Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 24 of 770
Found at i:6580471 original size:13 final size:13
Alignment explanation
Indices: 6580453--6580477 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6580443 ACATGATTTG
6580453 TTTTTATTTTTTA
1 TTTTTATTTTTTA
6580466 TTTTTATTTTTT
1 TTTTTATTTTTT
6580478 TAATATCATT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:6586289 original size:16 final size:17
Alignment explanation
Indices: 6586258--6586290 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6586248 TTCATAAGTA
6586258 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
6586275 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
6586291 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:6587118 original size:46 final size:46
Alignment explanation
Indices: 6586571--6587119 Score: 744
Period size: 46 Copynumber: 12.0 Consensus size: 46
6586561 TTATCTTTGA
* * * * * *
6586571 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* * *** *
6586617 CAAGTTGCCATGGTATCTTTCAACCATGGTTTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** ** ***
6586663 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
6586708 CATGTTGCCATGGTATTTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
6586754 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * * *
6586800 AATGTTTCTATGGTATCTTTCAACCATGGTTTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
6586846 CATGTTGCCATGG-AGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTA-TCTTTCAACCATGGTCTTACACATTTCATAT
* * *
6586892 CATGTTGCCATGGTGTCTTTCAACCATTGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
6586938 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
6586984 AATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
6587030 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
6587076 CATGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
6587120 TTCAGAAAGC
Statistics
Matches: 451, Mismatches: 48, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
45 42 0.09
46 409 0.91
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:6591880 original size:250 final size:250
Alignment explanation
Indices: 6591428--6591920 Score: 851
Period size: 250 Copynumber: 2.0 Consensus size: 250
6591418 GCTCAGTTCT
* * * *
6591428 AGCTCAACAATTTCACATTCAGCTCAACTTCAGCTCATGAGCTTATTCTTAGCTCAACTTCAGCT
1 AGCTCAACAAGTTCACATCCAACCCAACTTCAGCTCATGAGCTTATTCTTAGCTCAACTTCAGCT
* * *
6591493 CTCGAGCTCGAATTAGATCCTCTCGAGTTGCCCGTAGGACCAATCACCTGAGCCCGAGCCAAGAG
66 CTCGAGCTCGAACTAGATCCTCTCAAGTTGCCCATAGGACCAATCACCTGAGCCCGAGCCAAGAG
*
6591558 GTTCAAAGACGCAATTTTAGCTTTAGTTGATCGAGCTTGGGCCGAATCTATCACCAGCTTACTCG
131 GTTCAAAGACGCAATTTCAGCTTTAGTTGATCGAGCTTGGGCCGAATCTATCACCAGCTTACTCG
*
6591623 AGAGTTCGTGGACTAGCTCAACGAGTCATCCTTGTAATCTCTTTCTAGCTCATCC
196 AGAGTTCGTGGACTAGCTCAACGAGTCATCCTTGTAATCTCTTCCTAGCTCATCC
* * *
6591678 AGCTTAACAAGTTCACATCCAACCCAACTTCAGCTCATGAGCTTGTTCTTAGCTCAACTTTAGCT
1 AGCTCAACAAGTTCACATCCAACCCAACTTCAGCTCATGAGCTTATTCTTAGCTCAACTTCAGCT
* * *
6591743 CTCGAGCTCGGACTAGATCCTCTCAAGTTGCCCATAGGATCGATCACCTGAGCCCGAGCCAAGAG
66 CTCGAGCTCGAACTAGATCCTCTCAAGTTGCCCATAGGACCAATCACCTGAGCCCGAGCCAAGAG
6591808 GTTCAAAGACGCAATTTCAGCTTTAGTTGATCGAGCTTGGGCCGAATCTATCACCAGCTTACTCG
131 GTTCAAAGACGCAATTTCAGCTTTAGTTGATCGAGCTTGGGCCGAATCTATCACCAGCTTACTCG
6591873 AGAGTTCGTGGACTAGCTCAACGAGTCATCCTTGTAATCTCTTCCTAG
196 AGAGTTCGTGGACTAGCTCAACGAGTCATCCTTGTAATCTCTTCCTAG
6591921 GTCGTCCAAC
Statistics
Matches: 228, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
250 228 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (250 bp):
AGCTCAACAAGTTCACATCCAACCCAACTTCAGCTCATGAGCTTATTCTTAGCTCAACTTCAGCT
CTCGAGCTCGAACTAGATCCTCTCAAGTTGCCCATAGGACCAATCACCTGAGCCCGAGCCAAGAG
GTTCAAAGACGCAATTTCAGCTTTAGTTGATCGAGCTTGGGCCGAATCTATCACCAGCTTACTCG
AGAGTTCGTGGACTAGCTCAACGAGTCATCCTTGTAATCTCTTCCTAGCTCATCC
Found at i:6592017 original size:30 final size:30
Alignment explanation
Indices: 6591981--6592075 Score: 102
Period size: 30 Copynumber: 3.2 Consensus size: 30
6591971 TCACATCCAA
* **
6591981 CTCAACTTCAACTCATGAGCTTGTTCTCAG
1 CTCAACTTCAACTCATGAGCTCGGACTCAG
* *
6592011 CTCAACTTCAGCTCTTGAGCTCGGACTCAG
1 CTCAACTTCAACTCATGAGCTCGGACTCAG
* * *
6592041 CTC-ACTTCCAACTCACGAGCTCAGACTTAG
1 CTCAACTT-CAACTCATGAGCTCGGACTCAG
6592071 CTCAA
1 CTCAA
6592076 TTATAGCTCA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
29 4 0.08
30 48 0.91
31 1 0.02
ACGTcount: A:0.24, C:0.34, G:0.15, T:0.27
Consensus pattern (30 bp):
CTCAACTTCAACTCATGAGCTCGGACTCAG
Found at i:6595125 original size:40 final size:40
Alignment explanation
Indices: 6595066--6595234 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
6595056 CGGGACTTTA
* * *
6595066 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
6595106 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
6595146 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
6595186 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
6595226 CCCGGATAT
1 CCCGGATAT
6595235 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:6603160 original size:40 final size:40
Alignment explanation
Indices: 6603101--6603269 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
6603091 CGGGACTTTA
* * *
6603101 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
6603141 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
6603181 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
6603221 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
6603261 CCCGGATAT
1 CCCGGATAT
6603270 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:6605826 original size:37 final size:38
Alignment explanation
Indices: 6605728--6605832 Score: 110
Period size: 37 Copynumber: 2.8 Consensus size: 38
6605718 TGATATTATT
* *
6605728 TTAATAGATTTAATATTAATATTAAT-TT--AATGATTATC
1 TTAATAG-TTTAAT-TTAAT-TTAATATTAAAATAACTATC
**
6605766 TTAATAGTTTCTTATTAATTTAATATTAAAATAACTATC
1 TTAATAGTTTAAT-TTAATTTAATATTAAAATAACTATC
6605805 TTAATA-TTTAATTTAATTTAATATTAAA
1 TTAATAGTTTAATTTAATTTAATATTAAA
6605833 GTCATTAAGT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
36 5 0.09
37 28 0.48
38 11 0.19
39 14 0.24
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (38 bp):
TTAATAGTTTAATTTAATTTAATATTAAAATAACTATC
Found at i:6611432 original size:13 final size:13
Alignment explanation
Indices: 6611416--6611440 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6611406 TTTATTTGAT
6611416 TTGATTATGTAAA
1 TTGATTATGTAAA
6611429 TTGATTATGTAA
1 TTGATTATGTAA
6611441 TCTTGTAAAT
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:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:6613381 original size:22 final size:23
Alignment explanation
Indices: 6613327--6613465 Score: 81
Period size: 24 Copynumber: 5.9 Consensus size: 23
6613317 GAGTCAAGAT
* *
6613327 CAGTAAGCTCCTTCCGAGCTGATGAA
1 CAGTAAGCT-CATACGAGCTGA--AA
*
6613353 CAATAAGCTC-TATCGAGCTGAAA
1 CAGTAAGCTCATA-CGAGCTGAAA
6613376 -AGTAAGCTCATACGAGCTGAAA
1 CAGTAAGCTCATACGAGCTGAAA
* * *
6613398 CGGTAAGCTCCA-ATGAGCTAAAAA
1 CAGTAAGCT-CATACGAGCT-GAAA
* *
6613422 CAGTAAGATCTTA--AGCTGATATA
1 CAGTAAGCTCATACGAGCTGA-A-A
*
6613445 TCGGTAAGCTCATACGAGCTG
1 -CAGTAAGCTCATACGAGCTG
6613466 TGGTGAGTTC
Statistics
Matches: 89, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
21 1 0.01
22 23 0.26
23 19 0.21
24 24 0.27
25 9 0.10
26 13 0.15
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (23 bp):
CAGTAAGCTCATACGAGCTGAAA
Found at i:6616149 original size:67 final size:67
Alignment explanation
Indices: 6615990--6616142 Score: 279
Period size: 67 Copynumber: 2.3 Consensus size: 67
6615980 CTAGCCAGTT
* *
6615990 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCAAGTGACCTAGCTACA
1 TATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCAAGCGACCTAGCTACA
6616055 TA
66 TA
*
6616057 TATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACA
1 TATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCAAGCGACCTAGCTACA
6616122 TA
66 TA
6616124 TATCCCGTAGCTCTCTTGT
1 TATCCCGTAGCTCTCTTGT
6616143 ACACATGATG
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 83 1.00
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.31
Consensus pattern (67 bp):
TATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCAAGCGACCTAGCTACA
TA
Found at i:6616686 original size:30 final size:30
Alignment explanation
Indices: 6616651--6616711 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
6616641 TCCTTAACTC
6616651 AAACTTTGGCAAAATTAAAATTTTGCCCCT
1 AAACTTTGGCAAAATTAAAATTTTGCCCCT
* * * * *
6616681 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTAAAATTTTGCCCCT
6616711 A
1 A
6616712 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):
AAACTTTGGCAAAATTAAAATTTTGCCCCT
Found at i:6619840 original size:39 final size:40
Alignment explanation
Indices: 6619758--6619937 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 40
6619748 GACTCGCTCA
** ** *
6619758 AATGCCTT-GGGACGAAGCCC-GGTTATAGCGACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGGTT-TAGTAACTTGCACG
*
6619797 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC-
1 AATGCCTTCGGGACTTAGCCCGGGTTTAGTAACTTGCACG
* * *
6619836 AATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGGTTTAGTAACTTGCACG
* * * *
6619875 AATGCCTTC-GGATCCTAGTCCGGGTATAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAGCCCGGGTTTAGTAACTT-GCACG
*
6619915 AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
6619938 ACATCATTCG
Statistics
Matches: 114, Mismatches: 20, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
38 24 0.21
39 29 0.25
40 50 0.44
41 11 0.10
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGGTTTAGTAACTTGCACG
Found at i:6619857 original size:78 final size:80
Alignment explanation
Indices: 6619756--6619938 Score: 205
Period size: 78 Copynumber: 2.3 Consensus size: 80
6619746 ACGACTCGCT
** * *
6619756 CAAATGCCTT-GGGACGAAGCCCGG-TTATAGCGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGCAACTCGCACGAATGCCTTC-GGATCCTAACCC
*
6619818 GGGTTTAGTAACTT-GCA
63 GGGTATAGTAACTTAGCA
* ** **
6619835 CAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGGG
1 CAAAGCCTTCGGGACTTAGCCCGGATTTAGCAACTCGCACGAATGCCTTCGGATCCTAACCCGGG
*
6619899 TATAGTCACTTAGCA
66 TATAGTAACTTAGCA
6619914 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
6619939 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
77 3 0.03
78 50 0.57
79 23 0.26
80 11 0.13
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGCAACTCGCACGAATGCCTTCGGATCCTAACCCGGG
TATAGTAACTTAGCA
Found at i:6624163 original size:42 final size:42
Alignment explanation
Indices: 6624051--6624172 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
6624041 TACCGTGGCA
* *
6624051 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
* * * * *
