATATAACATTTAT
1 TATAT---TTTTAT
11221064 TATATTTTTAT
1 TATATTTTTAT
11221075 TATATATTACTTAT
1 TATAT-TT--TTAT
*
11221089 TATTTTTTTAT
1 TATATTTTTAT
11221100 TATAT
1 TATAT
11221105 GTTATGTATA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
10 9 0.17
11 22 0.42
12 2 0.04
13 2 0.04
14 18 0.34
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTTTTAT
Found at i:11223579 original size:93 final size:93
Alignment explanation
Indices: 11223409--11223581 Score: 229
Period size: 93 Copynumber: 1.9 Consensus size: 93
11223399 AGGATATTTG
* * * * * * * **
11223409 GGCATCCGAGCTCGTTGAGTCGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTAAGTCGAGTCCGAGCTCACTTATGGATGCGAACGCCCAAGCTCATAAAG
*
11223474 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAATCCGAGTTCGTGAGATGTAACTA
*
11223502 GGCATCCGAGCTCGTTAAGTTGAGTCCGAGCTCACTTATGGATGCGAACGCCCAAGCTCATAAAG
1 GGCATCCGAGCTCGTTAAGTCGAGTCCGAGCTCACTTATGGATGCGAACGCCCAAGCTCATAAAG
**
11223567 TTGAATTTGAGTTCG
66 TTGAATCCGAGTTCG
11223582 CTTATGGGCG
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTAAGTCGAGTCCGAGCTCACTTATGGATGCGAACGCCCAAGCTCATAAAG
TTGAATCCGAGTTCGTGAGATGTAACTA
Found at i:11226578 original size:15 final size:15
Alignment explanation
Indices: 11226558--11226622 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
11226548 GTATCTTGGG
11226558 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
11226573 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
* *
11226588 TTTC-TCAATCTTGGA
1 TTTCTTTATTC-TGGA
*
11226603 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
11226617 TTTCTT
1 TTTCTT
11226623 GTTATGTTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
14 12 0.29
15 25 0.61
16 4 0.10
ACGTcount: A:0.11, C:0.15, G:0.14, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:11226590 original size:30 final size:31
Alignment explanation
Indices: 11226554--11226622 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
11226544 TATCGTATCT
* *
11226554 TGGGTTTCTTTATTC-TGGATTTCTTTATTC
1 TGGGTTTCTTCAATCTTGGATTTCTTTATTC
11226584 TGGGTTTC-TCAATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCAATCTTGGATTTCTTTATTC
*
11226614 -GGTTTTCTT
1 TGGGTTTCTT
11226623 GTTATGTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.29
30 24 0.71
ACGTcount: A:0.10, C:0.14, G:0.17, T:0.58
Consensus pattern (31 bp):
TGGGTTTCTTCAATCTTGGATTTCTTTATTC
Found at i:11229073 original size:91 final size:91
Alignment explanation
Indices: 11228918--11229101 Score: 314
Period size: 91 Copynumber: 2.0 Consensus size: 91
11228908 ATATGTGTAT
* *
11228918 TAAATAAATTAATTTGGTATTATAGATCAAGAGAAAAGAGATTCGAGTTGAGATCAGGGGAAAAA
1 TAAATAAATTAAGTTGGTATTATAGATCAAGAGAAAAGAGATTCGAGTCGAGATCAGGGGAAAAA
*
11228983 TAAAGTTTATGAAGAATAGGCTCGAC
66 TAAAGTTTACGAAGAATAGGCTCGAC
*
11229009 TAAATAAATTAAGTTGGTATTATAGATCAAGAGAAAAGAGATTCGAGTCGAGATCGGGGGAAAAA
1 TAAATAAATTAAGTTGGTATTATAGATCAAGAGAAAAGAGATTCGAGTCGAGATCAGGGGAAAAA
* *
11229074 TAAAGTTTACGAGGAATAGGCTTGAC
66 TAAAGTTTACGAAGAATAGGCTCGAC
11229100 TA
1 TA
11229102 TTCTCATTTT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (91 bp):
TAAATAAATTAAGTTGGTATTATAGATCAAGAGAAAAGAGATTCGAGTCGAGATCAGGGGAAAAA
TAAAGTTTACGAAGAATAGGCTCGAC
Found at i:11229529 original size:46 final size:46
Alignment explanation
Indices: 11229380--11229551 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
11229370 TACGCATCCT
* * *
11229380 AGCTCATTGAGTCGAGTCCGATTTCACTTATGGATGCGAATGTCCG
1 AGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATGTCCG
* * * *
11229426 AGCTCATTGAGTTGAGTCTGAGTTC-GTGA--GATGTA-ACTAGGCATCCG
1 AGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATG-AGA--ATG--TCCG
* *
11229473 AGCTCCTTGAGTTGAGTCCGAGCTCACTTATGGATGAGAATGTCCG
1 AGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATGTCCG
* *
11229519 AGCTCATTGAGTTGTGTCCGAGTTCGCTTATGG
1 AGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
11229552 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 17, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 55 0.55
47 26 0.26
48 4 0.04
49 1 0.01
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
AGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATGTCCG
Found at i:11229532 original size:93 final size:93
Alignment explanation
Indices: 11229373--11229544 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
11229363 GGACATTTAC
* ** *
11229373 GCATCCTAGCTCATTGAGTCGAGTCCGATTTCACTTATGGATGCGAATGTCCGAGCTCATTGAGT
1 GCATCCGAGCTCATTGAGTCGAGTCCGAGCTCACTTATGGATGAGAATGTCCGAGCTCATTGAGT
*
11229438 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
11229466 GCATCCGAGCTCCTTGAGTTGAGTCCGAGCTCACTTATGGATGAGAATGTCCGAGCTCATTGAGT
1 GCATCCGAGCTCATTGAGTCGAGTCCGAGCTCACTTATGGATGAGAATGTCCGAGCTCATTGAGT
*
11229531 TGTGTCCGAGTTCG
66 TGAGTCCGAGTTCG
11229545 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAGCTCATTGAGTCGAGTCCGAGCTCACTTATGGATGAGAATGTCCGAGCTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:11232415 original size:15 final size:15
Alignment explanation
Indices: 11232395--11232450 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
11232385 GTATCTTGGG
11232395 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
11232410 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
* *
11232425 TTTC-TCAATCTTGGA
1 TTTCTTTATTC-TGGA
11232440 TTTCTTTATTC
1 TTTCTTTATTC
11232451 AATTTTCTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
14 4 0.12
15 25 0.76
16 4 0.12
ACGTcount: A:0.12, C:0.16, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:11234219 original size:40 final size:38
Alignment explanation
Indices: 11234148--11234287 Score: 120
Period size: 40 Copynumber: 3.6 Consensus size: 38
11234138 GGATATAACG
* * *
11234148 ACTCGCTCAAATGCCTTCGGGAC-GAAGCCCGGTTATAGTG
1 ACTCGCACAAATGCCTTC-GGACTTAA-CCCGGTT-TAGTA
* * *
11234188 ACTCGCCCGAATGCCTTCAGGACTTAACCCGGGTTTGGTA
1 ACTCGCACAAATGCCTTC-GGACTTAACCC-GGTTTAGTA
* * * *
11234228 ACTTGCACAAATGCCTTCGGGCTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGACTTAACCCGG-TTTAGTA
*
11234267 ACTCGCACGAATGCCTTCGGA
1 ACTCGCACAAATGCCTTCGGA
11234288 TCCTAGTCCG
Statistics
Matches: 81, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.40
40 41 0.51
41 6 0.07
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (38 bp):
ACTCGCACAAATGCCTTCGGACTTAACCCGGTTTAGTA
Found at i:11234256 original size:79 final size:81
Alignment explanation
Indices: 11234155--11234336 Score: 203
Period size: 79 Copynumber: 2.3 Consensus size: 81
11234145 ACGACTCGCT
** * * *
11234155 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCCCGAATGCCTTCAGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* * *
11234218 GGGTTTGGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
11234235 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
11234299 ATATAGTTACTTAGCA
66 ATATAGTAACTTAGCA
11234315 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
11234337 AGACATCATT
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 52 0.60
80 31 0.36
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:11234269 original size:39 final size:39
Alignment explanation
Indices: 11234197--11234336 Score: 122
Period size: 40 Copynumber: 3.5 Consensus size: 39
11234187 GACTCGCCCG
* * * **
11234197 AATGCCTTCAGGACTTAACCCGGGTTTGGTAACTTGCACA
1 AATGCCTTC-GGGCTTAGCCCGGATTTATTAACTTGCACA
* *
11234237 AATGCCTTCGGGCTTAGCCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGCTTAGCCCGGATTTATTAACTTGCACA
* * * *
11234276 AATGCCTTCGGATCCTAGTCCGGATATAGTT-ACTTAGCACA
1 AATGCCTTCGG-GCTTAGCCCGGATTTA-TTAACTT-GCACA
11234317 AA-GCCTTCGGGACTTAGCCC
1 AATGCCTTCGGG-CTTAGCCC
11234337 AGACATCATT
Statistics
Matches: 80, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
39 34 0.43
40 38 0.47
41 8 0.10
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
AATGCCTTCGGGCTTAGCCCGGATTTATTAACTTGCACA
Found at i:11234712 original size:46 final size:46
Alignment explanation
Indices: 11234645--11234738 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
11234635 AAATAAATTG
11234645 ATTTAATCATTTGAGCATCGAAAGAGGAATTCAAGGTACTTAGCCA
1 ATTTAATCATTTGAGCATCGAAAGAGGAATTCAAGGTACTTAGCCA
11234691 ATTTAATCATTTGAGCATCGAAAGAGGAATTCAAGGTACTTAGCCA
1 ATTTAATCATTTGAGCATCGAAAGAGGAATTCAAGGTACTTAGCCA
11234737 AT
1 AT
11234739 ATATATACTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (46 bp):
ATTTAATCATTTGAGCATCGAAAGAGGAATTCAAGGTACTTAGCCA
Found at i:11236987 original size:93 final size:93
Alignment explanation
Indices: 11236856--11237026 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
11236846 GCCCCTAAGT
* * * * *
11236856 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAGGGAACTCGAACTCAACTCAA
11236921 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
11236949 GAACTCGGACTCAACTCAATGAATTCGGACATTTGCATCCATAGGGGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAGGGAACTCGAACTCAACTCAA
11237014 CGAGTTCGGATGC
66 CGAGTTCGGATGC
11237027 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAACTCGGACATTCGCATCCATAAGGGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:11237022 original size:46 final size:45
Alignment explanation
Indices: 11236856--11237023 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 45
11236846 GCCCCTAAGT
* * * * *
11236856 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT-AGC
* *
11236902 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCAT-AGC
* * *
11236949 GAACTCGGACTCAACTCAATGAATTCGGACATTTGCATCCATAGGG
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATA-GC
*
11236995 GAACTCGAACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
11237024 TGCTCAACCA
Statistics
Matches: 98, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 1 0.01
46 53 0.54
47 27 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAGC
Found at i:11237479 original size:30 final size:30
Alignment explanation
Indices: 11237445--11237505 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
11237435 CATTTAATAC
11237445 AAACTTTGGAAAAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
11237475 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
11237505 A
1 A
