Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 1 of 433
Found at i:2988 original size:87 final size:88
Alignment explanation
Indices: 2873--3040 Score: 261
Period size: 88 Copynumber: 1.9 Consensus size: 88
2863 ACACAAAACA
* * *
2873 GAATAAAACCAATAGTAAGAGAACAAAATAATAAT-AAATGGCCCATCTGACTAACTAAATGAAG
1 GAATAAAACCAATAGCAAGAGAACAAAATAATAATAAAAGGGCCCATCAGACTAACTAAATGAAG
*
2937 GCCCAAAATCAGTCCAGAACCCT
66 GCCCAAAACCAGTCCAGAACCCT
2960 GAATAAAACCCAA-AGCAAG-GCAACAAAATAATAATAAAAGGGCCCATCAGACTAACTAAATGA
1 GAATAAAA-CCAATAGCAAGAG-AACAAAATAATAATAAAAGGGCCCATCAGACTAACTAAATGA
3023 AGGCCCAAAACCAGTCCA
64 AGGCCCAAAACCAGTCCA
3041 ATACATGACA
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
86 1 0.01
87 27 0.36
88 46 0.62
ACGTcount: A:0.49, C:0.22, G:0.14, T:0.14
Consensus pattern (88 bp):
GAATAAAACCAATAGCAAGAGAACAAAATAATAATAAAAGGGCCCATCAGACTAACTAAATGAAG
GCCCAAAACCAGTCCAGAACCCT
Found at i:3275 original size:30 final size:30
Alignment explanation
Indices: 3192--3279 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
3182 TCAGAACCCA
*
3192 AAAAC-GGATATCC-GGAATGGGATATACC
1 AAAACGGGATATCCTGGAATGGGATATCCC
* * *
3220 AAAACGGGTTATCCT-AAATTAGGATATCCC
1 AAAACGGGATATCCTGGAA-TGGGATATCCC
*
3250 AAACCGGGATATCCTGGAATGGGATATCCC
1 AAAACGGGATATCCTGGAATGGGATATCCC
3280 TATCAGGAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
28 5 0.10
29 9 0.19
30 32 0.67
31 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (30 bp):
AAAACGGGATATCCTGGAATGGGATATCCC
Found at i:5672 original size:71 final size:71
Alignment explanation
Indices: 5578--5720 Score: 259
Period size: 71 Copynumber: 2.0 Consensus size: 71
5568 CTAAAATATG
* *
5578 ATGGTATTCACGGGGCATTAGACAAGAATAAAAATGATTTAGATTTAGGTGGAATAGAAAGGTAA
1 ATGGTATTCACAGGGCATAAGACAAGAATAAAAATGATTTAGATTTAGGTGGAATAGAAAGGTAA
5643 ATGGTC
66 ATGGTC
*
5649 ATGGTATTCACAGGGCATAAGACAAGATTAAAAATGATTTAGATTTAGGTGGAATAGAAAGGTAA
1 ATGGTATTCACAGGGCATAAGACAAGAATAAAAATGATTTAGATTTAGGTGGAATAGAAAGGTAA
5714 ATGGTC
66 ATGGTC
5720 A
1 A
5721 ACCTTGCCAG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.41, C:0.07, G:0.26, T:0.27
Consensus pattern (71 bp):
ATGGTATTCACAGGGCATAAGACAAGAATAAAAATGATTTAGATTTAGGTGGAATAGAAAGGTAA
ATGGTC
Found at i:11656 original size:16 final size:16
Alignment explanation
Indices: 11607--11660 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
11597 ATCCGCAAGT
11607 GGGATATACCTAAGCC
1 GGGATATACCTAAGCC
* **
11623 GGGCTAT-CCTAATTC
1 GGGATATACCTAAGCC
11638 GGGATATACCTAAGCC
1 GGGATATACCTAAGCC
11654 GGGATAT
1 GGGATAT
11661 CCTCGGAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
15 12 0.39
16 19 0.61
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (16 bp):
GGGATATACCTAAGCC
Found at i:11663 original size:31 final size:30
Alignment explanation
Indices: 11581--11663 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 30
11571 ATGGTAATTA
* * *
11581 ATACCGAAACCGGGATATCCGCAAGTGGGAT
1 ATACCTAAGCCGGGATATCC-TAAGTGGGAT
* *
11612 ATACCTAAGCCGGGCTATCCTAATTCGGGAT
1 ATACCTAAGCCGGGATATCCTAAGT-GGGAT
11643 ATACCTAAGCCGGGATATCCT
1 ATACCTAAGCCGGGATATCCT
11664 CGGAATGGGA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 3 0.07
31 42 0.93
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (30 bp):
ATACCTAAGCCGGGATATCCTAAGTGGGAT
Found at i:11874 original size:42 final size:42
Alignment explanation