6624093 ATGCCAATAGCCTAGCTATAGTCTTACACG-AAGTCTCATGTCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCG
*
6624136 ATGCCATATCCCAGATATGGTCTTACACATAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
6624173 GTTTCCTAAG
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 31 0.48
43 34 0.52
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:6628066 original size:6 final size:6
Alignment explanation
Indices: 6628032--6628199 Score: 159
Period size: 6 Copynumber: 27.8 Consensus size: 6
6628022 AACCAAAATG
* * * *
6628032 AGAATC AGGATC AAAATT AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
6628080 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
6628129 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
6628177 AGAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAAT
6628200 TACGTGACAG
Statistics
Matches: 133, Mismatches: 16, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
5 10 0.08
6 113 0.85
7 8 0.06
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:6628142 original size:85 final size:85
Alignment explanation
Indices: 6628032--6628193 Score: 288
Period size: 85 Copynumber: 1.9 Consensus size: 85
6628022 AACCAAAATG
* *
6628032 AGAATCAGGATCAAAATTAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAAAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
6628097 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
* *
6628117 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAAAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
6628182 CAGAATCAGAAT
66 CAGAATCAGAAT
6628194 CAGAATTACG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 73 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAAAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGAC
Found at i:6628190 original size:30 final size:30
Alignment explanation
Indices: 6628032--6628193 Score: 221
Period size: 30 Copynumber: 5.6 Consensus size: 30
6628022 AACCAAAATG
* *
6628032 AGAATCAGGATCAAAATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
6628062 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
6628092 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
6628117 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
6628147 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
6628177 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
6628194 CAGAATTACG
Statistics
Matches: 118, Mismatches: 5, Indels: 18
0.84 0.04 0.13
Matches are distributed among these distances:
24 2 0.02
25 19 0.16
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.02
30 89 0.75
31 3 0.03
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:6628399 original size:27 final size:26
Alignment explanation
Indices: 6628342--6628415 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 26
6628332 AGCATGGTTG
* * *
6628342 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
6628368 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
6628395 TCAGAATCAGATAATGTGGCA
1 CCAGAA-CAGATATTGTGGCA
6628416 AACCTACCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.15
27 35 0.85
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:6628609 original size:22 final size:22
Alignment explanation
Indices: 6628581--6628639 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
6628571 TAAATACGTT
6628581 TGGCACGAAGCCATAGTCAAGA
1 TGGCACGAAGCCATAGTCAAGA
6628603 TGGCACGAAGCCATAGTCAAGA
1 TGGCACGAAGCCATAGTCAAGA
*
6628625 TGGCACAAAGCCATA
1 TGGCACGAAGCCATA
6628640 TTTAGGTTGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.37, C:0.24, G:0.25, T:0.14
Consensus pattern (22 bp):
TGGCACGAAGCCATAGTCAAGA
Found at i:6628787 original size:27 final size:26
Alignment explanation
Indices: 6628748--6628810 Score: 81
Period size: 27 Copynumber: 2.4 Consensus size: 26
6628738 TCGATCGGTC
* *
6628748 AACAGATATTGTGATAGAGTCACCAA
1 AACAGATATTGTGACAGAGCCACCAA
* *
6628774 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGACAGAGCCACCAA
6628801 AACAGATATT
1 AACAGATATT
6628811 TGCGGCATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 10 0.31
27 22 0.69
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (26 bp):
AACAGATATTGTGACAGAGCCACCAA
Found at i:6628817 original size:27 final size:26
Alignment explanation
Indices: 6628748--6628827 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 26
6628738 TCGATCGGTC
* ** * *
6628748 AACAGATATTGTGATAGAGTCACCAA
1 AACAGATATTGCGGCAGAGCCACCAG
*
6628774 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGCGGCAGAGCCACCAG
*
6628801 AACAGATATTTGCGGCATAGCCACCAG
1 AACAGATA-TTGCGGCAGAGCCACCAG
6628828 GACGCTTCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.17
27 38 0.83
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
AACAGATATTGCGGCAGAGCCACCAG
Found at i:6629059 original size:27 final size:27
Alignment explanation
Indices: 6629029--6629224 Score: 241
Period size: 27 Copynumber: 7.3 Consensus size: 27
6629019 GGGGCAAAAT
* * *
6629029 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
6629056 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
6629083 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
6629110 GATAATTCTACCCTACACGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
6629137 GGTAATTCTATCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
6629164 AGTAATTCTACCCTA-TAGGTGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
*
6629191 GGAAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
6629218 AGTAATT
1 GGTAATT
6629225 TTACAATCAA
Statistics
Matches: 144, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
26 3 0.02
27 138 0.96
28 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:6629076 original size:54 final size:54
Alignment explanation
Indices: 6629018--6629126 Score: 132
Period size: 54 Copynumber: 2.0 Consensus size: 54
6629008 TTAACACCCT
*
6629018 AGGGGCAAAAT-GGTAATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTAC
1 AGGGG-AAAATCGGT-ATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTAC
* ** * *
6629072 AGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTAC
1 AGGGGAAAATCGGTATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTAC
6629126 A
1 A
6629127 CGGGTATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 41 0.87
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (54 bp):
AGGGGAAAATCGGTATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTAC
Found at i:6629265 original size:27 final size:27
Alignment explanation
Indices: 6629229--6629530 Score: 403
Period size: 27 Copynumber: 11.2 Consensus size: 27
6629219 GTAATTTTAC
*
6629229 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
6629256 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
6629283 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
6629310 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
6629337 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
6629364 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
6629391 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
6629418 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
6629445 AA-CTGAGGGTAAAACGCTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
6629472 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
6629499 AATCGAGAGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
6629526 AATCG
1 AATCG
6629531 GGAGTACTTT
Statistics
Matches: 241, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.01
27 235 0.98
28 3 0.01
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:6634496 original size:22 final size:22
Alignment explanation
Indices: 6634469--6634517 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
6634459 GTCAACATAA
6634469 ATTGTGACAAATTGATAATTTT
1 ATTGTGACAAATTGATAATTTT
6634491 ATTGTGACAAATTGATAATTTT
1 ATTGTGACAAATTGATAATTTT
6634513 ATTGT
1 ATTGT
6634518 CATTCATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.04, G:0.14, T:0.47
Consensus pattern (22 bp):
ATTGTGACAAATTGATAATTTT
Found at i:6636659 original size:51 final size:51
Alignment explanation
Indices: 6636598--6636704 Score: 162
Period size: 51 Copynumber: 2.1 Consensus size: 51
6636588 TTATTTTTAG
* * *
6636598 ATATTGATATATTAGCTCTTCT-AGATCTTTCAACTAATTTTGTACTACCAA
1 ATATTCATATATTAACTCTTCTGA-AGCTTTCAACTAATTTTGTACTACCAA
*
6636649 ATATTCATATATTAACTCTTCTGAAGCTTTCGACTAATTTTGTACTACCAA
1 ATATTCATATATTAACTCTTCTGAAGCTTTCAACTAATTTTGTACTACCAA
6636700 ATATT
1 ATATT
6636705 GGAATAATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (51 bp):
ATATTCATATATTAACTCTTCTGAAGCTTTCAACTAATTTTGTACTACCAA
Found at i:6646924 original size:53 final size:53
Alignment explanation
Indices: 6646856--6646964 Score: 164
Period size: 53 Copynumber: 2.1 Consensus size: 53
6646846 AAATATGCCA
* * *
6646856 TTATTCCTTTATTTTTTTTTATACATTAGATCCAAATTGTGTATGTGTTATGT
1 TTATGCCTTTATTTTTTTTCATACATTAGATCCAAATTGTGTATGTGCTATGT
* * *
6646909 TTATGCCTTTATTTTTTTTCATACATTATATTCGAATTGTGTATGTGCTATGT
1 TTATGCCTTTATTTTTTTTCATACATTAGATCCAAATTGTGTATGTGCTATGT
6646962 TTA
1 TTA
6646965 GGCATGTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.56
Consensus pattern (53 bp):
TTATGCCTTTATTTTTTTTCATACATTAGATCCAAATTGTGTATGTGCTATGT
Found at i:6647256 original size:31 final size:31
Alignment explanation
Indices: 6647221--6647283 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
6647211 GAATTTGATT
6647221 ACTGAACTAAT-AAAAAGTT-TTCATTTAAGTC
1 ACTGAACT-ATCAAAAAGTTCTT-ATTTAAGTC
* *
6647252 ACTGATCTATCTAAAAGTTCTTATTTAAGTC
1 ACTGAACTATCAAAAAGTTCTTATTTAAGTC
6647283 A
1 A
6647284 TTGGGCTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 2 0.07
31 24 0.86
32 2 0.07
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (31 bp):
ACTGAACTATCAAAAAGTTCTTATTTAAGTC
Found at i:6647998 original size:17 final size:18
Alignment explanation
Indices: 6647976--6648017 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
6647966 TTAGATATTG
6647976 TATTAAACTTATT-TTAT
1 TATTAAACTTATTATTAT
* *
6647993 TATTAAATTTGTTATTAT
1 TATTAAACTTATTATTAT
6648011 T-TTAAAC
1 TATTAAAC
6648018 ACATTTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTAAACTTATTATTAT
Found at i:6650248 original size:23 final size:23
Alignment explanation
Indices: 6650222--6650268 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
6650212 TGCAATGAAA
6650222 ATGAGACAATAAGTCAAGATTTT
1 ATGAGACAATAAGTCAAGATTTT
6650245 ATGAGACAATAAGTCAAGATTTT
1 ATGAGACAATAAGTCAAGATTTT
6650268 A
1 A
6650269 ATAAGTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (23 bp):
ATGAGACAATAAGTCAAGATTTT
Found at i:6654974 original size:186 final size:186
Alignment explanation
Indices: 6654660--6655032 Score: 719
Period size: 186 Copynumber: 2.0 Consensus size: 186
6654650 TACACAAAGT
*
6654660 ACAGTGATATATTTTTGTATTTTAAATGGGCCTGACATTATGTGACATACGATTGATAACAAACT