11237506 GGCTCAGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:11240070 original size:34 final size:34
Alignment explanation
Indices: 11240032--11240101 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
11240022 TGGATGATAT
11240032 GTATGAATTTTGATGTTTTATGGTAGAATATGAA
1 GTATGAATTTTGATGTTTTATGGTAGAATATGAA
11240066 GTATGAATTTTGATGTTTTATGGTAGAATATGAA
1 GTATGAATTTTGATGTTTTATGGTAGAATATGAA
11240100 GT
1 GT
11240102 TTGAGATTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.44
Consensus pattern (34 bp):
GTATGAATTTTGATGTTTTATGGTAGAATATGAA
Found at i:11250717 original size:6 final size:6
Alignment explanation
Indices: 11250699--11250789 Score: 53
Period size: 6 Copynumber: 14.8 Consensus size: 6
11250689 AACAAACATT
* * *
11250699 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAGGTG AT-AGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * *
11250748 ATCAGT ATCAGGTA A-CAAA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
11250790 GTAACAGAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
5 5 0.07
6 53 0.79
7 6 0.09
8 3 0.04
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:11250989 original size:27 final size:26
Alignment explanation
Indices: 11250949--11251047 Score: 117
Period size: 27 Copynumber: 3.7 Consensus size: 26
11250939 CAGTTATCAA
** *
11250949 ATATTGTGATAGAGTCACCAGATACAG
1 ATATTGTGGCAGAGCCACCAGA-ACAG
11250976 ATATTGTGGCAGAGCCACCAGAACAG
1 ATATTGTGGCAGAGCCACCAGAACAG
*
11251002 ATATTTGTGGCATAGCCACCAGAAACAG
1 ATA-TTGTGGCAGAGCCACCAG-AACAG
* *
11251030 ATAATGTGGCAAAGCCAC
1 ATATTGTGGCAGAGCCAC
11251048 TTAACAGAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
26 7 0.11
27 49 0.77
28 8 0.12
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
ATATTGTGGCAGAGCCACCAGAACAG
Found at i:11251754 original size:27 final size:27
Alignment explanation
Indices: 11251696--11251945 Score: 268
Period size: 27 Copynumber: 9.3 Consensus size: 27
11251686 AGGGGAAAAA
* * * *
11251696 TGGTAATTTTACCCCACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
11251722 CGGTAATTCCACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
11251749 TAGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
11251776 CGGTAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
11251803 CGATAATTCTACCTTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
11251830 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
11251857 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * * *
11251884 CGGCATTTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* ** * *
11251911 CGACATTTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
11251938 TGGTAATT
1 TGGTAATT
11251946 TTGTAAATCG
Statistics
Matches: 194, Mismatches: 29, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
26 14 0.07
27 180 0.93
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:11251790 original size:54 final size:54
Alignment explanation
Indices: 11251715--11251945 Score: 329
Period size: 54 Copynumber: 4.3 Consensus size: 54
11251705 TACCCCACAA
* * * *
11251715 GGTATCTCGGTAATTCCACCCTACAGGGGTATTT-TAGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAGG
* *
11251769 GGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
11251823 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
* * * * * *
11251877 GGTATTTCGGCATTTCTACCCTACAAGGGTATTTCGACATTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
*
11251931 GGTATTTTGGTAATT
1 GGTATTTCGGTAATT
11251946 TTGTAAATCG
Statistics
Matches: 159, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
54 158 0.99
55 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (54 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGG
Found at i:11251959 original size:27 final size:26
Alignment explanation
Indices: 11251926--11252432 Score: 440
Period size: 27 Copynumber: 18.8 Consensus size: 26
11251916 TTTCTACCCT
**
11251926 ACAAGGGTATTTTGGTAATTTTGTAA
1 ACAAGGGTATTTTGGTAATTTTACAA
* ***
11251952 ATCGAGGGTAAAATGGTAATTCTGTA-AA
1 A-CAAGGGTATTTTGGTAATT-T-TACAA
* *
11251980 TCAAGGGTACTTTGGTAATTTTACAA
1 ACAAGGGTATTTTGGTAATTTTACAA
* * *** *
11252006 GTCGAGGGTATTTCAATAATTTTACAGG
1 -ACAAGGGTATTTTGGTAATTTTACA-A
* * ** *
11252034 TCGAGGGTATTTCAGTAATTTCACAA
1 ACAAGGGTATTTTGGTAATTTTACAA
*
11252060 ATCAGGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* *
11252087 ACTAGAGGTATTTTGATAATTTTACAA
1 ACAAG-GGTATTTTGGTAATTTTACAA
*
11252114 ACCAGTGGTATTTTGGTAATTTTACAA
1 ACAAG-GGTATTTTGGTAATTTTACAA
* * *
11252141 ACTAGGGGTATTTTGATAATTTTATAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
*
11252168 ACCAAGGGTATTTTAGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* **
11252195 ACTAGGGGTATTTTGGTAATTTTGTAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
*
11252222 ACCAAGGGTATTTTAGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
**
11252249 ACTAAGGGTATTTTGGTAATTTTGTAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
11252276 ACCAAGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* * *
11252303 ACCAGGGGTATTTTGGTGATTTTATAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* *
11252330 ACCAAGGGTATTTTAGTGATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* * *
11252357 ACCAGGGGTATTTTGGTGATTTTATAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
*
11252384 ACCAAGGGTATTTTAGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* *
11252411 AGTAGGGGTATTTTGGTAATTT
1 A-CAAGGGTATTTTGGTAATTT
11252433 GGTAAACTAA
Statistics
Matches: 398, Mismatches: 69, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
25 2 0.01
26 8 0.02
27 380 0.95
28 7 0.02
29 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (26 bp):
ACAAGGGTATTTTGGTAATTTTACAA
Found at i:11252439 original size:54 final size:54
Alignment explanation
Indices: 11251984--11252432 Score: 578
Period size: 54 Copynumber: 8.3 Consensus size: 54
11251974 TGTAAATCAA
* * ** * * * ** *
11251984 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTAC-AGGTCG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
** * * * * *
11252037 AGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAG
1 -GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* * * *
11252092 AGGTATTTTGATAATTTTACAAACC-AGTGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAG-GGTATTTTAGTAATTTTACAAACTAG
*
11252146 GGGTATTTTGATAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* *
11252200 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* * *
11252254 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* * *
11252308 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTGATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
* *
11252362 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAGTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
11252416 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
11252433 GGTAAACTAA
Statistics
Matches: 355, Mismatches: 37, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
53 1 0.00
54 349 0.98
55 5 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
Found at i:11262658 original size:68 final size:64
Alignment explanation
Indices: 11262593--11262800 Score: 204
Period size: 67 Copynumber: 3.2 Consensus size: 64
11262583 CATCATGTGT
*
11262593 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
11262658 TAG
62 TAG
* * * * * * *
11262661 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT
11262726 AG
63 AG
* * * * * *
11262728 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
11262790 TACAAGAGAGC
1 -ACAAGAGAGC
11262801 CAAACTATAT
Statistics
Matches: 116, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 21 0.18
65 11 0.09
66 19 0.16
67 32 0.28
68 13 0.11
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:11266245 original size:43 final size:43
Alignment explanation
Indices: 11266197--11266295 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 43
11266187 TGTGATTTCG
* ** *
11266197 TGTAAGACCATGTAT-GGTACATTGGAATCGATATG-AGATTACA
1 TGTAAGACCATATATAGG-ACAGAGGAATCGATATGTA-ATAACA
* *
11266240 TGTAAGACCCTATATAGGACAGAGGCATCGATATGTAATAACA
1 TGTAAGACCATATATAGGACAGAGGAATCGATATGTAATAACA
11266283 TGTAAGACCATAT
1 TGTAAGACCATAT
11266296 TTGGGAAATG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
43 44 0.94
44 3 0.06
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATATATAGGACAGAGGAATCGATATGTAATAACA
Found at i:11269184 original size:17 final size:17
Alignment explanation
Indices: 11269162--11269201 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
11269152 ACTTAACATG
* *
11269162 ATAAAAACAATAATAAC
1 ATAAAAACAAAAATAAA
*
11269179 ATAAAAATAAAAATAAA
1 ATAAAAACAAAAATAAA
11269196 ATAAAA
1 ATAAAA
11269202 TAAAAACAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (17 bp):
ATAAAAACAAAAATAAA
Found at i:11269402 original size:30 final size:28
Alignment explanation
Indices: 11269368--11269456 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 28
11269358 ACAACTAAAG
11269368 ATAATATAATAAGAATATAAATAAAAATAA
1 ATAATA-AATAA-AATATAAATAAAAATAA
*
11269398 ATAATAAACT-AAATATAATAATAAAAAT-T
1 ATAATAAA-TAAAATAT-A-AATAAAAATAA
*
11269427 ATAATAAAATAAAAAATAAATAAATAATAA
1 ATAAT-AAATAAAATATAAATAAA-AATAA
11269457 GGTAAATGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
28 11 0.22
29 14 0.29
30 24 0.49
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.27
Consensus pattern (28 bp):
ATAATAAATAAAATATAAATAAAAATAA
Found at i:11269404 original size:17 final size:17
Alignment explanation
Indices: 11269384--11269456 Score: 60
Period size: 17 Copynumber: 4.2 Consensus size: 17
11269374 TAATAAGAAT
11269384 ATAAATAAAAATAAATA
1 ATAAATAAAAATAAATA
*
11269401 ATAAACTAAATAT-AATA
1 ATAAA-TAAAAATAAATA
** *
11269418 ATAAA-AATTATAATAAA
1 ATAAATAAAAATAA-ATA
*
11269435 ATAAAAAATAAATAAATA
1 ATAAATAA-AAATAAATA
11269453 ATAA
1 ATAA
11269457 GGTAAATGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
15 5 0.11
16 1 0.02
17 21 0.47
18 14 0.31
19 4 0.09
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAATAAAAATAAATA
Found at i:11269447 original size:11 final size:11
Alignment explanation
Indices: 11269370--11269456 Score: 52
Period size: 12 Copynumber: 7.5 Consensus size: 11
11269360 AACTAAAGAT
11269370 AATATAATAAGAA