Indices: 11781--11874 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
11771 CGAACCGGGA
* * * *
11781 TGGGATATCAGAGGGATATCCCGGAATTGATTATTCTAAGAG
1 TGGGATATGAGAGGGATAACCCGGAATAGATTATTCCAAGAG
*
11823 -GGGAAATGAGAGGGATAACCCTGGAATAGATTATTCCAAG-G
1 TGGGATATGAGAGGGATAACCC-GGAATAGATTATTCCAAGAG
11864 TGGGATATGAG
1 TGGGATATGAG
11875 CGGTATTTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 19 0.43
42 25 0.57
ACGTcount: A:0.33, C:0.11, G:0.32, T:0.24
Consensus pattern (42 bp):
TGGGATATGAGAGGGATAACCCGGAATAGATTATTCCAAGAG
Found at i:16866 original size:31 final size:31
Alignment explanation
Indices: 16828--16890 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
16818 AGTACGAGAA
16828 GGGAGGAAGAGAGAATAATGAAAACAAAAAG
1 GGGAGGAAGAGAGAATAATGAAAACAAAAAG
16859 GGGAGGAAGAGAGAATAATGAAAACAAAAAG
1 GGGAGGAAGAGAGAATAATGAAAACAAAAAG
16890 G
1 G
16891 AAATAAGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.57, C:0.03, G:0.33, T:0.06
Consensus pattern (31 bp):
GGGAGGAAGAGAGAATAATGAAAACAAAAAG
Found at i:19059 original size:39 final size:39
Alignment explanation
Indices: 19005--19087 Score: 132
Period size: 39 Copynumber: 2.1 Consensus size: 39
18995 CCACTGGCCA
*
19005 CCACCATCGTCGTTCACCAGTCAGGCT-GTCACCACCGGT
1 CCACCATCATCGTTCACCAGTCAGG-TAGTCACCACCGGT
*
19044 CCACCATCATCGTTCACCAGTCAGGTAGTCACCATCGGT
1 CCACCATCATCGTTCACCAGTCAGGTAGTCACCACCGGT
19083 CCACC
1 CCACC
19088 CGTCACCACC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
38 1 0.02
39 40 0.98
ACGTcount: A:0.20, C:0.41, G:0.18, T:0.20
Consensus pattern (39 bp):
CCACCATCATCGTTCACCAGTCAGGTAGTCACCACCGGT
Found at i:21965 original size:16 final size:16
Alignment explanation
Indices: 21944--21975 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21934 TAATATTCAA
21944 CTGAAACTATTCTCTT
1 CTGAAACTATTCTCTT
21960 CTGAAACTATTCTCTT
1 CTGAAACTATTCTCTT
21976 TCTTCCACGC
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:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (16 bp):
CTGAAACTATTCTCTT
Found at i:29229 original size:78 final size:78
Alignment explanation
Indices: 29098--29248 Score: 214
Period size: 78 Copynumber: 1.9 Consensus size: 78
29088 GTACACAAAG
* * * *
29098 TCCATGGTGATCGCTATCAACATGATCACCAACTCTCCTAGCTGATGCAATCAAGGGATCAGGGT
1 TCCATAGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGCAATCAAGGGATCACGGT
29163 TTAATGGTCGAAC
66 TTAATGGTCGAAC
* * * *
29176 TCCATAGTGATCATTATCAACATGATCACCGACTCTCCCAGTTGGTG-AGATCAAGGGATCACGG
1 TCCATAGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGCA-ATCAAGGGATCACGG
29240 TTTAATGGT
65 TTTAATGGT
29249 AGAATATGAG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
77 1 0.02
78 63 0.98
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (78 bp):
TCCATAGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGCAATCAAGGGATCACGGT
TTAATGGTCGAAC
Found at i:33172 original size:280 final size:281
Alignment explanation
Indices: 32822--33386 Score: 1057
Period size: 280 Copynumber: 2.0 Consensus size: 281
32812 ATTCCAGAAT
32822 TTTTTTTTTCTTTGAAATTACCACTTAGGCCTTTTTTTTTTTCTTAGAAAAACTCAGTATGATTC
1 TTTTTTTTTCTTTGAAATTACCACTTAGGCCTTTTTTTTTTTCTTAGAAAAACTCAGTATGATTC
32887 AATTAGGTTTTTTCTTATTCCCTCAACAAATATAATGTTTTTACTAGTTGAAAAAGGGAAAACCA
66 AATTAGGTTTTTTCTTATTCCCTCAACAAATATAATGTTTTTACTAGTTGAAAAAGGGAAAACCA
32952 GGATACGATATGAATATTCAAAGAATAGCTTATTCCGAAGCAGGTTAAA-ACAGGGATATCCCTC