1 ACAGTGATATATTTTTGCATTTTAAATGGGCCTGACATTATGTGACATACGATTGATAACAAACT
6654725 GGTCAGCTTAACAAAAACCACTAGTGGTTGTATACATGTTTGGTTGAAGGAGACTGACATTACTA
66 GGTCAGCTTAACAAAAACCACTAGTGGTTGTATACATGTTTGGTTGAAGGAGACTGACATTACTA
*
6654790 CATCAACTGTCGCATTGGTGAAAGCTAATATTGGTCTTGACGTGTTATGCTCAAGG
131 CATCAACTGTCGCATTGGTGAAAGCTAATATTGGTCTTGACATGTTATGCTCAAGG
*
6654846 ACAGTGATATATTTTTGCATTTTAAATGGGGCTGACATTATGTGACATACGATTGATAACAAACT
1 ACAGTGATATATTTTTGCATTTTAAATGGGCCTGACATTATGTGACATACGATTGATAACAAACT
6654911 GGTCAGCTTAACAAAAACCACTAGTGGTTGTATACATGTTTGGTTGAAGGAGACTGACATTACTA
66 GGTCAGCTTAACAAAAACCACTAGTGGTTGTATACATGTTTGGTTGAAGGAGACTGACATTACTA
6654976 CATCAACTGTCGCATTGGTGAAAGCTAATATTGGTCTTGACATGTTATGCTCAAGG
131 CATCAACTGTCGCATTGGTGAAAGCTAATATTGGTCTTGACATGTTATGCTCAAGG
6655032 A
1 A
6655033 AACTGACATT
Statistics
Matches: 184, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
186 184 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (186 bp):
ACAGTGATATATTTTTGCATTTTAAATGGGCCTGACATTATGTGACATACGATTGATAACAAACT
GGTCAGCTTAACAAAAACCACTAGTGGTTGTATACATGTTTGGTTGAAGGAGACTGACATTACTA
CATCAACTGTCGCATTGGTGAAAGCTAATATTGGTCTTGACATGTTATGCTCAAGG
Found at i:6656756 original size:22 final size:19
Alignment explanation
Indices: 6656714--6656750 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
6656704 ATCTAAGCCC
6656714 TGGTCAAGCTAGTTGAAGG
1 TGGTCAAGCTAGTTGAAGG
6656733 TGGTCAAGCTAGTTGAAG
1 TGGTCAAGCTAGTTGAAG
6656751 AAGGTGCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.11, G:0.35, T:0.27
Consensus pattern (19 bp):
TGGTCAAGCTAGTTGAAGG
Found at i:6661968 original size:62 final size:62
Alignment explanation
Indices: 6661852--6661976 Score: 178
Period size: 62 Copynumber: 2.0 Consensus size: 62
6661842 ACTCATAAAA
* * ***
6661852 TGTATCTTAAGAGAAATTACAAGAATGGCTTCAAGTCTTCTAATAAATTGATATACAAGGTT
1 TGTATCTTAAGAGAAATTACAAGAATGACTTCAAGCCTTCTAATAAACCAATATACAAGGTT
* * *
6661914 TGTATCTTAAGAGAAGTTACAAGAATGACTTCAAGCCTTCTAATAGACCAATATACAATGTT
1 TGTATCTTAAGAGAAATTACAAGAATGACTTCAAGCCTTCTAATAAACCAATATACAAGGTT
6661976 T
1 T
6661977 TCTCAAGTGA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (62 bp):
TGTATCTTAAGAGAAATTACAAGAATGACTTCAAGCCTTCTAATAAACCAATATACAAGGTT
Found at i:6665380 original size:29 final size:28
Alignment explanation
Indices: 6665347--6665474 Score: 103
Period size: 29 Copynumber: 4.4 Consensus size: 28
6665337 CGAGATTGGT
6665347 ACTAAGTGTGCGTGCTGAAAATATATGGC
1 ACTAAGTGTGCGTGCTG-AAATATATGGC
* *
6665376 ACTAAGTGTGCATGCTGGAAATATACGGC
1 ACTAAGTGTGCGTGCT-GAAATATATGGC
** * ***
6665405 ACTGGGTGTGCGAGCTCGAAGGGTATGGC
1 ACTAAGTGTGCGTGCT-GAAATATATGGC
* * * **
6665434 ACTATGTGTGCGGGCTTAAATCGCATGGC
1 ACTAAGTGTGCGTGCTGAAAT-ATATGGC
6665463 ACTAAGTGTGCG
1 ACTAAGTGTGCG
6665475 AAATCGAGTA
Statistics
Matches: 78, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
28 2 0.03
29 75 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (28 bp):
ACTAAGTGTGCGTGCTGAAATATATGGC
Found at i:6667098 original size:35 final size:35
Alignment explanation
Indices: 6667050--6667149 Score: 101
Period size: 35 Copynumber: 2.9 Consensus size: 35
6667040 CTACAGGGCG
* * *
6667050 ACACCATGAAAATGGTCTACTGGCTCTATGGAGCT
1 ACACTATGAAAATGGTTTACTGGCTCTATGGAGCA
* * * * * *
6667085 ATACTATGGAAATGATTTACAGGCTATACGGAGCA
1 ACACTATGAAAATGGTTTACTGGCTCTATGGAGCA
* *
6667120 ACACTATGAAAATGGTTTCCTGACTCTATG
1 ACACTATGAAAATGGTTTACTGGCTCTATG
6667150 AAGTTGGAAA
Statistics
Matches: 48, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (35 bp):
ACACTATGAAAATGGTTTACTGGCTCTATGGAGCA
Found at i:6668611 original size:28 final size:28
Alignment explanation
Indices: 6668580--6668635 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
6668570 TCCTTTTTCC
*
6668580 AAGATAGCCATA-AAGCCTTCCTTTAACA
1 AAGATAGCCACAGAAG-CTTCCTTTAACA
* *
6668608 AAGATTGCCACAGATGCTTCCTTTAACA
1 AAGATAGCCACAGAAGCTTCCTTTAACA
6668636 GAGGTTACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (28 bp):
AAGATAGCCACAGAAGCTTCCTTTAACA
Found at i:6668657 original size:28 final size:28
Alignment explanation
Indices: 6668596--6668659 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
6668586 GCCATAAAGC
* *
6668596 CTTCCTTTAACAAAGATTGCCACAGATG
1 CTTCCTTTAACAAAGATTACCACAAATG
* *
6668624 CTTCCTTTAACAGAGGTTACCACAAATG
1 CTTCCTTTAACAAAGATTACCACAAATG
6668652 -TGTCCTTT
1 CT-TCCTTT
6668660 TCATTAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (28 bp):
CTTCCTTTAACAAAGATTACCACAAATG
Found at i:6670736 original size:39 final size:39
Alignment explanation
Indices: 6670626--6670858 Score: 340
Period size: 39 Copynumber: 5.9 Consensus size: 39
6670616 TCGTTCAAAC
* * ** * *
6670626 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* *
6670666 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
6670706 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
*
6670745 GCCTTCGGGCTTAGCCCAGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
6670784 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
* * *
6670823 GCCTTCCGGCTTAGCCCGGATATCACAATTCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
6670859 TTCATACACA
Statistics
Matches: 178, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 137 0.77
40 41 0.23
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:6677870 original size:39 final size:39
Alignment explanation
Indices: 6677760--6677992 Score: 331
Period size: 39 Copynumber: 5.9 Consensus size: 39
6677750 TCGTTCAAAC
* * ** * *
6677760 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* *
6677800 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
6677840 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
*
6677879 GCCTTCGGGCTTAGCCCAGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
*
6677918 GCCTTCGGGCTTAGCCCGAATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
* * *
6677957 GCCTTCCGGCTTAGCCCGGATATCACAATTCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
6677993 TTCATACACA
Statistics
Matches: 176, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 135 0.77
40 41 0.23
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:6680543 original size:28 final size:28
Alignment explanation
Indices: 6680480--6680563 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
6680470 ACAAGTTTGC
* * *
6680480 TAAAGACTATCTTTAGTGGAATGTCCAT
1 TAAAGACTATCTTAAGTGGAATATCCGT
* * *
6680508 CAAGGACTATCTTAAGTGGAATACCCGT
1 TAAAGACTATCTTAAGTGGAATATCCGT
**
6680536 TAAAGACTATCTTGGGTGGAATATCCGT
1 TAAAGACTATCTTAAGTGGAATATCCGT
6680564 CAGGGATTAA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (28 bp):
TAAAGACTATCTTAAGTGGAATATCCGT
Found at i:6680706 original size:16 final size:17
Alignment explanation
Indices: 6680676--6680710 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6680666 AAGAGATATT
*
6680676 TTGTTGGGGACTATCTA
1 TTGTTGGGGAATATCTA
6680693 TTGTT-GGGAATATCTA
1 TTGTTGGGGAATATCTA
6680709 TT
1 TT
6680711 TAGACGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.20, C:0.09, G:0.26, T:0.46
Consensus pattern (17 bp):
TTGTTGGGGAATATCTA
Found at i:6681596 original size:87 final size:87
Alignment explanation
Indices: 6681450--6681623 Score: 339
Period size: 87 Copynumber: 2.0 Consensus size: 87
6681440 CATATAAGGA
6681450 TTCATCATTGAACTGTTGGAATGTGGTGATCTTATTCCTAAGCTTGGAATTCTTACATAGTGGGA
1 TTCATCATTGAACTGTTGGAATGTGGTGATCTTATTCCTAAGCTTGGAATTCTTACATAGTGGGA
6681515 AGTACTTCATTAAGAATTGCTC
66 AGTACTTCATTAAGAATTGCTC
6681537 TTCATCATTGAACTGTTGGAATGTGGTGATCTTATTCCTAAGCTTGGAATTCTTACATAGTGGGA
1 TTCATCATTGAACTGTTGGAATGTGGTGATCTTATTCCTAAGCTTGGAATTCTTACATAGTGGGA
*
6681602 AGTACTTTATTAAGAATTGCTC
66 AGTACTTCATTAAGAATTGCTC
6681624 ACCCAATTCT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (87 bp):
TTCATCATTGAACTGTTGGAATGTGGTGATCTTATTCCTAAGCTTGGAATTCTTACATAGTGGGA
AGTACTTCATTAAGAATTGCTC
Found at i:6687188 original size:28 final size:28
Alignment explanation
Indices: 6687143--6687197 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
6687133 AGTAGTTAGG
* * *
6687143 CCTGATGGGCTATATGAATGTGATTGGA
1 CCTGATGGGCCATATGAACGAGATTGGA
*
6687171 CCTGATGGGCCATGTGAACGAGATTGG
1 CCTGATGGGCCATATGAACGAGATTGG
6687198 GCCTAAAGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.27
Consensus pattern (28 bp):
CCTGATGGGCCATATGAACGAGATTGGA
Found at i:6687560 original size:27 final size:27
Alignment explanation
Indices: 6687518--6687776 Score: 195
Period size: 27 Copynumber: 9.6 Consensus size: 27
6687508 TAATAAAGAG
*
6687518 AAATTACTGAAATACCCCCAGTTTGTA
1 AAATTACCGAAATACCCCCAGTTTGTA
* *
6687545 AATTTACCGAAGTACCCCC-GATTTGTA
1 AAATTACCGAAATACCCCCAG-TTTGTA
** * *
6687572 AAATTATTGAAATA-CCCTAATTTGTA
1 AAATTACCGAAATACCCCCAGTTTGTA
* * **
6687598 AAATTGCCAAAATACCATCAGTTTGTA
1 AAATTACCGAAATACCCCCAGTTTGTA
* * *
6687625 AAATTATCAAAATACCCTCAGTTTGTA
1 AAATTACCGAAATACCCCCAGTTTGTA
* *
6687652 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCCCAGTTTGTA
*** *
6687679 AAATTATTAAAATACCCTC-GATTTGTA
1 AAATTACCGAAATACCCCCAG-TTTGTA
* * * **
6687706 AAATTACTGAAACA-TCCTTGATTTGTA
1 AAATTACCGAAATACCCCCAG-TTTGTA
* *
6687733 AAATTACTGAAACACCCCC-GATTTGTA
1 AAATTACCGAAATACCCCCAG-TTTGTA
*
6687760 AAATTATCGAAATACCC
1 AAATTACCGAAATACCC
6687777 TTGTAGTGTA
Statistics
Matches: 188, Mismatches: 38, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
26 21 0.11
27 165 0.88
28 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACCGAAATACCCCCAGTTTGTA
Found at i:6687583 original size:54 final size:54
Alignment explanation
Indices: 6687518--6687777 Score: 267
Period size: 54 Copynumber: 4.8 Consensus size: 54
6687508 TAATAAAGAG
* * * *
6687518 AAATTACTGAAATACCCCCAGTTTGTAAATTTACCGAAGTACCCCCGATTTGTA
1 AAATTATTGAAATACCCCCAGTTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * * *
6687572 AAATTATTGAAATA-CCCTAATTTGTAAAATTGCCAAAATACCATC-AGTTTGTA
1 AAATTATTGAAATACCCCCAGTTTGTAAAATTACCGAAATACCCTCGA-TTTGTA
** * *
6687625 AAATTATCAAAATACCCTCAGTTTGTAAAATTACCGAAATACCCTCAATTTGTA
1 AAATTATTGAAATACCCCCAGTTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * * * *
6687679 AAATTATTAAAATACCCTC-GATTTGTAAAATTACTGAAACATCCTTGATTTGTA
1 AAATTATTGAAATACCCCCAG-TTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * *
6687733 AAATTACTGAAACACCCCC-GATTTGTAAAATTATCGAAATACCCT
1 AAATTATTGAAATACCCCCAG-TTTGTAAAATTACCGAAATACCCT
6687778 TGTAGTGTAA
Statistics
Matches: 171, Mismatches: 31, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
52 1 0.01
53 42 0.25
54 127 0.74
55 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATTATTGAAATACCCCCAGTTTGTAAAATTACCGAAATACCCTCGATTTGTA
Found at i:6687704 original size:81 final size:81
Alignment explanation
Indices: 6687565--6687777 Score: 254
Period size: 81 Copynumber: 2.6 Consensus size: 81
6687555 AGTACCCCCG
* ** *
6687565 ATTTGTAAAATTATTGAAATACCCT-AATTTGTAAAATTGCCAAAATACCATCAGTTTGTAAAAT