1 AATA-AATAA-AA
*
11269383 TATAAAT-AAA
1 AATAAATAAAA
11269393 AATAAATAATAA
1 AATAAATAA-AA
* *
11269405 ACTAAATATAAT
1 AATAAATA-AAA
*
11269417 AATAAA-AATTAT
1 AATAAATAA--AA
11269429 AATAAAATAAAA
1 AAT-AAATAAAA
*
11269441 AATAAATAAAT
1 AATAAATAAAA
11269452 AATAA
1 AATAA
11269457 GGTAAATGAA
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
10 9 0.15
11 15 0.25
12 27 0.45
13 7 0.12
14 2 0.03
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.26
Consensus pattern (11 bp):
AATAAATAAAA
Found at i:11271728 original size:2 final size:2
Alignment explanation
Indices: 11271721--11271745 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11271711 TACATACATG
11271721 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
11271746 TTATCATTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11276160 original size:8 final size:8
Alignment explanation
Indices: 11276147--11276176 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
11276137 TTAAATTAAA
11276147 ATAAAAAT
1 ATAAAAAT
11276155 ATAAAAAT
1 ATAAAAAT
*
11276163 ATAAAAAA
1 ATAAAAAT
11276171 ATAAAA
1 ATAAAA
11276177 TGGCTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (8 bp):
ATAAAAAT
Found at i:11279683 original size:49 final size:49
Alignment explanation
Indices: 11279624--11279746 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 49
11279614 CTTTTTGTGT
* * * *
11279624 GTCAGTGTAAGACTTATCTGGGTCATGGCATCGACAC-CGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAA
* * *
11279673 G-CTAGTGTAAGACCTGTCTAGCACATGGCATCGACCTCGATATATGAAA
1 GTC-AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAA
11279722 GTCAGTGTAAGACCTGTCTGGGACA
1 GTCAGTGTAAGACCTGTCTGGGACA
11279747 CGACGTCAAC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
48 2 0.03
49 59 0.95
50 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAA
Found at i:11283571 original size:71 final size:71
Alignment explanation
Indices: 11283481--11283644 Score: 274
Period size: 71 Copynumber: 2.3 Consensus size: 71
11283471 GAGATGTATC
* * *
11283481 CCATGTAGATAAGACAGCTACGTGAAATATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
11283546 AGGACA
66 AGGACA
*
11283552 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
* *
11283617 CGGGCA
66 AGGACA
11283623 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
11283645 AGACAAATCG
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 87 1.00
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:11291863 original size:46 final size:47
Alignment explanation
Indices: 11291695--11291868 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 47
11291685 TAACCCGCCT
* * * ** *
11291695 ATAAGTGAACTCGGACTCAAATCAATGAGCTC-GAGCGCTCATATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCACATCC
11291741 ATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGATGCCTAGTT-ACATCTC
1 ATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGA-G-C-A-TTCACATC-C
*
11291792 -T---TGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCACATCC
11291834 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
11291869 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 7, Indels: 26
0.77 0.05 0.18
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 1 0.01
46 59 0.55
47 30 0.28
48 1 0.01
49 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (47 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCACATCC
Found at i:11291887 original size:46 final size:45
Alignment explanation
Indices: 11291744--11291887 Score: 131
Period size: 46 Copynumber: 3.1 Consensus size: 45
11291734 CATATCCATA
11291744 AGTGAACTCGGACTCAACTCAACGAGCTT-GGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAG-TTCGGATGCC-A---ACCATC-CT
*
11291793 --TGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
11291836 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
11291883 AGTGA
1 AGTGA
11291888 CATGTCACTT
Statistics
Matches: 82, Mismatches: 2, Indels: 25
0.75 0.02 0.23
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.07
44 1 0.01
46 37 0.45
47 28 0.34
48 5 0.06
49 1 0.01
50 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:11296429 original size:49 final size:48
Alignment explanation
Indices: 11296372--11296543 Score: 136
Period size: 49 Copynumber: 3.5 Consensus size: 48
11296362 TCAGTGTATA
*
11296372 ACCTGTCTGGGACATGGCATCGACATTGATAGATGAGAGCCAGTTTAAG
1 ACCTGTCTGGGACATGACATCGACATTGATAGATGA-AGCCAGTTTAAG
* * * * *
11296421 ACCTGTCTGGGACATGACATC-AGCCTCGGTATATGAAGGTCA-TTGTAAG
1 ACCTGTCTGGGACATGACATCGA-CATTGATAGATGAA-GCCAGTT-TAAG
* * * * * *
11296470 ACCTGCCTGGGACACGACATCGACTTTAAT-G-TGATAGCCAGTGTAAT
1 ACCTGTCTGGGACATGACATCGACATTGATAGATGA-AGCCAGTTTAAG
* *
11296517 ACCATGTCTGGGACATGGCGTCGACAT
1 ACC-TGTCTGGGACATGACATCGACAT
11296544 CTTATCCCAT
Statistics
Matches: 95, Mismatches: 21, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
47 12 0.13
48 24 0.25
49 58 0.61
50 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (48 bp):
ACCTGTCTGGGACATGACATCGACATTGATAGATGAAGCCAGTTTAAG
Found at i:11304954 original size:40 final size:39
Alignment explanation
Indices: 11304789--11304972 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
11304779 AAATTGAATG
* * *
11304789 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
11304829 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
11304869 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
11304909 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
11304948 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
11304973 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:11304997 original size:80 final size:81
Alignment explanation
Indices: 11304829--11305017 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
11304819 GCTGGAAATT
* * * *
11304829 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
11304894 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
11304910 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
11304973 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
11304989 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
11305018 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:11309715 original size:23 final size:23
Alignment explanation
Indices: 11309661--11309825 Score: 269
Period size: 23 Copynumber: 7.1 Consensus size: 23
11309651 CCTAGCCTCT
*
11309661 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
11309684 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
11309708 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
11309731 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
11309754 TTTTGATAACT-GGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
11309777 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
11309801 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
11309824 TT
1 TT
11309826 ATGCACTTCC
Statistics
Matches: 136, Mismatches: 3, Indels: 5
0.94 0.02 0.03
Matches are distributed among these distances:
23 93 0.68
24 43 0.32
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:11309715 original size:47 final size:47
Alignment explanation
Indices: 11309661--11309825 Score: 280
Period size: 47 Copynumber: 3.5 Consensus size: 47
11309651 CCTAGCCTCT
*
11309661 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
11309708 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
11309754 TTTTGATAACT-GGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
11309801 TTTAATAACTGGGGCATAAGCCCTT
1 TTTAATAACTGGGGCATAAGCCCTT
11309826 ATGCACTTCC
Statistics
Matches: 111, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
46 44 0.40
47 67 0.60
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:11309741 original size:70 final size:70
Alignment explanation
Indices: 11309661--11309825 Score: 287
Period size: 70 Copynumber: 2.4 Consensus size: 70
11309651 CCTAGCCTCT
*
11309661 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCAT
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACT-GGGCATAAGCCCTTTTAATAACTGGGGCAT
11309725 AAGCCC
65 AAGCCC
* *
11309731 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGCATAAGCCCTTTTAATAACTGGGGCATA
11309796 AGCCC
66 AGCCC
11309801 TTTAATAACTGGGGCATAAGCCCTT
1 TTTAATAACTGGGGCATAAGCCCTT
11309826 ATGCACTTCC
Statistics
Matches: 91, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
69 12 0.13
70 79 0.87
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (70 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGCATAAGCCCTTTTAATAACTGGGGCATA
AGCCC
Found at i:11309899 original size:9 final size:9
Alignment explanation
Indices: 11309885--11309941 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
11309875 ATCTCATGTG
11309885 CATATCATA
1 CATATCATA
*
11309894 CATATCATGTG
1 CATATCA--TA
11309905 CATATCATA
1 CATATCATA
* *
11309914 CATGTCATGTG
1 CATATCA--TA
11309925 CATATCATA
1 CATATCATA
11309934 CATATCAT
1 CATATCAT
11309942 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:11309901 original size:20 final size:20
Alignment explanation
Indices: 11309873--11309943 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
11309863 GCATTTATGA
*
11309873 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
11309893 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
11309913 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
11309933 ACATATCATGT
1 ACATATCATGT
11309944 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:11309908 original size:11 final size:11
Alignment explanation
Indices: 11309878--11309932 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
11309868 TATGAACATC
11309878 TCATGTGCATA
1 TCATGTGCATA
*
11309889 TCA--TACATA
1 TCATGTGCATA
11309898 TCATGTGCATA
1 TCATGTGCATA
* *
11309909 TCA--TACATG
1 TCATGTGCATA
11309918 TCATGTGCATA
1 TCATGTGCATA
11309929 TCAT
1 TCAT
11309933 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:11310008 original size:25 final size:25
Alignment explanation
Indices: 11309980--11310027 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11309970 ATACATAAAC
* * *
11309980 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
11310005 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