131 GGATACGATATGAATATTCAAAGAATAGCTTATTCCGAAGCAGGTTAAACA-AGGGATATCCCT-
*
33016 G-GGCAGAAAAAGAACGAAAATTAACTAGAACAAGAAAAAAAATAGATTTTTTAATTAATTTCCT
194 GAGGCAGAAAAAGAACGAAAATAAACTAGAACAAGAAAAAAAATAGATTTTTTAATTAATTTCCT
33080 CAATAGTCTTTCAGTCCCAGTAA
259 CAATAGTCTTTCAGTCCCAGTAA
33103 TTTTTTTTTCTTTGAAATTACCACTTAGGCC-TTTTTTTTTTCTTA-AAAAACCTCAGTATGATT
1 TTTTTTTTTCTTTGAAATTACCACTTAGGCCTTTTTTTTTTTCTTAGAAAAA-CTCAGTATGATT
33166 CAATTAGGTTTTTTCTTATTCCCTCAACAAATATAATGTTTTTACTAGTTGAAAAAGGGAAAACC
65 CAATTAGGTTTTTTCTTATTCCCTCAACAAATATAATGTTTTTACTAGTTGAAAAAGGGAAAACC
*
33231 AGGATACGATGTGAATATTCAAAGAATAGCTTATTCCGAAGCAGGTTAAACAAGGGATATCCCTG
130 AGGATACGATATGAATATTCAAAGAATAGCTTATTCCGAAGCAGGTTAAACAAGGGATATCCCTG
33296 AGGCAGAAAAAGAACGAAAATAAACTAGAACAAGAAAAAAAATAGATTTTTTAATTAATTTCCTC
195 AGGCAGAAAAAGAACGAAAATAAACTAGAACAAGAAAAAAAATAGATTTTTTAATTAATTTCCTC
33361 AATAGTCTTTCAGTCCCAGTAA
260 AATAGTCTTTCAGTCCCAGTAA
33383 TTTT
1 TTTT
33387 CCTAATGGCC
Statistics
Matches: 279, Mismatches: 2, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
279 6 0.02
280 241 0.86
281 32 0.11
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.35
Consensus pattern (281 bp):
TTTTTTTTTCTTTGAAATTACCACTTAGGCCTTTTTTTTTTTCTTAGAAAAACTCAGTATGATTC
AATTAGGTTTTTTCTTATTCCCTCAACAAATATAATGTTTTTACTAGTTGAAAAAGGGAAAACCA
GGATACGATATGAATATTCAAAGAATAGCTTATTCCGAAGCAGGTTAAACAAGGGATATCCCTGA
GGCAGAAAAAGAACGAAAATAAACTAGAACAAGAAAAAAAATAGATTTTTTAATTAATTTCCTCA
ATAGTCTTTCAGTCCCAGTAA
Found at i:37589 original size:68 final size:68
Alignment explanation
Indices: 37480--37621 Score: 284
Period size: 68 Copynumber: 2.1 Consensus size: 68
37470 ATTATTACCC
37480 AATGATAAACTTTTGCTTCTGCAAGCATCAAGAAAGAGGGGAATGTTGTTGTATCTGGAGATGGC
1 AATGATAAACTTTTGCTTCTGCAAGCATCAAGAAAGAGGGGAATGTTGTTGTATCTGGAGATGGC
37545 ACT
66 ACT
37548 AATGATAAACTTTTGCTTCTGCAAGCATCAAGAAAGAGGGGAATGTTGTTGTATCTGGAGATGGC
1 AATGATAAACTTTTGCTTCTGCAAGCATCAAGAAAGAGGGGAATGTTGTTGTATCTGGAGATGGC
37613 ACT
66 ACT
37616 AATGAT
1 AATGAT
37622 GCTCCTATTA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 74 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (68 bp):
AATGATAAACTTTTGCTTCTGCAAGCATCAAGAAAGAGGGGAATGTTGTTGTATCTGGAGATGGC
ACT
Found at i:47201 original size:39 final size:40
Alignment explanation
Indices: 47126--47202 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 40
47116 TGAAAGAGAT
*
47126 TGATGGGTGGACCGATGGTGACTACCCGAACGGTGAACGA
1 TGATGGGTGGACCGATGGTGACTACCCGAACCGTGAACGA
* * * *
47166 TGAT-GGTGGACCGGTGGTGACTGCCTGACCCGTGAAC
1 TGATGGGTGGACCGATGGTGACTACCCGAACCGTGAAC
47203 AACAACGGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
39 28 0.88
40 4 0.12
ACGTcount: A:0.21, C:0.22, G:0.38, T:0.19
Consensus pattern (40 bp):
TGATGGGTGGACCGATGGTGACTACCCGAACCGTGAACGA
Found at i:47445 original size:21 final size:19
Alignment explanation
Indices: 47413--47453 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
47403 TGAAACTTGC
47413 TTTAAATTTTTAAATAAAAT
1 TTTAAATTTTTAAA-AAAAT
*
47433 TTTATATTATTTAAAAAAAT
1 TTTAAATT-TTTAAAAAAAT
47453 T
1 T
47454 CAATATTCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTAAATTTTTAAAAAAAT
Found at i:47459 original size:20 final size:21
Alignment explanation
Indices: 47421--47460 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
47411 GCTTTAAATT