1 ATTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTATCAAAATACCCTCAGTTTGTAAAAT
6687629 TA-TCAAA-ATACCCTC
66 TACTCAAACAT-CCCTC
* *
6687644 AGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTATTAAAATACCCTC-GATTTGTAAA
1 A-TTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTATCAAAATACCCTCAG-TTTGTAAA
* * *
6687708 ATTACTGAAACATCCTTG
64 ATTACTCAAACATCCCTC
* * * *
6687726 ATTTGTAAAATTACTGAAACACCCCCGATTTGTAAAATTATCGAAATACCCT
1 ATTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTATCAAAATACCCT
6687778 TGTAGTGTAA
Statistics
Matches: 114, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
79 1 0.01
80 23 0.20
81 80 0.70
82 8 0.07
83 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (81 bp):
ATTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTATCAAAATACCCTCAGTTTGTAAAAT
TACTCAAACATCCCTC
Found at i:6687786 original size:27 final size:27
Alignment explanation
Indices: 6687756--6687819 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
6687746 ACCCCCGATT
*
6687756 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATGATCGAAATACCCTTGTAG
*
6687783 TGTAAAATGATCGACATACCCTTGTAG
1 TGTAAAATGATCGAAATACCCTTGTAG
*
6687810 GGTAAAATGA
1 TGTAAAATGA
6687820 CTATTTTGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (27 bp):
TGTAAAATGATCGAAATACCCTTGTAG
Found at i:6690722 original size:46 final size:45
Alignment explanation
Indices: 6690672--6690844 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
6690662 TGGTTGAGCA
6690672 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAG-G
* * * *
6690718 TCCGAACTCGTTGAGTTAAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGAGG
* *
6690763 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AGG
* *
6690811 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
6690845 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 4 0.04
45 3 0.03
46 63 0.59
47 29 0.27
48 4 0.04
50 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGG
Found at i:6690833 original size:93 final size:93
Alignment explanation
Indices: 6690669--6690839 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
6690659 GGATGGTTGA
* ** *
6690669 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
6690734 TAAGTCCGAGTTCGTGAGATGTAACTAG
66 TAAGTCCGAGTTCGTGAGATGTAACTAG
*
6690762 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
*
6690827 TGAGTCCGAGTTC
66 TAAGTCCGAGTTC
6690840 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TAAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:6696314 original size:94 final size:92
Alignment explanation
Indices: 6696125--6696393 Score: 279
Period size: 94 Copynumber: 2.8 Consensus size: 92
6696115 TCATTTGTGT
* * * *
6696125 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTACGAGAGCCACTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CATA-CATGAGAGTCAGTGTAAGACCATGTC
* * *
6696190 TACGACATGGCATCGGTACTGAGACAAGA
64 TGCGACATGGCATCGGCACAGAGACAAGA
* * *
6696219 GCTAGTGTAAGACATGTCTGGGACATGCACCGGC-TACATGATGTGTCAGTATAAGACCATGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATACATGA-GAGTCAGTGTAAGACCATGTCT
* *
6696283 GCGACATGGCATCGGCACAGATACGTTAGA
65 GCGACATGGCATCGGCACAGAGAC--AAGA
* * ** * * *
6696313 GCCAGTGTAAGACCATGACTGGGACATGGCATCAACTTAACGTGAGAGTTAGTGTAAGACCATGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAT-ACATGAGAGTCAGTGTAAGACCATGT
*
6696378 CTGGGACATGGCATCG
63 CTGCGACATGGCATCG
6696394 ACATTATACC
Statistics
Matches: 146, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
91 3 0.02
92 40 0.27
93 1 0.01
94 46 0.32
95 13 0.09
96 5 0.03
97 33 0.23
98 5 0.03
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATACATGAGAGTCAGTGTAAGACCATGTCTG
CGACATGGCATCGGCACAGAGACAAGA
Found at i:6696377 original size:142 final size:137
Alignment explanation
Indices: 6696132--6696387 Score: 320
Period size: 142 Copynumber: 1.8 Consensus size: 137
6696122 TGTGCTAGTG
* * *
6696132 TAAGACATGTCTGGGACATGCATCGGCCATATTACGAGAGCCACTGTAAGACCATGTCTACGACA
1 TAAGACATGTCTGCGACATGCATCGGCCAGATTACGAGAGCCACTGTAAGACCATGACTACGACA
*
6696197 TGGCATCGGTACTGAGACAAGAGCTAGTGTAAGACATGTCTGGGACATGCACCGGCTACATGATG
66 TGGCATC-GAACTGAGACAAGAGCTAGTGTAAGACATGTCTGGGACATGCACCGGCTACATGATG
6696262 TGTCAGTA
130 TGTCAGTA
* *
6696270 TAAGACCATGTCTGCGACATGGCATCGGCACAGA-TACGTTAGAGCCAGTGTAAGACCATGACTG
1 TAAGA-CATGTCTGCGACAT-GCATCGGC-CAGATTACG--AGAGCCACTGTAAGACCATGACTA
* * * *
6696334 GGACATGGCATC-AACTTA-ACGTGAGAGTTAGTGTAAGACCATGTCTGGGACATG
61 CGACATGGCATCGAACTGAGAC--AAGAGCTAGTGTAAGA-CATGTCTGGGACATG
6696388 GCATCGACAT
Statistics
Matches: 100, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
138 5 0.05
139 15 0.15
140 16 0.16
141 17 0.17
142 47 0.47
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (137 bp):
TAAGACATGTCTGCGACATGCATCGGCCAGATTACGAGAGCCACTGTAAGACCATGACTACGACA
TGGCATCGAACTGAGACAAGAGCTAGTGTAAGACATGTCTGGGACATGCACCGGCTACATGATGT
GTCAGTA
Found at i:6696382 original size:47 final size:49
Alignment explanation
Indices: 6696128--6696394 Score: 175
Period size: 47 Copynumber: 5.7 Consensus size: 49
6696118 TTTGTGTGCT
** *
6696128 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATATTAC--GAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACAGA-TACGTGAGAGCC
* ** * * * * *
6696174 ACTGTAAGACCATGTCTACGACATGGCATCGGTACTGAGAC--AAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GAACAGATACGTGAGAGCC
* * * * *
6696222 AGTGTAAGA-CATGTCTGGGACAT-GCA-C---CGGCTACATGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACAGATACGTGA-GAGCC
* * * *
6696266 AGTATAAGACCATGTCTGCGACATGGCATCGGCACAGATACGTTAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GAACAGATACGTGAGAGCC
* ** **
6696316 AGTGTAAGACCATGACTGGGACATGGCATC-AACTTA-ACGTGAGAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAACAGATACGTGAGAGCC
6696363 AGTGTAAGACCATGTCTGGGACATGGCATCGA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA
6696395 CATTATACCC
Statistics
Matches: 169, Mismatches: 38, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
41 4 0.02
43 1 0.01
44 10 0.06
45 14 0.08
46 14 0.08
47 62 0.37
48 24 0.14
49 3 0.02
50 30 0.18
51 7 0.04
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGAACAGATACGTGAGAGCC
Found at i:6704115 original size:49 final size:49
Alignment explanation
Indices: 6703941--6704294 Score: 558
Period size: 49 Copynumber: 7.3 Consensus size: 49
6703931 CCCTTCGGGA
* * * * * *
6703941 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCAGTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
6703988 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
6704035 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6704082 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
6704131 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6704180 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
6704229 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6704278 CTTATCACATATATATA
1 CTTATCACATATATATA
6704295 TCTCATACAT
Statistics
Matches: 289, Mismatches: 14, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 90 0.31
49 198 0.69
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:6714762 original size:40 final size:40
Alignment explanation
Indices: 6714654--6714863 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
6714644 CGGGATTTAA
* * * * *
6714654 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
6714694 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
6714734 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
6714774 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
6714814 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
6714854 CCGGATATAT
1 CCGGATATAT
6714864 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:6722899 original size:40 final size:40
Alignment explanation
Indices: 6722791--6723000 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
6722781 CGGGATTTAA
* * * * *
6722791 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
6722831 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
6722871 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
6722911 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
6722951 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
6722991 CCGGATATAT
1 CCGGATATAT
6723001 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:6734165 original size:40 final size:40
Alignment explanation
Indices: 6734038--6734167 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
6734028 ATGCTGGAAA
* * *
6734038 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
6734078 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
6734118 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
6734158 TTATATCCGG
1 TTATATCCGG
6734168 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:6745179 original size:51 final size:50
Alignment explanation
Indices: 6745103--6745240 Score: 159
Period size: 50 Copynumber: 2.7 Consensus size: 50
6745093 CGAGGTCGCA
* *
6745103 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG-AAACTGAGATCACG
*** ** *** * *
6745154 TGTGTAGTACTAAGTGCAGGCTACTACATGTATTAGATGGTGAGGTTACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAAACTGAGATCACG
6745204 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
6745241 TAGCTTCGGC
Statistics
Matches: 70, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
50 40 0.57
51 30 0.43
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAAACTGAGATCACG
Found at i:6750488 original size:51 final size:50
Alignment explanation
Indices: 6750422--6750558 Score: 159
Period size: 51 Copynumber: 2.7 Consensus size: 50
6750412 TGAGGTCGCA
* *
6750422 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG-AAACTGAGATCACG
* * ** *** * *
6750473 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGAGGTTACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAAACTGAGATCACG
6750523 TGTGTAGTACTAAGTGCA-GCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
6750559 TAGCTTCGGC
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
49 14 0.20
50 26 0.37
51 31 0.44
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAAACTGAGATCACG
Found at i:6754582 original size:79 final size:79
Alignment explanation
Indices: 6754499--6754659 Score: 232
Period size: 79 Copynumber: 2.0 Consensus size: 79
6754489 AAACCGATAG
* * * *
6754499 ATATATAGGGAGTGTGCCTAACACTAGTTAGATAAACTGACAAAGATTTGTGCCCAGCATTAGTC
1 ATATATAGAGAGTGTGCCTAACAATAGTTAGATAAACTGACAAAGATTTGCGCCCAGCACTAGTC
6754564 AGAGAAACTAACAA
66 AGAGAAACTAACAA
* ** *
6754578 ATATATAGAGAGTGTGCCTAGCAATAGTTAGATAAACTGATGAAGATTTGCGCCCAGCGCTAGTC
1 ATATATAGAGAGTGTGCCTAACAATAGTTAGATAAACTGACAAAGATTTGCGCCCAGCACTAGTC
* *
6754643 AGATAAACTGACAA
66 AGAGAAACTAACAA
6754657 ATA
1 ATA
6754660 AAATGTTGTG
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (79 bp):