11310028 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:11311284 original size:27 final size:27
Alignment explanation
Indices: 11311263--11311845 Score: 327
Period size: 27 Copynumber: 21.6 Consensus size: 27
11311253 AAGGGTATTT
* *
11311263 TAGTAATTTTGAAAATCGAGGGTAAAA
1 TAGTAATTCTGAAAATCAAGGGTAAAA
*
11311290 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGAAAATCAAGGGTAAAA
* *
11311317 CAGTAATTCT-ATAAATCGAGGGTAAAA
1 TAGTAATTCTGA-AAATCAAGGGTAAAA
* * *
11311344 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGAAAATCAAGGGTAAAA
* * *
11311371 CAGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGAAAATCAAGGGTAAAA
* * * *
11311398 -CGATAATTATGTAAATCAGGGGT-AAA
1 TAG-TAATTCTGAAAATCAAGGGTAAAA
* * * * *
11311424 TGGTAATTATGTAAATTAGGGGTAAAA
1 TAGTAATTCTGAAAATCAAGGGTAAAA
**
11311451 CGGTAATTCT-ATAAATCAAGGGTAAAA
1 TAGTAATTCTGA-AAATCAAGGGTAAAA
* *
11311478 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGAAAATC-AAGGGTAAAA
* * *
11311505 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGAAAATCAAGGGTAAAA
** * *
11311532 CGGTAATT-TTACAAATCGAGGGTAAAA
1 TAGTAATTCTGA-AAATCAAGGGTAAAA
** *
11311559 CGGTAATTCT-ATAAATCGAGGGTAAAA
1 TAGTAATTCTGA-AAATCAAGGGTAAAA
* *
11311586 CAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGAAAATCAAGGGTAAAA
* * *
11311613 CAATAATTCT-ATAAA-CTGAGGGTAAAA
1 TAGTAATTCTGA-AAATC-AAGGGTAAAA
* * *
11311640 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGAAAATCAAGGGTAAAA
* * *
11311667 TAGTAATTTTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGAAAATC-AAGGGTAAAA
** **
11311694 CGGTAATTCT-ATAAATCGTGGGTAAAA
1 TAGTAATTCTGA-AAATCAAGGGTAAAA
** * **
11311721 CGGTAATT-TTACAAATTGAGGGTAAAA
1 TAGTAATTCTGA-AAATCAAGGGTAAAA
* *
11311748 -CGATAATTCT-ATAAATCGAGGGTAAAA
1 TAG-TAATTCTGA-AAATCAAGGGTAAAA
** * *
11311775 CGGTAATT-TTACAAATCGAGGGTAAAA
1 TAGTAATTCTGA-AAATCAAGGGTAAAA
*
11311802 TAGTAATTCT-ATAAA-CTGAGGGTAAAA
1 TAGTAATTCTGA-AAATC-AAGGGTAAAA
** *
11311829 CGGTAATTCTGTAAATC
1 TAGTAATTCTGAAAATC
11311846 GGGAGTACTT
Statistics
Matches: 466, Mismatches: 62, Indels: 55
0.80 0.11 0.09
Matches are distributed among these distances:
26 31 0.07
27 427 0.92
28 8 0.02
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
TAGTAATTCTGAAAATCAAGGGTAAAA
Found at i:11311350 original size:81 final size:81
Alignment explanation
Indices: 11311265--11311846 Score: 685
Period size: 81 Copynumber: 7.2 Consensus size: 81
11311255 GGGTATTTTA
* * ** * *
11311265 GTAATTTTGAAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
11311330 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * * *
11311346 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG-TAATTCTAT
11311410 AAATC-AGGGGT-AAATG
65 AAATCGA-GGGTAAAATG
* * * * *
11311426 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTGT
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTAT
11311490 AAA-CTGAGGGTAAAATG
65 AAATC-GAGGGTAAAATG
* * *
11311507 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
**
11311572 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAATG
* ** ** *
11311588 GTAATTCTGTAAATCAAGGGTAAAACAATAATTCTATAAA-CTGAGGGTAAAATGGTAATTCTGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAACAGTAATTCTAT
*
11311652 AAATCGAGGGTAAAATA
65 AAATCGAGGGTAAAATG
* * * * *
11311669 GTAATTTTGTAAA-CTGAGGGTAAAACGGTAATTCTATAAATCGTGGGTAAAACGGTAATTTTAC
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTAT
* *
11311733 AAATTGAGGGTAAAACG
65 AAATCGAGGGTAAAATG
* * * * *
11311750 ATAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAATAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
*
11311815 AA-CTGAGGGTAAAACG
66 AATC-GAGGGTAAAATG
11311831 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
11311847 GGAGTACTTT
Statistics
Matches: 431, Mismatches: 56, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
79 2 0.00
80 69 0.16
81 356 0.83
82 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATA
AATCGAGGGTAAAATG
Found at i:11311846 original size:54 final size:54
Alignment explanation
Indices: 11311275--11311846 Score: 647
Period size: 54 Copynumber: 10.6 Consensus size: 54
11311265 GTAATTTTGA
** *
11311275 AAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
* *
11311329 AAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGT
1 AAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
* * ** * *
11311383 AAATCGAGGGTAAAACGATAATTATGTAAATC-AGGGGT-AAATGGTAATTATGT
1 AAATCGAGGGTAAAACGGTAATTCTGTAAATCGA-GGGTAAAACAGTAATTCTAT
* * * * *
11311436 AAAT-TAGGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTGT
1 AAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
* * * *
11311490 AAA-CTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTAC
1 AAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
* *
11311544 AAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGT
1 AAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
* ** * ** *
11311598 AAATCAAGGGTAAAACAATAATTCTATAAA-CTGAGGGTAAAATGGTAATTCTGT
1 AAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTAT
** * *
11311652 AAATCGAGGGTAAAATAGTAATTTTGTAAA-CTGAGGGTAAAACGGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTAT
* * ** *
11311706 AAATCGTGGGTAAAACGGTAATTTTACAAATTGAGGGTAAAAC-GATAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTAT
* ** *
11311760 AAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAATAGTAATTCTAT
1 AAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
11311814 AAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
1 AAATC-GAGGGTAAAACGGTAATTCTGTAAATCG
11311847 GGAGTACTTT
Statistics
Matches: 452, Mismatches: 54, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
52 1 0.00
53 46 0.10
54 402 0.89
55 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
AAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTAT
Found at i:11326477 original size:40 final size:40
Alignment explanation
Indices: 11326422--11326727 Score: 408
Period size: 40 Copynumber: 7.6 Consensus size: 40
11326412 TATTCGGATG
*
11326422 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
11326462 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
11326502 ATATCCGGGCGAAGTCCCGAAGGCATTTGTG-TGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGT-G--ACT
11326545 ATATCC-GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
11326584 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
11326627 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
11326666 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
11326706 ATAT-CTGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
11326728 TACTTGGGTT
Statistics
Matches: 240, Mismatches: 13, Indels: 27
0.86 0.05 0.10
Matches are distributed among these distances:
38 2 0.01
39 32 0.13
40 130 0.54
41 4 0.02
42 53 0.22
43 17 0.07
44 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:11326577 original size:82 final size:83
Alignment explanation
Indices: 11326422--11326727 Score: 452
Period size: 82 Copynumber: 3.8 Consensus size: 83
11326412 TATTCGGATG
* * *
11326422 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCT-AGT-G--ACTATATCCGGGCTAAGTCCCGAA
1 ATATCCGGGCGAAGTCCCGAAGGCATTTGTG-TGAGTAGTTGCTATATCCGGGCTAAGTCCCGAA
11326483 GGCATTTGTGCTAGTGACT
65 GGCATTTGTGCTAGTGACT
11326502 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGTGAGTAGTTGCTATATCC-GGCTAAGTCCCGAAG
1 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGTGAGTAGTTGCTATATCCGGGCTAAGTCCCGAAG
11326566 GCATTTGTGCTAGTGACT
66 GCATTTGTGCTAGTGACT
*
11326584 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATA-CCGGGCTAAGTCCCGAAG
1 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGTGAGTAGTTGCTATATCCGGGCTAAGTCCCGAAG
11326648 GCATTTGTGCTAGTGACT
66 GCATTTGTGCTAGTGACT
* * * * *
11326666 ATATCCGGGCTAAGACCCGAAGGCA--TGTGTGCG-AGTTGCTATAT-CTGGCTAAATCCCGAAG
1 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGTGAGTAGTTGCTATATCCGGGCTAAGTCCCGAAG
11326727 G
66 G
11326728 TACTTGGGTT
Statistics
Matches: 210, Mismatches: 10, Indels: 13
0.90 0.04 0.06
Matches are distributed among these distances:
79 27 0.13
80 38 0.18
81 3 0.01
82 134 0.64
83 8 0.04
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (83 bp):
ATATCCGGGCGAAGTCCCGAAGGCATTTGTGTGAGTAGTTGCTATATCCGGGCTAAGTCCCGAAG
GCATTTGTGCTAGTGACT
Found at i:11326677 original size:122 final size:122
Alignment explanation
Indices: 11326422--11326727 Score: 412
Period size: 122 Copynumber: 2.5 Consensus size: 122
11326412 TATTCGGATG
*
11326422 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
*
11326487 TTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTGTGTGAGTAGTTGCT
66 TTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTGTGTGAGTAG-TACT
*
11326545 ATATCC-GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
*
11326609 TTTGTGCGAGTAGTTG-CTATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGT-G-ACT
66 TTTGTGC---TAG-TGACTATATCCGGGCGAAGTCCCGAAGGCATTTGTG-TGAGTAGTACT
* * * * *
11326666 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CTATAT-CTGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGG
11326728 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 10, Indels: 16
0.86 0.05 0.08
Matches are distributed among these distances:
121 23 0.14
122 94 0.57
123 9 0.05
124 29 0.17
125 9 0.05
126 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (122 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTGACTATATCCGGGCGAAGTCCCGAAGGCATTTGTGTGAGTAGTACT
Found at i:11334257 original size:40 final size:40
Alignment explanation
Indices: 11334202--11334509 Score: 408
Period size: 40 Copynumber: 7.6 Consensus size: 40
11334192 TATTCGGATG
*
11334202 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
11334242 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
11334282 ATATCCGAGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
11334325 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
11334365 ATATCCAGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
11334408 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
11334448 ATATCCGAGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