**
47421 TTTAAATAAAATTTTATATTA
1 TTTAAATAAAATTCAATATTA
47442 TTTAAA-AAAATTCAATATT
1 TTTAAATAAAATTCAATATT
47461 CCCCTCCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTAAATAAAATTCAATATTA
Found at i:49405 original size:12 final size:12
Alignment explanation
Indices: 49388--49417 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
49378 CGAGAGAGAG
49388 AATGGGTAAAGA
1 AATGGGTAAAGA
49400 AATGGGTAAAGA
1 AATGGGTAAAGA
49412 AATGGG
1 AATGGG
49418 AGGAGATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.37, T:0.17
Consensus pattern (12 bp):
AATGGGTAAAGA
Found at i:74616 original size:2 final size:2
Alignment explanation
Indices: 74609--74644 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
74599 GGCAGCTTAT
*
74609 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
74645 GATAAAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:107956 original size:29 final size:29
Alignment explanation
Indices: 107922--107981 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
107912 AGTTCATGTG
107922 TTTTGATTTAACATAATGTGATCCTTTAC
1 TTTTGATTTAACATAATGTGATCCTTTAC
107951 TTTTGATTTAACATAATGTGATCCTTTAC
1 TTTTGATTTAACATAATGTGATCCTTTAC
107980 TT
1 TT
107982 ATATAATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (29 bp):
TTTTGATTTAACATAATGTGATCCTTTAC
Found at i:108754 original size:32 final size:32
Alignment explanation
Indices: 108717--108816 Score: 191
Period size: 32 Copynumber: 3.1 Consensus size: 32
108707 TTTTTAGGAC
*
108717 TTAATTAAAATTTTTGAAGTTTAAAGATCAAA
1 TTAATTAAAATGTTTGAAGTTTAAAGATCAAA
108749 TTAATTAAAATGTTTGAAGTTTAAAGATCAAA
1 TTAATTAAAATGTTTGAAGTTTAAAGATCAAA
108781 TTAATTAAAATGTTTGAAGTTTAAAGATCAAA
1 TTAATTAAAATGTTTGAAGTTTAAAGATCAAA
108813 TTAA
1 TTAA
108817 AATGTGTTAT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 67 1.00
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (32 bp):
TTAATTAAAATGTTTGAAGTTTAAAGATCAAA
Found at i:109393 original size:1 final size:1
Alignment explanation
Indices: 109387--109411 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
109377 CACATGAAAC
109387 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
109412 GGATCTTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:116964 original size:40 final size:40
Alignment explanation
Indices: 116919--117166 Score: 261
Period size: 40 Copynumber: 6.2 Consensus size: 40
116909 CGGAATACGA
*
116919 CCGGATATAACCACAT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAAC-TCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
116959 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
*
116999 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
* *
117039 CCGGATTTAACAACTCACACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
117079 CCGGATGTAGTC-ACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
** ** * *
117119 CCGGATATAATTAC-CAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTC-GCACGAATGCCTTCGGGTCTTAGC
117159 CCGGATAT
1 CCGGATAT
117167 CATTCAATTG
Statistics
Matches: 178, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
39 3 0.02
40 172 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:117149 original size:120 final size:120
Alignment explanation
Indices: 116936--117164 Score: 302
Period size: 120 Copynumber: 1.9 Consensus size: 120
116926 TAACCACATG
* *
116936 CACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCCC
1 CACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTTCGGGTATTAACCC
* * *
117001 GGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTCA
66 GGATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAACAACTCA
* * *
117056 CACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CACGAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTAGCACAAATGCCTTCGGGTATTAAC
** * *
117119 CCGGATATAATTAC-CAGCATAAATGTCTTCGGGACTTAGCCCGGAT
64 CCGGATATAACAACTC-GCACAAATGCCTTCGGGACTTAGCCCGGAT
117165 ATCATTCAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
118 1 0.01
119 3 0.03
120 90 0.96
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (120 bp):
CACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTTCGGGTATTAACCC
GGATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAACAACTCA
Found at i:119526 original size:29 final size:29
Alignment explanation
Indices: 119493--119557 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
119483 GTGACGAGAT
119493 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
119522 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
119551 CGGCACT
1 TGGCACT
119558 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:121628 original size:16 final size:17
Alignment explanation
Indices: 121597--121629 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
121587 TTTAAAAATT
121597 ATATTATTTTTAATTTA
1 ATATTATTTTTAATTTA
*
121614 ATATT-TTTTTCATTTA
1 ATATTATTTTTAATTTA
121630 TTAAATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTATTTTTAATTTA
Found at i:123176 original size:13 final size:14
Alignment explanation
Indices: 123158--123188 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
123148 ATGTACGAAT
123158 ATATACATATA-TA
1 ATATACATATATTA
123171 ATATACATATATTA
1 ATATACATATATTA
123185 ATAT
1 ATAT
123189 TAATAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:125356 original size:67 final size:68
Alignment explanation
Indices: 125036--125344 Score: 530
Period size: 68 Copynumber: 4.5 Consensus size: 68
125026 TTAAAAACAG
125036 AAATTAAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAA
1 AAATT-AAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAA
*
125101 ATGA
65 ACGA
*
125105 AAGTTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
125170 CGA
66 CGA
125173 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
125238 CGA
66 CGA
* * * *
125241 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-CTTTGAAAAGTAGATTTTGAAAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
125305 CGA
66 CGA
* *
125308 AAATTAAAGGCTCAACTCAACTCTCGCAATATGAGTT
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTT
125345 GATCTTTGAA
Statistics
Matches: 232, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
67 61 0.26
68 167 0.72
69 4 0.02
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (68 bp):
AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
CGA
Found at i:125632 original size:70 final size:70
Alignment explanation
Indices: 125394--125642 Score: 264
Period size: 74 Copynumber: 3.5 Consensus size: 70
125384 ATTAAAAAGA
* * * * * *
125394 CTCAACTCACCTTTCGCAATATGAATTAACTTTTGAAAATATAATTTGAAAATACCTTAGCGTGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ATAAATTG-AAATACCTCAGCGTGC
* *
125459 CGCAAGG
64 CCCGAGG
* * **
125466 CTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAAATA--AATTGAAA-TACCTCAGCGT