ATATATAGAGAGTGTGCCTAACAATAGTTAGATAAACTGACAAAGATTTGCGCCCAGCACTAGTC
AGAGAAACTAACAA
Found at i:6754724 original size:75 final size:76
Alignment explanation
Indices: 6754521--6754768 Score: 214
Period size: 75 Copynumber: 3.2 Consensus size: 76
6754511 TGTGCCTAAC
* * * * ** * *
6754521 ACTAGTTAGATAAACTGACAAAGATTTGTGCCCAGCATTAGTCAGAGAAACTAACAAATATATAG
1 ACTAGTCAGATAAACTGACGAAGAGTTGCGCCCAGCGCTAGTCAGATAAACTGACAAATA-A-A-
*
6754586 A-GAGTGTGCCTAGCA
63 ATG-GTGTGCCCAG-A
* * *
6754601 A-TAGTTAGATAAACTGATGAAGATTTGCGCCCAGCGCTAGTCAGATAAACTGACAAATAAAATG
1 ACTAGTCAGATAAACTGACGAAGAGTTGCGCCCAGCGCTAGTCAGATAAACTGACAAATAAAATG
* **
6754665 TTGTGCCCATC
66 GTGTGCCCAGA
* * * * * * *
6754676 ACTAGTCAGATAAATTGACGAA-AGTTGTGCCCAGTGCTAGTCAGATAAATTGATAGATATAATG
1 ACTAGTCAGATAAACTGACGAAGAGTTGCGCCCAGCGCTAGTCAGATAAACTGACAAATAAAATG
*
6754740 GTGTGCCCCGA
66 GTGTGCCCAGA
*
6754751 ACTAGTCAGATAGACTGA
1 ACTAGTCAGATAAACTGA
6754769 AAAAAATTGC
Statistics
Matches: 139, Mismatches: 27, Indels: 9
0.79 0.15 0.05
Matches are distributed among these distances:
75 59 0.42
76 25 0.18
77 2 0.01
78 1 0.01
79 51 0.37
80 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (76 bp):
ACTAGTCAGATAAACTGACGAAGAGTTGCGCCCAGCGCTAGTCAGATAAACTGACAAATAAAATG
GTGTGCCCAGA
Found at i:6757520 original size:42 final size:41
Alignment explanation
Indices: 6757474--6757679 Score: 117
Period size: 42 Copynumber: 4.9 Consensus size: 41
6757464 TGAGTCATCA
*
6757474 TGTAAGACCATATCTGAGATATGGCATTGATATGAGATTTT
1 TGTAAGACCATATCTGAGATATGGCATTGATATGAGATTCT
* ** * * * * * **
6757515 GTGTAAGACTACGTCTGCGACATTGCATCGAAACAAGAATTCT
1 -TGTAAGACCATATCTGAGATATGGCATTGATATGAG-ATTCT
* * * * *
6757558 TATAAGACCATATCTGAGATATGACATTGATGTGAGATCCCA
1 TGTAAGACCATATCTGAGATATGGCATTGATATGAGAT-TCT
* * * * * *
6757600 TGTAAGACCATGTCTGGGACATGG-AGTCGAAATGAGAATTCA
1 TGTAAGACCATATCTGAGATATGGCA-TTGATATGAG-ATTCT
* * * * *
6757642 TATAAGACCATATTTGGGATATGGCATCGATGTGAGAT
1 TGTAAGACCATATCTGAGATATGGCATTGATATGAGAT
6757680 CGCATGTAAG
Statistics
Matches: 118, Mismatches: 41, Indels: 11
0.69 0.24 0.06
Matches are distributed among these distances:
41 5 0.04
42 106 0.90
43 7 0.06
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (41 bp):
TGTAAGACCATATCTGAGATATGGCATTGATATGAGATTCT
Found at i:6757578 original size:84 final size:84
Alignment explanation
Indices: 6757471--6757706 Score: 267
Period size: 84 Copynumber: 2.8 Consensus size: 84
6757461 GTATGAGTCA
* * **** *
6757471 TCATGTAAGACCATATCTGAGATATGGCATTGATATGAGATTTTGTGTAAGACTACGTCTGCGAC
1 TCATATAAGACCATATCTGAGATATGGCATTGATGTGAGATCCCATGTAAGACCACGTCTGCGAC
6757536 ATTGCA-TCGAAACAAGAAT
66 A-TGCAGTCGAAACAAGAAT
* * * *
6757555 TCTTATAAGACCATATCTGAGATATGACATTGATGTGAGATCCCATGTAAGACCATGTCTGGGAC
1 TCATATAAGACCATATCTGAGATATGGCATTGATGTGAGATCCCATGTAAGACCACGTCTGCGAC
* **
6757620 ATGGAGTCGAAATGAGAAT
66 ATGCAGTCGAAACAAGAAT
* * * * * * *
6757639 TCATATAAGACCATATTTGGGATATGGCATCGATGTGAGATCGCATGTAAGGCCACGTTTGGGAC
1 TCATATAAGACCATATCTGAGATATGGCATTGATGTGAGATCCCATGTAAGACCACGTCTGCGAC
6757704 ATG
66 ATG
6757707 GCGTTGGCAT
Statistics
Matches: 128, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
83 3 0.02
84 125 0.98
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (84 bp):
TCATATAAGACCATATCTGAGATATGGCATTGATGTGAGATCCCATGTAAGACCACGTCTGCGAC
ATGCAGTCGAAACAAGAAT
Found at i:6757700 original size:42 final size:42
Alignment explanation
Indices: 6757586--6757708 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 42
6757576 ATATGACATT
*
6757586 GATGTGAGATCCCATGTAAGACCATGTCTGGGACATGG-AGTC
1 GATGTGAGATCCCATGTAAGACCATGTTTGGGACATGGCA-TC
** * * * *
6757628 GAAATGAGAAT-TCATATAAGACCATATTTGGGATATGGCATC
1 GATGTGAG-ATCCCATGTAAGACCATGTTTGGGACATGGCATC
* * *
6757670 GATGTGAGATCGCATGTAAGGCCACGTTTGGGACATGGC
1 GATGTGAGATCCCATGTAAGACCATGTTTGGGACATGGC
6757709 GTTGGCATCT
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
41 2 0.03
42 58 0.92
43 3 0.05
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (42 bp):
GATGTGAGATCCCATGTAAGACCATGTTTGGGACATGGCATC
Found at i:6760301 original size:40 final size:40
Alignment explanation
Indices: 6760257--6760360 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
6760247 TTATCTGGAT
* *
6760257 TAAGACCCGAAGGCAATT-GTGCTAGTAGCTATATCCGGGC
1 TAAGACCCGAAGGC-ATTCGTGCAAGTAGCTAAATCCGGGC
* *
6760297 TAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGC
1 TAAGACCCGAAGGCATTCGTGCAAGTAGCTAAATCCGGGC
* *
6760337 TAAGACCCGAAGGCGTTTGTGCAA
1 TAAGACCCGAAGGCATTCGTGCAA
6760361 ATCGTGAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 3 0.05
40 54 0.95
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (40 bp):
TAAGACCCGAAGGCATTCGTGCAAGTAGCTAAATCCGGGC
Found at i:6760371 original size:40 final size:40
Alignment explanation
Indices: 6760289--6760390 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 40
6760279 TAGTAGCTAT
* * *
6760289 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCGTGAA
* *
6760329 ATCCGGGCTAAGACCCGAAGGCGTTTGTGCAAATCGTGAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCGTGAA
* * *
6760369 ATCCGGGTTAAGTCCCGTAGGC
1 ATCCGGGCTAAGACCCGAAGGC
6760391 CTTGGTGCGG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCGTGAA
Found at i:6770293 original size:39 final size:38
Alignment explanation
Indices: 6770235--6770407 Score: 129
Period size: 39 Copynumber: 4.5 Consensus size: 38
6770225 AAATTGAATG
*
6770235 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAAAT-T
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCT--AATCT
* * * *
6770274 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAAT-CT
* * *
6770313 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGT-T
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAATCT
* * * * *
6770349 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAATC-T
* *
6770388 GATATCCGGGTTAAGTCCCG
1 -ATATCCGGGCTAAGACCCG
6770408 TAGGCCTTGG
Statistics
Matches: 114, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
36 28 0.25
37 6 0.05
38 6 0.05
39 58 0.51
40 16 0.14
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (38 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAATCT
Found at i:6770361 original size:36 final size:36
Alignment explanation
Indices: 6770273--6770381 Score: 148
Period size: 36 Copynumber: 2.9 Consensus size: 36
6770263 ATGCTGAAAT
*
6770273 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-AGT-C
6770312 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGT-
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCAGTC
*
6770348 TTTATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCA
6770382 AATCGTGATA
Statistics
Matches: 66, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
36 30 0.45
37 2 0.03
38 6 0.09
39 28 0.42
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (36 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCAGTC
Found at i:6779458 original size:2 final size:2
Alignment explanation
Indices: 6779451--6779478 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6779441 GCTCTTGCAC
6779451 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6779479 GTTTGCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6780293 original size:40 final size:40
Alignment explanation
Indices: 6780185--6780368 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
6780175 TCGAATGATG
* * *
6780185 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
*
6780226 -CCGGACTAAGAT--CGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
6780264 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
6780304 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
6780345 -CCGG-GTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
6780369 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
38 2 0.02
39 44 0.35
40 77 0.61
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:6780386 original size:79 final size:79
Alignment explanation
Indices: 6780238--6780391 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 79
6780228 GGACTAAGAT
**
6780238 CGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 CGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAA
6780303 ATCCGGGTTAAGTCC
66 ATCC-GGTTAAGTCC
* *
6780318 CGAAGGCA-TCTGTGCGAGTTACTATAA-CCGG-GTATG-TCCCGAAGGCATTTGAACGAG-TAG
1 CGAAGGCATTC-GTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTTA-
*
6780378 CTATATCCGGTTAA
62 CTAAATCCGGTTAA
6780392 ACTCCGAAGG
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
78 9 0.14
79 29 0.45
80 25 0.38
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CGAAGGCATTCGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGTTAAGTCC
Found at i:6785290 original size:28 final size:28
Alignment explanation
Indices: 6785229--6785326 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
6785219 TCACAAATTG
** * *
6785229 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
6785258 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
6785286 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
6785314 GCACTAAGTGTGC
1 GCACTAAGTGTGC
6785327 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:6791740 original size:42 final size:42
Alignment explanation
Indices: 6791689--6791890 Score: 122
Period size: 42 Copynumber: 4.8 Consensus size: 42
6791679 GTGTTGATAT
* *
6791689 GAGATTTCGTGTAAGACCACGTCTGGGACATGGCATCGAAGC
1 GAGAATTCGTGTAAGACCACATCTGGGACATGGCATCGAAGC
* * ** * *
6791731 GAGAATTCGTATAAGACCAAATCTGGGTTATGGCATCGATGT
1 GAGAATTCGTGTAAGACCACATCTGGGACATGGCATCGAAGC
* * ** * * * * * *
6791773 GAG-ATCCCATGTAAGACCATGTTTGGCACATGACGTTGAAAC
1 GAGAAT-TCGTGTAAGACCACATCTGGGACATGGCATCGAAGC
* * * * *
6791815 GATAATTCGTATAAGACCATATCTGGGATATGGCATC--AGT
1 GAGAATTCGTGTAAGACCACATCTGGGACATGGCATCGAAGC
* * *
6791855 GTGAGATTCCATGTAAGACCACATCTAGGACATGGC
1 GAGA-ATT-CGTGTAAGACCACATCTGGGACATGGC
6791891 GTTGGCATCT
Statistics
Matches: 113, Mismatches: 43, Indels: 8
0.69 0.26 0.05
Matches are distributed among these distances:
40 3 0.03
41 5 0.04
42 103 0.91
43 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (42 bp):
GAGAATTCGTGTAAGACCACATCTGGGACATGGCATCGAAGC
Found at i:6791888 original size:84 final size:84
Alignment explanation
Indices: 6791658--6791894 Score: 262
Period size: 84 Copynumber: 2.8 Consensus size: 84
6791648 AGTTATCATG
* * ** * * * * *
6791658 TAAGACCATACCTGGGATATGGTGTTGATATGAGATTTCGTGTAAGACCACGTCTGGGACATGGC
1 TAAGACCAAATCTGGGATATGGCATCGATGTGAGATTCCATGTAAGACCACGTCTAGGACATGGC
* * *
6791723 ATCGAAGCGAGAATTCGTA
66 GTTGAAACGAGAATTCGTA
* * * * *
6791742 TAAGACCAAATCTGGGTTATGGCATCGATGTGAGATCCCATGTAAGACCATGT-TTGGCACATGA
1 TAAGACCAAATCTGGGATATGGCATCGATGTGAGATTCCATGTAAGACCACGTCTAGG-ACATGG
*
6791806 CGTTGAAACGATAATTCGTA
65 CGTTGAAACGAGAATTCGTA
* *
6791826 TAAGACCATATCTGGGATATGGCATC-AGTGTGAGATTCCATGTAAGACCACATCTAGGACATGG