11334488 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
11334510 TACTTGGGTT
Statistics
Matches: 239, Mismatches: 18, Indels: 23
0.85 0.06 0.08
Matches are distributed among these distances:
39 17 0.07
40 147 0.62
41 2 0.01
43 69 0.29
44 4 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:11334450 original size:123 final size:120
Alignment explanation
Indices: 11334202--11334509 Score: 408
Period size: 123 Copynumber: 2.5 Consensus size: 120
11334192 TATTCGGATG
*
11334202 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC-GGCTAAGTCCCGAAGGCA
*
11334267 TTTGTGCTAGTGACTATATCCGAGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
65 TTTGTGCTAGTGACTATACCCGAGCGAAGTCCCGAAGGCATTTGTGC--GTAGTTGCT
*
11334325 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCAGGCGAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC-GGCTAAGTCCCGAAGGCA
* *
11334390 TTTGTGCGAGTAGTTG-CTATACCCGGGCTAAGTCCCGAAGGCATTTGTGC-TAG-TGACT
65 TTTGTGC---TAG-TGACTATACCCGAGCGAAGTCCCGAAGGCATTTGTGCGTAGTTG-CT
* * * * *
11334448 ATATCCGAGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CTATATCCGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGCTAAGTCCCGAAGG
11334510 TACTTGGGTT
Statistics
Matches: 167, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
122 16 0.10
123 113 0.68
124 2 0.01
126 34 0.20
127 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (120 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAGTCCCGAAGGCAT
TTGTGCTAGTGACTATACCCGAGCGAAGTCCCGAAGGCATTTGTGCGTAGTTGCT
Found at i:11334528 original size:83 final size:82
Alignment explanation
Indices: 11334202--11334509 Score: 461
Period size: 83 Copynumber: 3.8 Consensus size: 82
11334192 TATTCGGATG
*
11334202 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGC--TAG-TGACTATATCCGGGCTAAGTCCCGAAG
1 ATATCCAGGCGAAGTCCCGAAGGCATTTGTGCAGTAGTTG-CTATATCCGGGCTAAGTCCCGAAG
11334264 GCATTTGTGCTAGTGACT
65 GCATTTGTGCTAGTGACT
11334282 ATATCC-GAGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATATCCGGGCTAAGTCCCGAA
1 ATATCCAG-GCGAAGTCCCGAAGGCATTTGTGC-AGTAGTTGCTATATCCGGGCTAAGTCCCGAA
11334346 GGCATTTGTGCTAGTGACT
64 GGCATTTGTGCTAGTGACT
*
11334365 ATATCCAGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCAGGCGAAGTCCCGAAGGCATTTGTGC-AGTAGTTGCTATATCCGGGCTAAGTCCCGAAG
11334430 GCATTTGTGCTAGTGACT
65 GCATTTGTGCTAGTGACT
* * * *
11334448 ATATCC-GAGCTAAGACCCGAAGGCATGTGTGC-G-AGTTGCTATATCC-GGCTAAATCCCGAAG
1 ATATCCAG-GCGAAGTCCCGAAGGCATTTGTGCAGTAGTTGCTATATCCGGGCTAAGTCCCGAAG
11334509 G
65 G
11334510 TACTTGGGTT
Statistics
Matches: 214, Mismatches: 7, Indels: 15
0.91 0.03 0.06
Matches are distributed among these distances:
79 16 0.07
80 41 0.19
81 1 0.00
82 1 0.00
83 152 0.71
84 3 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (82 bp):
ATATCCAGGCGAAGTCCCGAAGGCATTTGTGCAGTAGTTGCTATATCCGGGCTAAGTCCCGAAGG
CATTTGTGCTAGTGACT
Found at i:11339233 original size:39 final size:40
Alignment explanation
Indices: 11339060--11339250 Score: 262
Period size: 40 Copynumber: 4.8 Consensus size: 40
11339050 GGATATAGCT
* *
11339060 ACTCGCTCAAATGCCTTCGGGA-TATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACT-TAGCCCGGATT-TAGTA
*
11339100 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
11339140 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
** *
11339180 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
11339219 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
11339251 TTATCATCCA
Statistics
Matches: 138, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 33 0.24
40 102 0.74
41 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:11341936 original size:21 final size:21
Alignment explanation
Indices: 11341897--11341936 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11341887 ACACGGTGTT
* *
11341897 GAGGAAGCAATGTGGGAACCA
1 GAGGAAGCAATGAGAGAACCA
*
11341918 GAGGATGCAATGAGAGAAC
1 GAGGAAGCAATGAGAGAAC
11341937 GCTATCCGAA
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:0.40, C:0.12, G:0.38, T:0.10
Consensus pattern (21 bp):
GAGGAAGCAATGAGAGAACCA
Found at i:11347470 original size:2 final size:2
Alignment explanation
Indices: 11347463--11347513 Score: 50
Period size: 2 Copynumber: 25.0 Consensus size: 2
11347453 ATTGATTTGT
* * *
11347463 TA TA TA TA TA TA TA TA TA TA TG TA T- TCC TA TGG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T-A TA TA TA TA TA
11347506 TA TA TA TA
1 TA TA TA TA
11347514 AAGAAGGTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
1 1 0.02
2 38 0.93
3 2 0.05
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (2 bp):
TA
Found at i:11352265 original size:44 final size:42
Alignment explanation
Indices: 11352191--11352335 Score: 118
Period size: 44 Copynumber: 3.4 Consensus size: 42
11352181 ATACGTGTTA
* * * *
11352191 TCGTGTAAGACCACGTTTTGGACGTTGGCATCA-ACTTATGATT
1 TCGTGTAAGACCACGTATGGGACATCGGCATCATA-TT-TGATT
*
11352234 TACGTGTAAGACCATGTATGGGACATCGGCATCATATTTGATT
1 T-CGTGTAAGACCACGTATGGGACATCGGCATCATATTTGATT
* * *
11352277 TCATGTAAGACC-CTGTCTAGGACAGT-GGCATCGATATTTG-TT
1 TCGTGTAAGACCAC-GTATGGGACA-TCGGCATC-ATATTTGATT
*
11352319 TACATGTAAGACCACGT
1 T-CGTGTAAGACCACGT
11352336 TTAGGACGTT
Statistics
Matches: 86, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
42 27 0.31
43 28 0.33
44 30 0.35
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (42 bp):
TCGTGTAAGACCACGTATGGGACATCGGCATCATATTTGATT
Found at i:11352300 original size:42 final size:44
Alignment explanation
Indices: 11352229--11352342 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 44
11352219 CATCAACTTA
* *
11352229 TGATTTACGTGTAAGACCATGTATGGGACA-TCGGCATC-ATATT
1 TGATTTACATGTAAGACCATGTATAGGACAGT-GGCATCGATATT
* *
11352272 TGATTT-CATGTAAGACCCTGTCTAGGACAGTGGCATCGATATT
1 TGATTTACATGTAAGACCATGTATAGGACAGTGGCATCGATATT
* *
11352315 TG-TTTACATGTAAGACCACGTTTAGGAC
1 TGATTTACATGTAAGACCATGTATAGGAC
11352343 GTTGGTATTG
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
42 28 0.46
43 33 0.54
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (44 bp):
TGATTTACATGTAAGACCATGTATAGGACAGTGGCATCGATATT
Found at i:11352314 original size:43 final size:43
Alignment explanation
Indices: 11352194--11352342 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 43
11352184 CGTGTTATCG
* * * * * *
11352194 TGTAAGACCACGTTTTGGACGTTGGCATCA-ACTTATGATTTACG
1 TGTAAGACCATGTATAGGACATCGGCATCATA-TT-TGATTTACA
*
11352238 TGTAAGACCATGTATGGGACATCGGCATCATATTTGATTT-CA
1 TGTAAGACCATGTATAGGACATCGGCATCATATTTGATTTACA
* *
11352280 TGTAAGACCCTGTCTAGGACAGT-GGCATCGATATTTG-TTTACA
1 TGTAAGACCATGTATAGGACA-TCGGCATC-ATATTTGATTTACA
* *
11352323 TGTAAGACCACGTTTAGGAC
1 TGTAAGACCATGTATAGGAC
11352343 GTTGGTATTG
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
42 28 0.31
43 33 0.37
44 27 0.30
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTATAGGACATCGGCATCATATTTGATTTACA
Found at i:11358339 original size:39 final size:39
Alignment explanation
Indices: 11358285--11358371 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
11358275 CCAGCAATTA
*
11358285 GCCTGCTAGGTATAAACCTGAACTTATCATCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
*
11358324 GCCTGCTAGGTATAAACCTGAATTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
11358363 GCCTGCTAG
1 GCCTGCTAG
11358372 ACATTAAGTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.23
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
Found at i:11359865 original size:40 final size:40
Alignment explanation
Indices: 11359828--11360013 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
11359818 GCTACTCGTT
*
11359828 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
11359868 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
11359908 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
11359948 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
11359989 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11360014 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:11359932 original size:80 final size:81
Alignment explanation
Indices: 11359795--11360013 Score: 265
Period size: 80 Copynumber: 2.8 Consensus size: 81
11359785 GAATCACGTA
** *
11359795 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTC-GTTCAAATGCCTTCGGGACATAGCCCGG-TT
1 CCTTCGG-ATCTTAACCCGGATATAG-TAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGATT
11359855 ATAGTAACTCGCACAAATG
64 -TAGTAACTCGCACAAATG
* *
11359874 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCA-CACAAATGCCTTCGGGACTTAACCCGGATTT
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGATTT
11359937 AGTAACTCGCACAAATG
65 AGTAACTCGCACAAATG
** * *
11359954 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGA
11360014 CATCATTCGA
Statistics
Matches: 121, Mismatches: 11, Indels: 15
0.82 0.07 0.10
Matches are distributed among these distances:
79 14 0.12
80 99 0.82
81 8 0.07
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (81 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCAGCACAAATGCCTTCGGGACTTAGCCCGGATTTA
GTAACTCGCACAAATG
Found at i:11365814 original size:48 final size:48
Alignment explanation
Indices: 11365659--11365806 Score: 224
Period size: 48 Copynumber: 3.1 Consensus size: 48
11365649 ATATATACAC
* **
11365659 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
** * *
11365707 CGCTCATACATATTTCACATTAGCCTTTCGACTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
11365755 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
11365803 ATCT
1 ATCT
11365807 TGTACATAAA
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:11369039 original size:23 final size:21
Alignment explanation
Indices: 11369013--11369055 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11369003 GATATTTTTA
11369013 AATTCACATCTAAATATAATTAT
1 AATTCA-ATCTAAA-ATAATTAT
* *
11369036 AATTTAATTTAAAATAATTA
1 AATTCAATCTAAAATAATTA
11369056 GTTAAAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTCAATCTAAAATAATTAT
Found at i:11369421 original size:123 final size:123
Alignment explanation
Indices: 11369246--11369565 Score: 366
Period size: 126 Copynumber: 2.6 Consensus size: 123
11369236 TTTTTATAAT
* * ** *
11369246 TAAGAAAATTAATTTTATCAAAACACTTTGTTAATGGATTAATTTGATAATAGAT-AAAAGTTAA