125531 GCCCCGAGG
62 GCCCCGAGG
* * * * * *
125540 TTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAAAATAAATTGAAATACCTCAACGTGTCT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTGAAATACCTCAGCGTGCCC
*
125605 TGAGG
66 CGAGG
*
125610 CTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
125643 CTTGGAAAAC
Statistics
Matches: 148, Mismatches: 25, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
70 45 0.30
71 8 0.05
72 33 0.22
73 8 0.05
74 54 0.36
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (70 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTGAAATACCTCAGCGTGCCC
CGAGG
Found at i:125769 original size:71 final size:70
Alignment explanation
Indices: 125670--125802 Score: 203
Period size: 71 Copynumber: 1.9 Consensus size: 70
125660 TAAGAAGCAG
* * * *
125670 AAATTGAAATACCTCAGCGTGCCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGA
1 AAATTGAAATACCTCAACGTGCCCTGAGGCTCAACTCACTTCTCGAAATATGAGCTGATTTTTGA
125735 GACAT
66 GACAT
* *
125740 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGAAATATGAGCTGATTTT
1 AAATTGAAA-TACCTCAACGTGCCCTGAGGCTCAACTCACTTCTCGAAATATGAGCTGATTTT
125803 CTTGGAAAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
70 9 0.16
71 47 0.84
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (70 bp):
AAATTGAAATACCTCAACGTGCCCTGAGGCTCAACTCACTTCTCGAAATATGAGCTGATTTTTGA
GACAT
Found at i:125919 original size:161 final size:161
Alignment explanation
Indices: 125511--126215 Score: 1247
Period size: 161 Copynumber: 4.4 Consensus size: 161
125501 ATTTAATAGG
* * * *
125511 AATTGAAATTACCTCAGCGTGCCCCGAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
125576 AAAATAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
125640 TTTCTTGGAAAACATGAATTTAAGAAGCAGA
131 TTTCTTGGAAAACATGAATTTAAAAAGCAGA
*
125671 AATTG-AAATACCTCAGCGTGCCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
* * *
125735 GACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCGAAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
125800 TTTCTTGGAAAACATGAATTTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTTAAAAAGCAGA
125831 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
125896 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
125961 TTTCTTGGAAAACATGAATTTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTTAAAAAGCAGA
* *
125992 AATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT-A
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
126056 AGACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGA
66 A-ACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
*
126121 TTTTCTTGGAAAACATGAA-CTAAAAAGCAGA
130 TTTTCTTGGAAAACATGAATTTAAAAAGCAGA
126152 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
126216 GAAAAAACAA
Statistics
Matches: 521, Mismatches: 20, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
159 66 0.13
160 162 0.31
161 293 0.56
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (161 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTCTTGGAAAACATGAATTTAAAAAGCAGA
Found at i:125946 original size:71 final size:71
Alignment explanation
Indices: 125830--125963 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
125820 TAAAAAGCAG
* * *
125830 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
125895 AAACAT
66 AAACAT
* * *