1 TAAGACCAAATCTGGGATATGGCATCGA-TGTGAGATTCCATGTAAGACCACGTCTAGGACATGG
6791890 CGTTG
65 CGTTG
6791895 GCATCTTATT
Statistics
Matches: 126, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
83 4 0.03
84 119 0.94
85 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (84 bp):
TAAGACCAAATCTGGGATATGGCATCGATGTGAGATTCCATGTAAGACCACGTCTAGGACATGGC
GTTGAAACGAGAATTCGTA
Found at i:6793186 original size:20 final size:20
Alignment explanation
Indices: 6793140--6793178 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
6793130 TAAAGACATG
6793140 AGCGTGTCCCAAGCCACACA
1 AGCGTGTCCCAAGCCACACA
6793160 AGCGTGTCCCAAGCCACAC
1 AGCGTGTCCCAAGCCACAC
6793179 GGGCGTGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.41, G:0.21, T:0.10
Consensus pattern (20 bp):
AGCGTGTCCCAAGCCACACA
Found at i:6795870 original size:66 final size:65
Alignment explanation
Indices: 6795748--6795986 Score: 193
Period size: 68 Copynumber: 3.6 Consensus size: 65
6795738 TCTCTTGCAC
* * * * * *
6795748 ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGT-TTATCTCGTAGCTCTCTTGTC
1 ACATGGTGTACACATAGAACCACACATGCGACCTAGCTACA-TCATATCTCGTAGCTCTCTTGTC
6795810 T
65 T
* * *
6795811 ACATGGTGCCTTCACCTGGAACCACACATGCGACCTAGCTACAT-ATATCTCGTAGCTCTCTTGT
1 ACATGGTG--TACACATAGAACCACACATGCGACCTAGCTACATCATATCTCGTAGCTCTCTTGT
6795875 CT
64 CT
* * * *
6795877 ACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATCATAATGTCTCGTAGCTCTCTTG
1 ACATGGTGTACACATAGAACCACACATGCGACCTAGCTACATCAT-A--TCTCGTAGCTCTCTTG
6795942 TAC-
63 T-CT
* * ** * *
6795945 ACATGATGTGCAC-TCAGCGCCATACATGTGACCTAGCTACAT
1 ACATGGTGTACACAT-AGAACCACACATGCGACCTAGCTACAT
6795987 ACCATCTGTA
Statistics
Matches: 144, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
63 8 0.06
64 27 0.19
65 24 0.17
66 31 0.22
67 3 0.02
68 50 0.35
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (65 bp):
ACATGGTGTACACATAGAACCACACATGCGACCTAGCTACATCATATCTCGTAGCTCTCTTGTCT
Found at i:6796482 original size:30 final size:30
Alignment explanation
Indices: 6796448--6796508 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
6796438 TCCTTAACTC
6796448 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
6796478 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
6796508 A
1 A
6796509 GGCTCTGGAA
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:6799236 original size:44 final size:46
Alignment explanation
Indices: 6799123--6799244 Score: 151
Period size: 44 Copynumber: 2.7 Consensus size: 46
6799113 GGGATAAGAT
* *
6799123 GTCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAA
1 GTCGACACCATGTCCCAGACA-GGTCTTACACTGACTAGCACAT-AAA
**
6799171 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACATA-CA-AT-AA
1 GTCGACACCATGTCCCAGACAGGTCTTACACTGAC-TAGCACATAAA
*
6799215 GTTGACACCATGTCCCAGACAGGTCTTACA
1 GTCGACACCATGTCCCAGACAGGTCTTACA
6799245 ATAGCTTGTA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
44 29 0.43
46 2 0.03
47 15 0.22
48 22 0.32
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
GTCGACACCATGTCCCAGACAGGTCTTACACTGACTAGCACATAAA
Found at i:6799317 original size:46 final size:46
Alignment explanation
Indices: 6799263--6799389 Score: 161
Period size: 46 Copynumber: 2.8 Consensus size: 46
6799253 TATATCTCGA
*
6799263 GGCCGATGCATGACCTAGACATGTCCTACACTAGCTCTCATCTCAT-T
1 GGCCGATGCATGACCTAGACATGTCTTACACTAGCTCTCAT-T-ATGT
* * *
6799310 -GCTGATGCATGTCCTAGACATGTCTTACACTGGCTCTCATTATGT
1 GGCCGATGCATGACCTAGACATGTCTTACACTAGCTCTCATTATGT
*
6799355 GGCCGATGCAT-ATCCCAGACATGTCTTACACTAGC
1 GGCCGATGCATGA-CCTAGACATGTCTTACACTAGC
6799390 ACATATATCA
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
44 2 0.03
45 2 0.03
46 65 0.94
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
GGCCGATGCATGACCTAGACATGTCTTACACTAGCTCTCATTATGT
Found at i:6801627 original size:23 final size:22
Alignment explanation
Indices: 6801562--6801641 Score: 79
Period size: 23 Copynumber: 3.5 Consensus size: 22
6801552 GAGATGATGG
*
6801562 ACAGTAAGCTCTATTGAGCTGAA
1 ACAGTAAGCTCTA-CGAGCTGAA
* *
6801585 ACAGTAAGCTTTGACAAGCTGAA
1 ACAGTAAGCTCT-ACGAGCTGAA
*
6801608 TCAGTAAGCTCATACGAGCTGAGA
1 ACAGTAAGCTC-TACGAGCTGA-A
*
6801632 ATAGTAAGCT
1 ACAGTAAGCT
6801642 TATAAGCTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
23 35 0.76
24 11 0.24
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (22 bp):
ACAGTAAGCTCTACGAGCTGAA
Found at i:6815536 original size:24 final size:24
Alignment explanation
Indices: 6815507--6815621 Score: 203
Period size: 24 Copynumber: 4.8 Consensus size: 24
6815497 CTTATTATGT
**
6815507 TCGCACACATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
*
6815531 TTGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
6815555 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
6815579 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
6815603 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
6815622 TATTTCCAGC
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 87 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:6815646 original size:29 final size:29
Alignment explanation
Indices: 6815604--6815677 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
6815594 CATAGTAAAT
*
6815604 CGCACACATAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
6815633 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
6815662 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
6815678 ATCTCGTCAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:6821331 original size:40 final size:40
Alignment explanation
Indices: 6821226--6821600 Score: 523
Period size: 40 Copynumber: 9.5 Consensus size: 40
6821216 CGGATGATAA
* *
6821226 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
6821266 CTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
6821305 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
6821345 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
6821385 CCGGGCTAAG-CCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
6821424 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
6821463 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
6821503 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
6821543 CTGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
6821583 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
6821601 TACTTGGTTT
Statistics
Matches: 311, Mismatches: 18, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
39 125 0.40
40 186 0.60
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:6821433 original size:119 final size:119
Alignment explanation
Indices: 6821222--6821567 Score: 563
Period size: 119 Copynumber: 2.9 Consensus size: 119
6821212 TATTCGGATG
*
6821222 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
6821287 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
6821341 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
* *
6821406 TTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
66 TTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
6821459 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGC
* *
6821523 ATTTGTGCGAGTTACTATAACTGGGCTAAGTCCCGAAGGCATTTG
64 ATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
6821568 AGCAAGTAGC
Statistics
Matches: 211, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
117 2 0.01
118 73 0.35
119 121 0.57
120 15 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:6821525 original size:158 final size:159
Alignment explanation
Indices: 6821222--6821567 Score: 624
Period size: 158 Copynumber: 2.2 Consensus size: 159
6821212 TATTCGGATG
*
6821222 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
6821287 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCT
66 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCT
*
6821352 AAGTCCCGAAGGCATTTGTGCTAGTGACT
131 AAGTCCCGAAGGCATTTGTGCGAGTGACT
*
6821381 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCA
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCA
6821444 TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGC
65 TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGC
*
6821509 TAAGTCCCGAAGGCATTTGTGCGAGTTACT
130 TAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
6821539 ATAACTGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
6821568 AGCAAGTAGC
Statistics
Matches: 178, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
158 152 0.85
159 26 0.15
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (159 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCT
AAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:6825539 original size:40 final size:40
Alignment explanation
Indices: 6825495--6825752 Score: 313
Period size: 40 Copynumber: 6.5 Consensus size: 40
6825485 TCATTGGGCG
* *
6825495 AAGAATGATATATGAAATGGTTATTTGAATCGGTTATGTA
1 AAGAATGATATATGAAATGGTTATATGAATCGGTTATATA
* * *
6825535 AAGAATGATATGTGAAATGGTTATATGAATCGGTTATGTC
1 AAGAATGATATATGAAATGGTTATATGAATCGGTTATATA
* * *
6825575 AAGAATGATATATTAAATGGTTATATGAATTGGTTATATG
1 AAGAATGATATATGAAATGGTTATATGAATCGGTTATATA
**
6825615 AAGAATGATATATGAAATGGTTATACAAATCGGTTATATA
1 AAGAATGATATATGAAATGGTTATATGAATCGGTTATATA
* * **
6825655 AAAAATGATATATGAAATGGTTATACGAATCACTTATATGA
1 AAGAATGATATATGAAATGGTTATATGAATCGGTTATAT-A
* ** *
6825696 AA-AATGATATATGAATTGGTTATATGAATTAGTTATATG
1 AAGAATGATATATGAAATGGTTATATGAATCGGTTATATA
*
6825735 GA-AATAGATATATGAAAT
1 AAGAAT-GATATATGAAAT
6825753 AGAACATTGG
Statistics
Matches: 192, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 4 0.02
40 185 0.96
41 3 0.02
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.36
Consensus pattern (40 bp):
AAGAATGATATATGAAATGGTTATATGAATCGGTTATATA
Found at i:6825608 original size:13 final size:13
Alignment explanation
Indices: 6825503--6825752 Score: 95
Period size: 13 Copynumber: 18.8 Consensus size: 13
6825493 CGAAGAATGA
6825503 TATATGAAATGGT
1 TATATGAAATGGT
*
6825516 TATTTG-AATCGGT
1 TATATGAAAT-GGT
* * *
6825529 TATGTAAAGAAT-GA
1 TATAT-GA-AATGGT
*
6825543 TATGTGAAATGGT
1 TATATGAAATGGT
6825556 TATATG-AATCGGT
1 TATATGAAAT-GGT
* * *
6825569 TATGTCAAGAAT-GA
1 TATAT-GA-AATGGT
*
6825583 TATATTAAATGGT
1 TATATGAAATGGT
*
6825596 TATATGAATTGGT
1 TATATGAAATGGT
*
6825609 TATATGAAGAAT-GA
1 TATATG-A-AATGGT
6825623 TATATGAAATGGT
1 TATATGAAATGGT
*
6825636 TATA-CAAATCGGT
1 TATATGAAAT-GGT
* *
6825649 TATATAAAAAAT-GA
1 TATAT--GAAATGGT
6825663 TATATGAAATGGT
1 TATATGAAATGGT
* **
6825676 TATACG-AATCACT
1 TATATGAAAT-GGT
*
6825689 TATATGAAAAAT-GA
1 TATATG--AAATGGT
*
6825703 TATATGAATTGGT
1 TATATGAAATGGT
* *
6825716 TATATGAATTAGT
1 TATATGAAATGGT
* *
6825729 TATATGGAAATAGA
1 TATAT-GAAATGGT
6825743 TATATGAAAT
1 TATATGAAAT
6825753 AGAACATTGG
Statistics
Matches: 179, Mismatches: 34, Indels: 48
0.69 0.13 0.18
Matches are distributed among these distances:
12 29 0.16
13 93 0.52
14 42 0.23
15 2 0.01
16 13 0.07
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.36
Consensus pattern (13 bp):
TATATGAAATGGT
Found at i:6825707 original size:120 final size:120
Alignment explanation
Indices: 6825494--6825752 Score: 358
Period size: 120 Copynumber: 2.2 Consensus size: 120
6825484 TTCATTGGGC
*** * * *
6825494 GAAGAATGATATATGAAATGGTTATTTGAATCGGTTATGTAAAGAATGATATGTGAAATGGTTAT
1 GAAGAATGATATATGAAATGGTTATACAAATCGGTTATATAAAAAATGATATATGAAATGGTTAT
* ** * * * *
6825559 ATGAATCGGTTATGTCAAGAATGATATATTAAATGGTTATATGAATTGGTTATAT
66 ACGAATCACTTATATCAAAAATGATATATGAAATGGTTATATGAATTAGTTATAT
6825614 GAAGAATGATATATGAAATGGTTATACAAATCGGTTATATAAAAAATGATATATGAAATGGTTAT
1 GAAGAATGATATATGAAATGGTTATACAAATCGGTTATATAAAAAATGATATATGAAATGGTTAT
* *
6825679 ACGAATCACTTATATGAAAAATGATATATGAATTGGTTATATGAATTAGTTATAT
66 ACGAATCACTTATATCAAAAATGATATATGAAATGGTTATATGAATTAGTTATAT
*
6825734 GGA-AATAGATATATGAAAT
1 GAAGAAT-GATATATGAAAT
6825753 AGAACATTGG
Statistics
Matches: 122, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
119 3 0.02
120 119 0.98
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.36
Consensus pattern (120 bp):
GAAGAATGATATATGAAATGGTTATACAAATCGGTTATATAAAAAATGATATATGAAATGGTTAT
ACGAATCACTTATATCAAAAATGATATATGAAATGGTTATATGAATTAGTTATAT
Found at i:6827483 original size:43 final size:43
Alignment explanation
Indices: 6827436--6827537 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
6827426 ACCATTGTCC
* * * *
6827436 CAGACAGGGTCTTACACAAAATC-GATTAACGATGCCAATGGCT
1 CAGACATGGTCTTACACAAAATCTCAGT-ACAATGCCAATGGCT
* *
6827479 CAGACATGGTCTTACACATAATCTCAGTACAATGCCAATGTCT
1 CAGACATGGTCTTACACAAAATCTCAGTACAATGCCAATGGCT
*
6827522 CAGATATGGTCTTACA
1 CAGACATGGTCTTACA
6827538 TGTAATCACA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 49 0.96
44 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (43 bp):
CAGACATGGTCTTACACAAAATCTCAGTACAATGCCAATGGCT
Found at i:6830638 original size:4 final size:4
Alignment explanation
Indices: 6830629--6830696 Score: 79
Period size: 4 Copynumber: 17.0 Consensus size: 4
6830619 TCATGGAAAT
*
6830629 TTTC TTTC -TT- TTTC TCTC ATTTTC TTTC -TTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC -T-TTC TTTC TTTC TTTC TTTC TTTC TTTC
6830676 TTTC TTTC TTTC TTCTC TTTC
1 TTTC TTTC TTTC TT-TC TTTC
6830697 CTTTTTTATT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
3 7 0.12
4 41 0.73
5 6 0.11
6 2 0.04
ACGTcount: A:0.01, C:0.26, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTC
Found at i:6830712 original size:21 final size:21
Alignment explanation
Indices: 6830651--6830712 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
6830641 TCTCTCATTT
*
6830651 TCTTTC-TTCTTTCTTTCTT-
1 TCTTTCTTTCTTTATTTCTTC
*
6830670 TCTTTCTTTCTTTCTTTCTTC
1 TCTTTCTTTCTTTATTTCTTC
*
6830691 TCTTTCCTTT-TTTATTTTTTC
1 TCTTT-CTTTCTTTATTTCTTC
6830712 T
1 T
6830713 ACCCCAAGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.16
20 13 0.34
21 15 0.39
22 4 0.11
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (21 bp):
TCTTTCTTTCTTTATTTCTTC
Found at i:6836150 original size:3 final size:3
Alignment explanation
Indices: 6836142--6836173 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6836132 AGCATTAAAA
6836142 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6836174 ATAATTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:6839359 original size:23 final size:25
Alignment explanation
Indices: 6839311--6839360 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
6839301 ATTGTAAAAA
* *
6839311 ATAATTTATATGTTATAAAATTGTT
1 ATAATATATATGTTATAAAATAGTT
6839336 ATAATATATAT-TTATAAAA-AGTT
1 ATAATATATATGTTATAAAATAGTT
6839359 AT
1 AT
6839361 GACTAAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 8 0.35
25 10 0.43
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (25 bp):
ATAATATATATGTTATAAAATAGTT
Found at i:6841585 original size:2 final size:2
Alignment explanation
Indices: 6841578--6841604 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6841568 AATAAAATAC
6841578 TA 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 TA T
6841605 TATGTTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6848202 original size:18 final size:19
Alignment explanation
Indices: 6848175--6848214 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
6848165 TAAATTTAAA
6848175 AAATTGAAAATAATA-TAG
1 AAATTGAAAATAATATTAG
* *
6848193 AAATTTAAAATTATATTAG
1 AAATTGAAAATAATATTAG
6848212 AAA
1 AAA
6848215 GTAAATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (19 bp):
AAATTGAAAATAATATTAG
Found at i:6848698 original size:21 final size:21
Alignment explanation
Indices: 6848649--6848700 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
6848639 TAACTTATTA
*
6848649 ATGCTAATAATTTTCATTCTTG
1 ATGCTACTAATTTT-ATTCTTG
*
6848671 TTGCTACTAATTTT-TTCTTAG
1 ATGCTACTAATTTTATTCTT-G
6848692 ATGCTACTA
1 ATGCTACTA
6848701 TTGGATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 9 0.35
22 12 0.46
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (21 bp):
ATGCTACTAATTTTATTCTTG
Found at i:6854784 original size:31 final size:31
Alignment explanation
Indices: 6854748--6854883 Score: 245
Period size: 31 Copynumber: 4.4 Consensus size: 31
6854738 GTGGTTTGGG
6854748 ACACGTCCGTGTGGGCAGGCCGTGTGGCCAC
1 ACACGTCCGTGTGGGCAGGCCGTGTGGCCAC
6854779 ACACGTCCGTGTGGGCAGGCCGTGTGGCCAC
1 ACACGTCCGTGTGGGCAGGCCGTGTGGCCAC
*
6854810 ACACGTCCGTGTGGGCAGGCCGTGTGGTCAC
1 ACACGTCCGTGTGGGCAGGCCGTGTGGCCAC
*
6854841 ACACGTCCGTGTGGGCAGGCCGTGTGGTCAC
1 ACACGTCCGTGTGGGCAGGCCGTGTGGCCAC
*
6854872 ACACGCCCGTGT
1 ACACGTCCGTGT
6854884 CCCTAACCCG
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 103 1.00
ACGTcount: A:0.13, C:0.32, G:0.38, T:0.18
Consensus pattern (31 bp):
ACACGTCCGTGTGGGCAGGCCGTGTGGCCAC
Found at i:6854790 original size:18 final size:18
Alignment explanation
Indices: 6854767--6854823 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
6854757 TGTGGGCAGG
6854767 CCGTGTGGCCACACACGT
1 CCGTGTGGCCACACACGT
* *
6854785 CCGTGTGG----GCA-GG
1 CCGTGTGGCCACACACGT
6854798 CCGTGTGGCCACACACGT
1 CCGTGTGGCCACACACGT
6854816 CCGTGTGG
1 CCGTGTGG
6854824 GCAGGCCGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
13 9 0.30
14 2 0.07
17 2 0.07
18 17 0.57
ACGTcount: A:0.12, C:0.33, G:0.37, T:0.18
Consensus pattern (18 bp):
CCGTGTGGCCACACACGT
Found at i:6856950 original size:16 final size:16
Alignment explanation
Indices: 6856929--6856960 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6856919 ATTTTCTACC
6856929 ATTAAACATCAAAATA
1 ATTAAACATCAAAATA
6856945 ATTAAACATCAAAATA
1 ATTAAACATCAAAATA
6856961 CACACATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.25
Consensus pattern (16 bp):
ATTAAACATCAAAATA
Found at i:6861522 original size:42 final size:42
Alignment explanation
Indices: 6861457--6861737 Score: 343
Period size: 42 Copynumber: 6.9 Consensus size: 42
6861447 CGAGATTATA
* **
6861457 ATTCGTGTAAGACTATGCCTGGGACATTGGCATCTTTATGAG
1 ATTCGTGTAAGACCATGCCTGGGACATTGGCATCGATATGAG
* **
6861499 ATTTGTGTAAGACCATGTTTGGGACATTGGCATCGATATGAG
1 ATTCGTGTAAGACCATGCCTGGGACATTGGCATCGATATGAG
*
6861541 ATTTGTGTAAGACCATGCCTGGGACATTGGCATCGATATGAG
1 ATTCGTGTAAGACCATGCCTGGGACATTGGCATCGATATGAG
6861583 A----T-T-----CATGCCTGGGACATTGGCATCGATATGAG
1 ATTCGTGTAAGACCATGCCTGGGACATTGGCATCGATATGAG
* * * *
6861615 ATTCGTGTAAGACTATGCCTGAGACATTGGCATCGATGTGTG
1 ATTCGTGTAAGACCATGCCTGGGACATTGGCATCGATATGAG
*
6861657 ATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAG
1 ATTCGTGTAAGACCATGCCTGGGACATTGGCATCGATATGAG
*
6861699 ATTCGTATAAGACCATAG-CTGGG-CTATTGGCATCGATAT
1 ATTCGTGTAAGACCAT-GCCTGGGAC-ATTGGCATCGATAT
6861738 ACTATAACAT
Statistics
Matches: 209, Mismatches: 18, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
32 30 0.14
36 1 0.00
37 2 0.01
38 1 0.00
41 1 0.00
42 173 0.83
43 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (42 bp):
ATTCGTGTAAGACCATGCCTGGGACATTGGCATCGATATGAG
Found at i:6861595 original size:32 final size:32
Alignment explanation
Indices: 6861554--6861618 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
6861544 TGTGTAAGAC
6861554 CATGCCTGGGACATTGGCATCGATATGAGATT
1 CATGCCTGGGACATTGGCATCGATATGAGATT
6861586 CATGCCTGGGACATTGGCATCGATATGAGATT
1 CATGCCTGGGACATTGGCATCGATATGAGATT
6861618 C
1 C
6861619 GTGTAAGACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (32 bp):
CATGCCTGGGACATTGGCATCGATATGAGATT
Found at i:6861641 original size:74 final size:74
Alignment explanation
Indices: 6861518--6861737 Score: 246
Period size: 74 Copynumber: 2.8 Consensus size: 74
6861508 AGACCATGTT
* *
6861518 TGGGACATTGGCATCGATATGAGATTTGTGTAAGACCATGCCTGGGACATTGGCATCGATATGAG
1 TGGGACATTGGCATCGATATGAGATTCGTGTAAGACCATGCCTGAGACATTGGCATCGATATGAG
6861583 ATTCATGCC
66 ATTCATGCC
* * *
6861592 TGGGACATTGGCATCGATATGAGATTCGTGTAAGACTATGCCTGAGACATTGGCATCGATGTGTG
1 TGGGACATTGGCATCGATATGAGATTCGTGTAAGACCATGCCTGAGACATTGGCATCGATATGAG
*
6861657 ATTCGTGTAAGACCATGTC
66 A----T-T-----CATGCC
* *
6861676 TGGGACATTGGCATCGATATGAGATTCGTATAAGACCATAG-CTG-GGCTATTGGCATCGATAT
1 TGGGACATTGGCATCGATATGAGATTCGTGTAAGACCAT-GCCTGAGAC-ATTGGCATCGATAT
6861738 ACTATAACAT
Statistics
Matches: 124, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
74 61 0.49
78 1 0.01
79 1 0.01
83 2 0.02
84 58 0.47
85 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (74 bp):
TGGGACATTGGCATCGATATGAGATTCGTGTAAGACCATGCCTGAGACATTGGCATCGATATGAG
ATTCATGCC
Found at i:6861679 original size:116 final size:116
Alignment explanation
Indices: 6861471--6861702 Score: 365
Period size: 116 Copynumber: 2.0 Consensus size: 116
6861461 GTGTAAGACT
** * ** *
6861471 ATGCCTGGGACATTGGCATCTTTATGAGATTTGTGTAAGACCATGTTTGGGACATTGGCATCGAT
1 ATGCCTGGGACATTGGCATCGATATGAGATTCGTGTAAGACCATGCCTGAGACATTGGCATCGAT
*
6861536 ATGAGATTTGTGTAAGACCATGCCTGGGACATTGGCATCGATATGAGATTC
66 ATGAGATTCGTGTAAGACCATGCCTGGGACATTGGCATCGATATGAGATTC
*
6861587 ATGCCTGGGACATTGGCATCGATATGAGATTCGTGTAAGACTATGCCTGAGACATTGGCATCGAT
1 ATGCCTGGGACATTGGCATCGATATGAGATTCGTGTAAGACCATGCCTGAGACATTGGCATCGAT
* * *
6861652 GTGTGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTC
66 ATGAGATTCGTGTAAGACCATGCCTGGGACATTGGCATCGATATGAGATTC
6861703 GTATAAGACC
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
116 105 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (116 bp):
ATGCCTGGGACATTGGCATCGATATGAGATTCGTGTAAGACCATGCCTGAGACATTGGCATCGAT
ATGAGATTCGTGTAAGACCATGCCTGGGACATTGGCATCGATATGAGATTC
Found at i:6861772 original size:42 final size:42
Alignment explanation
Indices: 6861591--6861773 Score: 154
Period size: 42 Copynumber: 4.4 Consensus size: 42
6861581 AGATTCATGC
* * * * **
6861591 CTGGGACATTGGCATCGATATGAGATTCGTGTAAGACTATGC
1 CTGGGATATTGGCATCGATATGAGATACATGTAAGACCATAT
* * * * * * *