1 TAAGAAATTTAAATTTATCAAAACAC----TTAATTAATTAATTTGATAATAGATGAAAA-TCAA
*
11369310 ACTTTTATGAAATTTTTT-ATCTTAAAGTTTTAAA-ATTTTCATTAATCTTAACAAATTAAGAAG
61 ACTTTTATG-AATTTTTTAATCTTAAAG-TTTAAATATTTTCATTAATCTTAACAAATTAAGAAA
* *
11369373 TACGAAATTTAAATTTATCAAAACACTTAATTAATTAATTTGATAATAGATGACAATCAAACTTT
1 TAAGAAATTTAAATTTATCAAAACACTTAATTAATTAATTTGATAATAGATGAAAATCAAACTTT
* * * *
11369438 TATGATTTTTTTAATCTTAAAGTTTAAATTTTTTTTTCATTAATCTTAAGAAATTAATAAA
66 TATGAATTTTTTAATCTTAAAGTTTAAA---TATTTTCATTAATCTTAACAAATTAAGAAA
* * *
11369499 TAAGAAATTTAAATTTATCAAAACAC----TTAATTAATTTGACAATTGATGAAAATCAAAATTT
1 TAAGAAATTTAAATTTATCAAAACACTTAATTAATTAATTTGATAATAGATGAAAATCAAACTTT
11369560 TATGAA
66 TATGAA
11369566 ATTGATTTAT
Statistics
Matches: 169, Mismatches: 18, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
122 49 0.29
123 44 0.26
124 3 0.02
126 50 0.30
127 23 0.14
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (123 bp):
TAAGAAATTTAAATTTATCAAAACACTTAATTAATTAATTTGATAATAGATGAAAATCAAACTTT
TATGAATTTTTTAATCTTAAAGTTTAAATATTTTCATTAATCTTAACAAATTAAGAAA
Found at i:11369777 original size:16 final size:14
Alignment explanation
Indices: 11369756--11369790 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
11369746 TATATTTGAG
11369756 TTTTTCTTTCTTTTT
1 TTTTTCTTT-TTTTT
11369771 CTTTTTCTTTTTTTT
1 -TTTTTCTTTTTTTT
11369786 TTTTT
1 TTTTT
11369791 GTTGTACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 5 0.26
16 9 0.47
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTCTTTTTTTT
Found at i:11373865 original size:13 final size:13
Alignment explanation
Indices: 11373844--11373883 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
11373834 TAAGCAATCA
11373844 CACACGGGCATGT
1 CACACGGGCATGT
*
11373857 CACATGGGCATGT
1 CACACGGGCATGT
*
11373870 CACACGGGCGTGT
1 CACACGGGCATGT
11373883 C
1 C
11373884 CCTGCCGAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (13 bp):
CACACGGGCATGT
Found at i:11376972 original size:40 final size:39
Alignment explanation
Indices: 11376812--11376974 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
11376802 TGTGTATGAA
*
11376812 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
11376851 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
11376890 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
11376929 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
11376969 TGTGCG
1 TGTGCG
11376975 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:11376990 original size:40 final size:39
Alignment explanation
Indices: 11376812--11377005 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
11376802 TGTGTATGAA
* *
11376812 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
11376851 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
11376890 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
11376929 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
11376969 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
11377006 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:11384897 original size:40 final size:39
Alignment explanation
Indices: 11384737--11384899 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
11384727 TGTGTATGAA
*
11384737 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
11384776 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
11384815 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
11384854 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
11384894 TGTGCG
1 TGTGCG
11384900 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:11384915 original size:40 final size:39
Alignment explanation
Indices: 11384737--11384930 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
11384727 TGTGTATGAA
* *
11384737 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
11384776 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
11384815 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
11384854 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
11384894 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
11384931 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:11387634 original size:48 final size:45
Alignment explanation
Indices: 11387490--11387803 Score: 167
Period size: 49 Copynumber: 6.7 Consensus size: 45
11387480 ATGGATGTGT
* * * *
11387490 GCTAGTGTAAGACATGTCAGGGACAT-GTATCGGTCA-CATTATGAG
1 GCTAGTGTAAGACATGTCTGGGACATGGCATC-G-CATCAATATGAA
* * * *
11387535 GCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTAAGATGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATC-GCATCAATATGA-A
*
11387583 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCGAGATATGCAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATC-GCATC-A-ATATG-AA
* * * * * *
11387631 GCTAGTGTAAGACCTATCTGAGACATGGCATCGGCAT-GACATG-T
1 GCTAGTGTAAGACATGTCTGGGACATGGCATC-GCATCAATATGAA
* * * * *
11387675 G-TCAGTGTAAGACCTATCTGGGACATGGCATCGACACCGATAGAGGACA
1 GCT-AGTGTAAGACATGTCTGGGACATGGCATCG-CATC-A-ATATGA-A
* * *
11387724 TCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATC-GCATC-A-ATATG-AA
*
11387773 G-TCAGTGTAAGATC-TGTTTGGGACATGGCAT
1 GCT-AGTGTAAGA-CATGTCTGGGACATGGCAT
11387804 AGACTTAGAT
Statistics
Matches: 213, Mismatches: 36, Indels: 36
0.75 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 31 0.15
45 11 0.05
46 26 0.12
47 28 0.13
48 40 0.19
49 71 0.33
50 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGCATCAATATGAA
Found at i:11391309 original size:27 final size:27
Alignment explanation
Indices: 11391279--11391790 Score: 599
Period size: 27 Copynumber: 19.1 Consensus size: 27
11391269 ATACTCCCGG
*
11391279 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
11391306 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
*
11391333 TTTATAGAATTACCGTTTTACCCTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
* *
11391359 GTTTACAGAATTACTGTTTTACCCTTGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
*
11391387 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
** * *
11391414 TTTGTA-AAATATCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
*
11391440 TTTACAGAATTACCGTTTTACACTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
*
11391466 GTTTACAGAATTACTGTTTTACCCTCGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
* *
11391494 TTTATA-AATTACCATTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
** *
11391520 TTTGTAAAATTACCGTTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCGA
*
11391547 TTTACAGAATTACCGTTTTACCCT-TA
1 TTTACAGAATTACCGTTTTACCCTCGA
** *
11391573 GTTTACAGAATTACTATTTTACCCTCAA
1 -TTTACAGAATTACCGTTTTACCCTCGA
*
11391601 TTTACAGAATTACCATTTTACCCTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
*
11391627 GTTTACAGAATTACTGTTTTACCCTCGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
* *
11391655 TTTACAGAATTATCG-TTTACCCTTGA
1 TTTACAGAATTACCGTTTTACCCTCGA
** * *
11391681 TTTGTAAAATTACCGTTTTACCCTTGA
1 TTTACAGAATTACCGTTTTACCCTCGA
* *
11391708 TTTACAGAATTACTGGTTTACCCTC-A
1 TTTACAGAATTACCGTTTTACCCTCGA
* * *
11391734 GTTTACAAAATTATCGTTTTACCCTTGA
1 -TTTACAGAATTACCGTTTTACCCTCGA
** *
11391762 TTTACAGAATTACAATTTTACCCTTGA
1 TTTACAGAATTACCGTTTTACCCTCGA
11391789 TT
1 TT
11391791 GTGAAATTAC
Statistics
Matches: 417, Mismatches: 55, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
26 71 0.17
27 341 0.82
28 5 0.01
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
TTTACAGAATTACCGTTTTACCCTCGA
Found at i:11391810 original size:107 final size:109
Alignment explanation
Indices: 11391279--11391786 Score: 667
Period size: 107 Copynumber: 4.7 Consensus size: 109
11391269 ATACTCCCGG
* *
11391279 TTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATT
1 TTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATT
*
11391344 ACCGTTTTACCC-TCAGTTTACAGAATTACTGTTTTACCCTTGA
66 ACCGTTTTACCCTTCAGTTTACAGAATTACTGTTTTACCCTCGA
** *
11391387 TTTATAGAATTACCGTTTTACCCTCGATTTGTAAAA-TATCGTTTTACCCTCGATTTACAGAATT
1 TTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATT
*
11391451 ACCGTTTTACAC-TCAGTTTACAGAATTACTGTTTTACCCTCGA
66 ACCGTTTTACCCTTCAGTTTACAGAATTACTGTTTTACCCTCGA
* **
11391494 TTTATA-AATTACCATTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATT
1 TTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATT
* *
11391558 ACCGTTTTACCCTT-AGTTTACAGAATTACTATTTTACCCTCAA
66 ACCGTTTTACCCTTCAGTTTACAGAATTACTGTTTTACCCTCGA
* * * *
11391601 TTTACAGAATTACCATTTTACCCTC-AGTTTACAGAATTACTGTTTTACCCTCGATTTACAGAAT
1 TTTATAGAATTACCGTTTTACCCTCGA-TTTACAAAATTACCGTTTTACCCTCGATTTACAGAAT
* * * * *
11391665 TATCG-TTTACCCTTGATTTGTA-A-AATTACCGTTTTACCCTTGA
65 TACCGTTTTACCCTTCAGTT-TACAGAATTACTGTTTTACCCTCGA
* * * * *
11391708 TTTACAGAATTACTGGTTTACCCTC-AGTTTACAAAATTATCGTTTTACCCTTGATTTACAGAAT
1 TTTATAGAATTACCGTTTTACCCTCGA-TTTACAAAATTACCGTTTTACCCTCGATTTACAGAAT
**
11391772 TACAATTTTACCCTT
65 TACCGTTTTACCCTT
11391787 GATTGTGAAA
Statistics
Matches: 360, Mismatches: 33, Indels: 14
0.88 0.08 0.03
Matches are distributed among these distances:
106 28 0.08
107 228 0.63
108 102 0.28
109 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (109 bp):
TTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATT
ACCGTTTTACCCTTCAGTTTACAGAATTACTGTTTTACCCTCGA
Found at i:11391825 original size:27 final size:27
Alignment explanation
Indices: 11391795--11391988 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
11391785 TTGATTGTGA
*
11391795 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
11391822 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
11391849 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
11391876 AATTACC-AAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
11391901 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
11391928 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
11391955 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
11391982 AATTACC
1 AATTACC
11391989 ATTTTGCCCC
Statistics
Matches: 144, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
25 16 0.11
26 10 0.07
27 118 0.82
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:11391825 original size:107 final size:106
Alignment explanation
Indices: 11391617--11391813 Score: 238