125901 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
125964 CTTGGAAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:126076 original size:71 final size:71
Alignment explanation
Indices: 125991--126124 Score: 205
Period size: 71 Copynumber: 1.9 Consensus size: 71
125981 TAAAAAGCAG
* * *
125991 AAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTA
1 AAATTGAAAATACCTCAACGTACCCTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTTTA
126056 AGACAT
66 AGACAT
* ** *
126062 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTACCCTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTT
126125 CTTGGAAAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 56 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTACCCTGAGGCTCAACTCATCTCTCGCAATATGAGCTGATTTTTA
AGACAT
Found at i:126172 original size:321 final size:320
Alignment explanation
Indices: 125511--126221 Score: 1282
Period size: 321 Copynumber: 2.2 Consensus size: 320
125501 ATTTAATAGG
* * * *
125511 AATTGAAATTACCTCAGCGTGCCCCGAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
125576 AAAATAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
66 AAAATAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
* *
125641 TTCTTGGAAAACATGAATTTAAGAAGCAGAAATTGAAATACCTCAGCGTGCCCTGAGGCTCAACT
131 TTCTTGGAAAACATGAATTTAAAAAGCAGAAATTGAAATACCTCAGCGTACCCTGAGGCTCAACT
*
125706 CATTTCTCGCAATATGAGTTGATTTTTGAGACATAAATTGAAATTACCTCAACGTGTCTTGAGGC
196 CATTTCTCGCAATATGAGTTGATTTTTAAGACATAAATTGAAATTACCTCAACGTGTCTTGAGGC
*
125771 TCAACTCACTTCTCGAAATATGAGCTGATTTTCTTGGAAAACATGAATTTAAAAAGCAGA
261 TCAACTCACTTCTCGAAATATGAGCTGATTTTCTTGGAAAACATGAATCTAAAAAGCAGA
125831 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
125896 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AAAATAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
125961 TTTCTTGGAAAACATGAATTTAAAAAGCAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAA
130 TTTCTTGGAAAACATGAATTTAAAAAGCAGAAATTG-AAATACCTCAGCGTACCCTGAGGCTCAA
126026 CTCATTTCTCGCAATATGAGTTGATTTTTAAGACATAAATTGAAATTACCTCAACGTGTCTTGAG
194 CTCATTTCTCGCAATATGAGTTGATTTTTAAGACATAAATTGAAATTACCTCAACGTGTCTTGAG
*
126091 GCTCAACTCA-TCTCTCGCAATATGAGCTGATTTTCTTGGAAAACATGAA-CTAAAAAGCAGA
259 GCTCAACTCACT-TCTCGAAATATGAGCTGATTTTCTTGGAAAACATGAATCTAAAAAGCAGA
126152 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGG
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-G
126217 AAAAA
65 AAAAA
126222 ACAAAATTGG
Statistics
Matches: 376, Mismatches: 11, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
320 74 0.20
321 160 0.43
322 142 0.38
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (320 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AAAATAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
TTCTTGGAAAACATGAATTTAAAAAGCAGAAATTGAAATACCTCAGCGTACCCTGAGGCTCAACT
CATTTCTCGCAATATGAGTTGATTTTTAAGACATAAATTGAAATTACCTCAACGTGTCTTGAGGC
TCAACTCACTTCTCGAAATATGAGCTGATTTTCTTGGAAAACATGAATCTAAAAAGCAGA
Found at i:137577 original size:29 final size:29
Alignment explanation
Indices: 137507--137569 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
137497 GACGAGATTA
*
137507 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATACG
137536 GCACTAAGTGTGCATGCTGGAAATATACG
1 GCACTAAGTGTGCATGCTGGAAATATACG
137565 GCACT
1 GCACT
137570 GGGTGTGCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.25