6861633 CTGAGACATTGGCATCGATGTGTGATTCGTGTAAGACCATGT
1 CTGGGATATTGGCATCGATATGAGATACATGTAAGACCATAT
* * * * *
6861675 CTGGGACATTGGCATCGATATGAGATTCGTATAAGACCATAG
1 CTGGGATATTGGCATCGATATGAGATACATGTAAGACCATAT
* *
6861717 CTGGGCTATTGGCATCGATAT-ACTATAACATGTAAGACCATAT
1 CTGGGATATTGGCATCGATATGA-GAT-ACATGTAAGACCATAT
6861760 CTGGGATA-TGGCAT
1 CTGGGATATTGGCAT
6861774 TATATGGGTT
Statistics
Matches: 120, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 100 0.83
43 19 0.16
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (42 bp):
CTGGGATATTGGCATCGATATGAGATACATGTAAGACCATAT
Found at i:6861772 original size:84 final size:84
Alignment explanation
Indices: 6861591--6861773 Score: 221
Period size: 84 Copynumber: 2.2 Consensus size: 84
6861581 AGATTCATGC
* * * *
6861591 CTGGGACATTGGCATCGATATGAGATTCGTGTAAGACTATGCCTGAGACATTGGCATCGATGTGT
1 CTGGGACATTGGCATCGATATGAGATTCGTATAAGACCATGCCTGAGACATTGGCATCGATATCT
* * *
6861656 GATTCGTGTAAGACCATGT
66 GATACATGTAAGACCATAT
*
6861675 CTGGGACATTGGCATCGATATGAGATTCGTATAAGACCATAG-CTG-GGCTATTGGCATCGATAT
1 CTGGGACATTGGCATCGATATGAGATTCGTATAAGACCAT-GCCTGAGAC-ATTGGCATCGATAT
6861738 ACT-ATAACATGTAAGACCATAT
64 -CTGAT-ACATGTAAGACCATAT
*
6861760 CTGGGATA-TGGCAT
1 CTGGGACATTGGCAT
6861774 TATATGGGTT
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
83 2 0.02
84 62 0.72
85 22 0.26
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (84 bp):
CTGGGACATTGGCATCGATATGAGATTCGTATAAGACCATGCCTGAGACATTGGCATCGATATCT
GATACATGTAAGACCATAT
Found at i:6862693 original size:51 final size:51
Alignment explanation
Indices: 6862635--6862744 Score: 202
Period size: 51 Copynumber: 2.2 Consensus size: 51
6862625 TAAGTCATAA
*
6862635 GTTTGATAAGTGTTATATAATGTGTATAAATATGGCCTTGTGTTTTGGTAT
1 GTTTGATAAGTGTTATATAATGTATATAAATATGGCCTTGTGTTTTGGTAT
*
6862686 GTTTGATAAGTGTTATATAATGTATATATATATGGCCTTGTGTTTTGGTAT
1 GTTTGATAAGTGTTATATAATGTATATAAATATGGCCTTGTGTTTTGGTAT
6862737 GTTTGATA
1 GTTTGATA
6862745 TGGTTGTTGT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.48
Consensus pattern (51 bp):
GTTTGATAAGTGTTATATAATGTATATAAATATGGCCTTGTGTTTTGGTAT
Found at i:6868397 original size:22 final size:22
Alignment explanation
Indices: 6868372--6868510 Score: 269
Period size: 22 Copynumber: 6.3 Consensus size: 22
6868362 AGACACGGGT
6868372 GCATGGCTCAGCCATGTGTGCC
1 GCATGGCTCAGCCATGTGTGCC
6868394 GCATGGCTCAGCCATGTGTGCC
1 GCATGGCTCAGCCATGTGTGCC
6868416 GCATGGCTCAGCCATGTGTGCC
1 GCATGGCTCAGCCATGTGTGCC
6868438 GCATGGCTCAGCCATGTGTGCC
1 GCATGGCTCAGCCATGTGTGCC
6868460 GCATGGCTCAGCCATGTGTGCC
1 GCATGGCTCAGCCATGTGTGCC
6868482 GCATGGCTCAGCCATGTGTGCC
1 GCATGGCTCAGCCATGTGTGCC
*
6868504 ACATGGC
1 GCATGGC
6868511 CTAGAACACG
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
22 116 1.00
ACGTcount: A:0.14, C:0.32, G:0.32, T:0.22
Consensus pattern (22 bp):
GCATGGCTCAGCCATGTGTGCC
Found at i:6873608 original size:11 final size:11
Alignment explanation
Indices: 6873592--6873617 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6873582 TTGGAATAGA
6873592 TATGATTATTT
1 TATGATTATTT
6873603 TATGATTATTT
1 TATGATTATTT
6873614 TATG
1 TATG
6873618 GTCCATGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.62
Consensus pattern (11 bp):
TATGATTATTT
Found at i:6875579 original size:46 final size:46
Alignment explanation
Indices: 6875529--6875649 Score: 206
Period size: 46 Copynumber: 2.6 Consensus size: 46
6875519 GGTTGAGCAT
*
6875529 CCGAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGA
1 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGA
*
6875575 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGA
* *
6875621 CCGAGCTCGTTGAGTTGAGTCCGAGTTCA
1 CCGAACTCATTGAGTTGAGTCCGAGTTCA
6875650 GTTAGGGGCG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
CCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGA
Found at i:6877653 original size:45 final size:44
Alignment explanation
Indices: 6877568--6877653 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 44
6877558 TATGTAATCT
*
6877568 GAACTCATTGAGTTGTGTCTGAGTTCATGATATATGTGACATTC
1 GAACTCATTGAGTTGTGTCTGAGTTCATGATATATATGACATTC
* *
6877612 GAACTCATTGAGTTGTGGTCTGAGTTCGTGATATGTATGACA
1 GAACTCATTGAGTTGT-GTCTGAGTTCATGATATATATGACA
6877654 GATGTTTTGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 16 0.42
45 22 0.58
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (44 bp):
GAACTCATTGAGTTGTGTCTGAGTTCATGATATATATGACATTC
Found at i:6879167 original size:31 final size:31
Alignment explanation
Indices: 6879126--6879198 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
6879116 CCTAAGCCAA
6879126 ACGGGCGTGTGCAACCACACAGCCTACCCAC
1 ACGGGCGTGTGCAACCACACAGCCTACCCAC
* * * *
6879157 ACGGGTGTGTGTAACCAGACGGCCTACCCAC
1 ACGGGCGTGTGCAACCACACAGCCTACCCAC
*
6879188 ACGGGCATGTG
1 ACGGGCGTGTG
6879199 ACTCTTCAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.23, C:0.34, G:0.29, T:0.14
Consensus pattern (31 bp):
ACGGGCGTGTGCAACCACACAGCCTACCCAC
Found at i:6895991 original size:43 final size:43
Alignment explanation
Indices: 6895926--6896048 Score: 210
Period size: 43 Copynumber: 2.9 Consensus size: 43
6895916 ATGGTACTAT
* *
6895926 TCGGGCCTCGAGCCTAGTAGGCTATAATGCTGGTGAAATAATA
1 TCGGGCCTCGAGCCTAGCAGGCTATAATGCAGGTGAAATAATA
*
6895969 TCGGGCCTTGAGCCTAGCAGGCTATAATGCAGGTGAAATAATA
1 TCGGGCCTCGAGCCTAGCAGGCTATAATGCAGGTGAAATAATA
*
6896012 TCGGGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAA
1 TCGGGCCTCGAGCCTAGCAGGCTATAATGCAGGTGAA
6896049 TGAATTCAGA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 75 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (43 bp):
TCGGGCCTCGAGCCTAGCAGGCTATAATGCAGGTGAAATAATA
Found at i:6896124 original size:40 final size:40
Alignment explanation
Indices: 6896024--6896129 Score: 104
Period size: 40 Copynumber: 2.6 Consensus size: 40
6896014 GGGCCTCGAG
* *
6896024 CCTAGCAGGCTATAATGCCGGTGAATGAATTCAGACTTAAAG
1 CCTAGCAGGCTA-AATGCCGGTG-ATAAATTCAGACTTAAAA
* *** * **
6896066 TCTAGCAGGCTTCGTGCCGGTGATAAATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATAAATTCAGACTTAAAA
*
6896106 CCTAGCAGGCTAATTGCCGGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
6896130 TTGATAATAG
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
40 33 0.65
41 8 0.16
42 10 0.20
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATAAATTCAGACTTAAAA
Found at i:6899069 original size:64 final size:64
Alignment explanation
Indices: 6898989--6899173 Score: 187
Period size: 67 Copynumber: 2.9 Consensus size: 64
6898979 AGACATTATG
** *
6898989 ATGTAGCTAGGTCGCATGGGTGAAACTATGTGTACACCATGTAGACAAGAGAGCCAC-AGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCCACGA-GATAA
* * * * * *
6899053 ATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCCACGAGAT
6899118 AA
63 AA
* * * *
6899120 AT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGCC
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCC
6899174 GAACTATATG
Statistics
Matches: 97, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 24 0.25
66 22 0.23
67 30 0.31
68 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCCACGAGATAA
Found at i:6902257 original size:24 final size:24
Alignment explanation
Indices: 6902227--6902425 Score: 308
Period size: 24 Copynumber: 8.6 Consensus size: 24
6902217 TTATTATGTT
*
6902227 CACATAGTGCACATAG-CAATCGCA
1 CACATAGTGC-CATAGTAAATCGCA
6902251 CACATAGTG-C---GT-AATCGCA
1 CACATAGTGCCATAGTAAATCGCA
6902270 CACATAGTGCCATAGTAAATCGCA
1 CACATAGTGCCATAGTAAATCGCA
6902294 CACATAGTGCCATAGTAAATCGCA
1 CACATAGTGCCATAGTAAATCGCA
6902318 CACATAGTGCCATAGTAAATCGCA
1 CACATAGTGCCATAGTAAATCGCA
6902342 CACATAGTGCCATAGTAAATCGCA
1 CACATAGTGCCATAGTAAATCGCA
6902366 CACATAGTGCCATAGTAAATCGCA
1 CACATAGTGCCATAGTAAATCGCA
6902390 CACATAGTGCCATA-T--ATCGCA
1 CACATAGTGCCATAGTAAATCGCA
6902411 CACATTAGTGCCATA
1 CACA-TAGTGCCATA
6902426 TATTTCCAGC
Statistics
Matches: 168, Mismatches: 0, Indels: 16
0.91 0.00 0.09
Matches are distributed among these distances:
19 17 0.10
20 1 0.01
21 10 0.06
22 11 0.07
23 3 0.02
24 126 0.75
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (24 bp):
CACATAGTGCCATAGTAAATCGCA
Found at i:6910230 original size:24 final size:24
Alignment explanation
Indices: 6910194--6910331 Score: 251
Period size: 24 Copynumber: 5.8 Consensus size: 24
6910184 CTTATTATGT
**
6910194 TCGCAC-CATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
6910217 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
6910241 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
6910265 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
6910289 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
6910313 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
6910332 TATTTCCAGC
Statistics
Matches: 112, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
23 6 0.05
24 106 0.95
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:6910356 original size:29 final size:29
Alignment explanation
Indices: 6910314--6910387 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
6910304 CATAGTAAAT
*
6910314 CGCACACATAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
6910343 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
6910372 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
6910388 ATCTCGTCAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:6917572 original size:40 final size:40
Alignment explanation
Indices: 6917495--6917672 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
6917485 AAACCAAGTA
* * *
6917495 CCTTCGGGATTTAG-CCGGATATAGCT-ATTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
6917534 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
6917574 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
6917614 CCTTCGGGGCGTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
6917654 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
6917673 TTATCATCCA
Statistics
Matches: 123, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 15 0.12
40 108 0.88
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:6921825 original size:27 final size:26
Alignment explanation
Indices: 6921777--6921836 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
6921767 ATGAGGCTAC
*
6921777 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
6921804 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
6921830 CAGATAT
1 CAGATAT
6921837 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:6928639 original size:27 final size:26
Alignment explanation
Indices: 6928591--6928650 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
6928581 GCGAGGCTGC
*
6928591 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
6928618 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
6928644 CAGATAT
1 CAGATAT
6928651 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Done.