Period size: 107 Copynumber: 1.8 Consensus size: 106
11391607 GAATTACCAT
*
11391617 TTTACCCTCAGTTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTATCGTTTACCCTTGAT
1 TTTACCCTCAGTTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTATCGTTTACCCTTGAT
*** * **
11391682 TTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGG
66 TTGTAAAATTACCGAAATACCCCTGAGGTA-AGAATTACTGG
* *
11391724 TTTACCCTCAGTTTACAAAATTA-TCGTTTTACCCTTGATTTACAGAATTA-CAATTTTACCCTT
1 TTTACCCTCAGTTTACAAAATTACT-GTTTTACCCTCGATTTACAGAATTATC--GTTTACCCTT
* *
11391787 GA-TTGTGAAATTACTGAAATACCCCTG
63 GATTTGTAAAATTACCGAAATACCCCTG
11391814 TAGGGTAGAA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
106 2 0.03
107 65 0.83
108 11 0.14
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (106 bp):
TTTACCCTCAGTTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTATCGTTTACCCTTGAT
TTGTAAAATTACCGAAATACCCCTGAGGTAAGAATTACTGG
Found at i:11391924 original size:79 final size:81
Alignment explanation
Indices: 11391795--11391986 Score: 246
Period size: 79 Copynumber: 2.4 Consensus size: 81
11391785 TTGATTGTGA
* * *
11391795 AATTACTGAAATACCCCTGTAGGGTAGAATT-TCCGAAATACCCCTATAGGGTAGAATTACTGAA
1 AATTACCGAAATA-CCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTAGAAATACCGAA
*
11391859 ATACCCTTATAGGATAG
65 ATACCCCTATAGGATAG
* *
11391876 AATTACC-AAATACCCTGTAGGGTAGAATTAT-CGAAATACCCTTGTAGGGTAGAAATACCGAAA
1 AATTACCGAAATACCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTAGAAATACCGAAA
* *
11391939 TACCCCTGTAGGGTAG
66 TACCCCTATAGGATAG
* * *
11391955 AATTACCGAGATACCCTTGTGGGGTAAAATTA
1 AATTACCGAAATACCC-TGTAGGGTAGAATTA
11391987 CCATTTTGCC
Statistics
Matches: 97, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
79 65 0.67
80 13 0.13
81 19 0.20
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (81 bp):
AATTACCGAAATACCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTAGAAATACCGAAA
TACCCCTATAGGATAG
Found at i:11392225 original size:27 final size:26
Alignment explanation
Indices: 11392187--11392269 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
11392177 CGGAGGAAGC
*
11392187 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
11392214 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
11392240 GTATTTGGTGACTCTACCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
11392267 GTT
1 GTT
11392270 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:11393380 original size:29 final size:29
Alignment explanation
Indices: 11393346--11393420 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
11393336 TACTCGATTT
*
11393346 CGCACACTTAGTGCCATGCGATTTAG-GCC
1 CGCACACTTAGTGCCATGC-ACTTAGAGCC
** * * *
11393375 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCACTTAGAGCC
11393404 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
11393421 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTAGAGCC
Found at i:11395065 original size:22 final size:22
Alignment explanation
Indices: 11395034--11395088 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
11395024 GTGGTTAGGA
* *
11395034 CTCTGAATCTGAATTTGATATG
1 CTCTGCATCTGAATCTGATATG
11395056 CTCTGCATCTGAATCTGATATG
1 CTCTGCATCTGAATCTGATATG
*
11395078 CTCTACATCTG
1 CTCTGCATCTG
11395089 TACCTGTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (22 bp):
CTCTGCATCTGAATCTGATATG
Found at i:11401253 original size:20 final size:21
Alignment explanation
Indices: 11401228--11401281 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
11401218 ATAAGTGCTA
*
11401228 AACAGAAACCCATAA-AGTTG
1 AACAGAAACCCATAAGAGATG
* *
11401248 AACAGAAGCTCATAAGAGATG
1 AACAGAAACCCATAAGAGATG
11401269 AAC-GAAAGCCCAT
1 AACAGAAA-CCCAT
11401282 CAGGGTTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.13
Consensus pattern (21 bp):
AACAGAAACCCATAAGAGATG
Found at i:11402879 original size:27 final size:27
Alignment explanation
Indices: 11402841--11402895 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
11402831 CCATTGAATT
11402841 GATATGTCGAGATGGTAAAGGCACTTA
1 GATATGTCGAGATGGTAAAGGCACTTA
11402868 GATATGTCGAGATGGTAAAGGCACTTA
1 GATATGTCGAGATGGTAAAGGCACTTA
11402895 G
1 G
11402896 GTTTAACCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (27 bp):
GATATGTCGAGATGGTAAAGGCACTTA
Found at i:11406724 original size:30 final size:30
Alignment explanation
Indices: 11406690--11406750 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
11406680 TCCTTAACTC
11406690 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
11406720 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
11406750 A
1 A
11406751 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:11412834 original size:44 final size:44
Alignment explanation
Indices: 11412771--11412856 Score: 172
Period size: 44 Copynumber: 2.0 Consensus size: 44
11412761 TCTTTATGTT
11412771 CTCGATCCTAACTGGTAAGACCATTGATGTGGGAAAGATCATTA
1 CTCGATCCTAACTGGTAAGACCATTGATGTGGGAAAGATCATTA
11412815 CTCGATCCTAACTGGTAAGACCATTGATGTGGGAAAGATCAT
1 CTCGATCCTAACTGGTAAGACCATTGATGTGGGAAAGATCAT
11412857 CTTGAGGGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
CTCGATCCTAACTGGTAAGACCATTGATGTGGGAAAGATCATTA
Found at i:11419596 original size:13 final size:13
Alignment explanation
Indices: 11419578--11419602 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11419568 TATGAGATAT
11419578 GTGTGAAAATTTC
1 GTGTGAAAATTTC
11419591 GTGTGAAAATTT
1 GTGTGAAAATTT
11419603 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:11429929 original size:40 final size:40
Alignment explanation
Indices: 11429812--11430027 Score: 231
Period size: 40 Copynumber: 5.5 Consensus size: 40
11429802 AACTGAGCTT
* * * * *
11429812 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
* * * ** * *
11429851 CTTC-GGTCTTAACCCGGATTTGGTGACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
* * *
11429890 CTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAATC-ACTAGCACAAATGC
* *
11429930 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
* *
11429970 CTTCGGGACTTAGCTCGGATATAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
11430010 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
11430028 GTATCATTCA
Statistics
Matches: 148, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
38 4 0.03
39 26 0.18
40 117 0.79
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATGC
Found at i:11437844 original size:20 final size:19
Alignment explanation
Indices: 11437798--11437844 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
11437788 GTAATTCATG
11437798 TTTAATTGCTGAATGGAGT
1 TTTAATTGCTGAATGGAGT
* *
11437817 TTTGAATTGGTAGAATTGAGT
1 TTT-AATTGCT-GAATGGAGT
11437838 TTTAATT
1 TTTAATT
11437845 TTAAGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (19 bp):
TTTAATTGCTGAATGGAGT
Found at i:11440989 original size:46 final size:46
Alignment explanation
Indices: 11440939--11441114 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
11440929 TGGTTGAGCA
11440939 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
11440985 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* * *
11441030 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * *
11441078 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11441115 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 6 0.05
45 3 0.03
46 62 0.56
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:11441095 original size:93 final size:93
Alignment explanation
Indices: 11440936--11441107 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
11440926 GGATGGTTGA
* * *
11440936 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11441001 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
11441029 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11441094 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
11441108 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:11442607 original size:2 final size:2
Alignment explanation
Indices: 11442600--11442643 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
11442590 ATTGAAAGGG
*
11442600 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11442642 AT
1 AT
11442644 GTATTAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11444433 original size:29 final size:27
Alignment explanation
Indices: 11444359--11444448 Score: 83
Period size: 29 Copynumber: 3.2 Consensus size: 27
11444349 GGGTGTTACA
*
11444359 GGCCATATAAATATGGTTTGGGCCTAATG
1 GGCCATAT-AATATGATTT-GGCCTAATG
* **
11444388 GGCCAAATACAGGTGATTTGAGCCTAATG
1 GGCCATATA-ATATGATTTG-GCCTAATG
*
11444417 GGCCATATGAATATGA-TTGGCTTAATG
1 GGCCATAT-AATATGATTTGGCCTAATG
11444444 GGCCA
1 GGCCA
11444449 GATACAGGTA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
27 12 0.24
28 5 0.10
29 32 0.64
30 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GGCCATATAATATGATTTGGCCTAATG
Found at i:11444460 original size:29 final size:31
Alignment explanation
Indices: 11444370--11444460 Score: 79
Period size: 29 Copynumber: 3.1 Consensus size: 31
11444360 GCCATATAAA
* *
11444370 TATGGTTTGGGCCTAATGGGCCAAATACAGG
1 TATGATTTGAGCCTAATGGGCCAAATACAGG
*
11444401 --TGATTTGAGCCTAATGGGCCATATGA-A--
1 TATGATTTGAGCCTAATGGGCCAAAT-ACAGG
* *
11444428 TATGA-TTG-GCTTAATGGGCCAGATACAGG
1 TATGATTTGAGCCTAATGGGCCAAATACAGG
11444457 TATG
1 TATG
11444461 TGAAATTGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
26 1 0.02
27 15 0.31
28 3 0.06
29 29 0.59
30 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (31 bp):
TATGATTTGAGCCTAATGGGCCAAATACAGG
Found at i:11451700 original size:13 final size:13
Alignment explanation
Indices: 11451678--11451711 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11451668 TTTAGTTTAA
*
11451678 TTAGTTAATTAGT
1 TTAGTAAATTAGT
11451691 TTAGTAAATTAGT
1 TTAGTAAATTAGT
*
11451704 TTAATAAA
1 TTAGTAAA
11451712 CAACCCCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (13 bp):
TTAGTAAATTAGT
Found at i:11452227 original size:31 final size:31
Alignment explanation
Indices: 11452163--11452227 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
11452153 ACACGAAGAA
*
11452163 TGAGCAAAAAGACGATACTCAACTGATTACG
1 TGAGCAAAAAGACGATACTCAACTGATCACG
*
11452194 TGAGCAAAAAGACGATACTCAACTGATCGCG
1 TGAGCAAAAAGACGATACTCAACTGATCACG
11452225 TGA
1 TGA
11452228 TTCGTAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (31 bp):
TGAGCAAAAAGACGATACTCAACTGATCACG
Found at i:11456273 original size:28 final size:27
Alignment explanation
Indices: 11456210--11456279 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
11456200 ATAGTGAGTC
*
11456210 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
11456237 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
11456265 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11456280 GTACAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:11464202 original size:28 final size:27
Alignment explanation
Indices: 11464139--11464208 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
11464129 ATAGTGAGTC
11464139 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
11464166 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
11464194 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11464209 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:11473867 original size:12 final size:12
Alignment explanation
Indices: 11473850--11473876 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11473840 GTTTTGTCCC
11473850 TTTTTGGCTCCT
1 TTTTTGGCTCCT
11473862 TTTTTGGCTCCT
1 TTTTTGGCTCCT
11473874 TTT
1 TTT
11473877 GATTCTTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.22, G:0.15, T:0.63
Consensus pattern (12 bp):
TTTTTGGCTCCT
Found at i:11476089 original size:40 final size:40
Alignment explanation
Indices: 11476034--11476239 Score: 245
Period size: 40 Copynumber: 5.2 Consensus size: 40
11476024 AATGATACCT
* *
11476034 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCC
* *
11476074 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCC
* *
11476114 GGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATATCC
* * ** *
11476154 GGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCC
* * * * *
11476194 GGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTGTATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCC
11476234 -GGCTAA
1 GGGCTAA
11476240 ATTTCGAAGA
Statistics
Matches: 143, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 6 0.04
40 135 0.94
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCC
Found at i:11482388 original size:6 final size:6
Alignment explanation
Indices: 11482377--11482420 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
11482367 TCCTCTTATC
* *
11482377 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA ATTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT
11482421 ATTTCCTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:11487630 original size:29 final size:29
Alignment explanation
Indices: 11487598--11487675 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
11487588 ATACCCTCCG
** *
11487598 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
11487627 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
11487656 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
11487676 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:11499780 original size:45 final size:45
Alignment explanation
Indices: 11499715--11499866 Score: 171
Period size: 45 Copynumber: 3.4 Consensus size: 45
11499705 GTGCTGTTAC
*
11499715 AAAGACCATAGCTAAAAGATGTTATGGCATCACGATTCTAACAAG
1 AAAGACCATAGCTGAAAGATGTTATGGCATCACGATTCTAACAAG
* * * *
11499760 AAAGACCATAGCTGAGAGATGTTATGGCATCATGATTCTATCGAG
1 AAAGACCATAGCTGAAAGATGTTATGGCATCACGATTCTAACAAG
* * * * * *
11499805 TAAGATCATAGCTGAAAGATGCTATGACATCACGAATCAAACAA-
1 AAAGACCATAGCTGAAAGATGTTATGGCATCACGATTCTAACAAG
* *
11499849 ATAAGTCCATAGTTGAAA
1 A-AAGACCATAGCTGAAA
11499867 ACACTAAGGC
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
45 87 1.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (45 bp):
AAAGACCATAGCTGAAAGATGTTATGGCATCACGATTCTAACAAG
Found at i:11499934 original size:46 final size:46
Alignment explanation
Indices: 11499848--11500014 Score: 194
Period size: 45 Copynumber: 3.7 Consensus size: 46
11499838 GAATCAAACA
* * *
11499848 AATAAGTCCATAGTTGAAA-ACACTAAGGCAACACGATGGAAAATG
1 AATAAGACCATAGTTGAAAGACACTATGGCAACACAATGGAAAATG
*
11499893 AATAAGACCATAGTTGAAAGACACTATGGAAACACAATGGAAAATG
1 AATAAGACCATAGTTGAAAGACACTATGGCAACACAATGGAAAATG
* * * * * * *
11499939 AAGAAGACCATGGTTGAAAGACACTATGGCATCA-AGTTGAGAATA
1 AATAAGACCATAGTTGAAAGACACTATGGCAACACAATGGAAAATG
* * *
11499984 AATAAAACCATGGTTGAAAGACACCATGGCA
1 AATAAGACCATAGTTGAAAGACACTATGGCA
11500015 CCCTCCGATC
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 53 0.50
46 53 0.50
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (46 bp):
AATAAGACCATAGTTGAAAGACACTATGGCAACACAATGGAAAATG
Found at i:11500950 original size:2 final size:2
Alignment explanation
Indices: 11500943--11500973 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11500933 GAGACTAGTC
11500943 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11500974 CATGTCATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11502632 original size:80 final size:80
Alignment explanation
Indices: 11502548--11502696 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
11502538 TATGGTAACC
* * * *
11502548 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
11502612 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
11502628 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
11502693 CCGG
66 CCGG
11502697 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:11502638 original size:40 final size:38
Alignment explanation
Indices: 11502589--11502696 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
11502579 ATCACGATTT
*
11502589 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
11502629 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
11502669 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
11502697 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:11510750 original size:80 final size:80
Alignment explanation
Indices: 11510666--11510814 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
11510656 TATGGTAACC
* * * *
11510666 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
11510730 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
11510746 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
11510811 CCGG
66 CCGG
11510815 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:11510756 original size:40 final size:38
Alignment explanation
Indices: 11510707--11510814 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
11510697 ATCACGATTT
*
11510707 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
11510747 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
11510787 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
11510815 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:11513543 original size:67 final size:64
Alignment explanation
Indices: 11513420--11513582 Score: 204
Period size: 64 Copynumber: 2.5 Consensus size: 64
11513410 CTCCCGTTGA
* * * *
11513420 ACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGTAGCTCTCTTGTCTACATGGTGT
1 ACACATAGAACCACCCATGTGACCTAGCTACA-TATATCCCGTAGCTCTCTTGTCTACATGGTG-
11513483 CCT
64 --T
* *
11513486 TCACCTAGAACCACCCATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGT
1 ACACATAGAACCACCCATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGT
* *
11513550 ACACATAGTATCACCCATGTGACCTAGCTACAT
1 ACACATAGAACCACCCATGTGACCTAGCTACAT
11513583 CATAATGTCT
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
64 30 0.35
66 25 0.29
67 29 0.34
68 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (64 bp):
ACACATAGAACCACCCATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGT
Found at i:11516967 original size:34 final size:34
Alignment explanation
Indices: 11516922--11516987 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
11516912 GTTTAAGTTA
*
11516922 GGGCCTTAGCCCATATTAGTAACAGTAGCAGTCT
1 GGGCCTGAGCCCATATTAGTAACAGTAGCAGTCT
* *
11516956 GGGCCTGAGCCCATTTTAGTAACAGTATCAGT
1 GGGCCTGAGCCCATATTAGTAACAGTAGCAGT
11516988 GGGGCCTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (34 bp):
GGGCCTGAGCCCATATTAGTAACAGTAGCAGTCT
Found at i:11519752 original size:27 final size:26
Alignment explanation
Indices: 11519722--11520000 Score: 223
Period size: 27 Copynumber: 10.7 Consensus size: 26
11519712 TTAGTTTACC
11519722 AAATTACCAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACC-CTGGTTTGTA
* *
11519749 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCC-TGGTTTGTA
*
11519776 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
* *
11519803 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCC-TGGTTTGTA
*
11519830 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
* *
11519857 AAATTACTAAAATACCCTTGATTT-T-
1 AAATTACCAAAATACCC-TGGTTTGTA
*
11519882 --A-T---AAAATACCCTAGTTTGTA
1 AAATTACCAAAATACCCTGGTTTGTA
* *
11519902 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATA-CCCTGGTTTGTA
* ***
11519929 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCT-GGTTTGTA
*** **
11519956 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCT-GGTTTGTA
* *
11519983 AAACTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
11520001 TGATTTACAA
Statistics
Matches: 206, Mismatches: 31, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
18 4 0.02
19 10 0.05
22 2 0.01
23 2 0.01
26 18 0.09
27 164 0.80
28 6 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (26 bp):
AAATTACCAAAATACCCTGGTTTGTA
Found at i:11519787 original size:54 final size:54
Alignment explanation
Indices: 11519722--11519888 Score: 298
Period size: 54 Copynumber: 3.1 Consensus size: 54
11519712 TTAGTTTACC
* *
11519722 AAATTACCAAAATACCTCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
11519776 AAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
*
11519830 AAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGATTTTATA
1 AAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTG-GTTTATA
11519885 AAAT
1 AAAT
11519889 ACCCTAGTTT
Statistics
Matches: 109, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
54 99 0.91
55 10 0.09
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (54 bp):
AAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Done.