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATACG
Found at i:139641 original size:16 final size:17
Alignment explanation
Indices: 139610--139642 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
139600 TTTAAAAATT
139610 ATATTATTTTTAATTTA
1 ATATTATTTTTAATTTA
*
139627 ATATT-TTTTTCATTTA
1 ATATTATTTTTAATTTA
139643 TTAAATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTATTTTTAATTTA
Found at i:141187 original size:13 final size:14
Alignment explanation
Indices: 141169--141199 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
141159 ATGTACGAAT
141169 ATATACATATA-TA
1 ATATACATATATTA
141182 ATATACATATATTA
1 ATATACATATATTA
141196 ATAT
1 ATAT
141200 TAATAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:141756 original size:26 final size:26
Alignment explanation
Indices: 141727--141782 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
141717 AAAATCATTT
141727 GAGAA-AGGGAAAGGAAAAAAAAAAGA
1 GAGAAGAGGGAAA-GAAAAAAAAAAGA
* * *
141753 GAGAAGAGGGAGAGAAAAGAAAGAGA
1 GAGAAGAGGGAAAGAAAAAAAAAAGA
141779 GAGA
1 GAGA
141783 GGGAGCTTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (26 bp):
GAGAAGAGGGAAAGAAAAAAAAAAGA
Found at i:141770 original size:24 final size:23
Alignment explanation
Indices: 141743--141787 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
141733 GGGAAAGGAA
141743 AAAAAAAAGAGAGAAGAGGGAGAG
1 AAAAAAAAGAGAG-AGAGGGAGAG
*
141767 AAAAGAAAGAGAGAGAGGGAG
1 AAAAAAAAGAGAGAGAGGGAG
141788 CTTCGGTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (23 bp):
AAAAAAAAGAGAGAGAGGGAGAG
Found at i:143360 original size:67 final size:68
Alignment explanation
Indices: 143040--143348 Score: 530
Period size: 68 Copynumber: 4.5 Consensus size: 68
143030 TTAAAAACAG
143040 AAATTAAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAA
1 AAATT-AAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAA
*
143105 ATGA
65 ACGA
*
143109 AAGTTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
143174 CGA
66 CGA
143177 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
143242 CGA
66 CGA
* * * *
143245 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-CTTTGAAAAGTAGATTTTGAAAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
143309 CGA
66 CGA
* *
143312 AAATTAAAGGCTCAACTCAACTCTCGCAATATGAGTT
1 AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTT
143349 GATCTTTGAA
Statistics
Matches: 232, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
67 61 0.26
68 167 0.72
69 4 0.02
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (68 bp):
AAATTAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAA
CGA
Found at i:143551 original size:74 final size:71
Alignment explanation
Indices: 143398--143647 Score: 261
Period size: 71 Copynumber: 3.5 Consensus size: 71
143388 ATTAAAAAGA
* * * * *
143398 CTCAACTCACCTT-TCGCAATATGAATTAACTTTT-GAAAATATAATTTGAAAATACCTTAGCGT
1 CTCAACTCA-CTTCTCGCAATATGAGTTGA-TTTTAGAAAA-ATAAATTGAAATTACCTCAGCGT
* *
143461 GCCGCAAGG
63 GCCCCGAGG
** *
143470 CTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAGCAT
1 CTCAACTCACTTCTCGCAATATGAGTTGATTTTAGA-AAAATA--AATTGAAATTACCTCAGCGT
143535 GCCCCGAGG
63 GCCCCGAGG
* * * * *
143544 TTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAAAATAAATTGAAATTACCTCAACGTGTC
1 CTCAACTCACTTCTCGCAATATGAGTTGATTTTAGAAAAATAAATTGAAATTACCTCAGCGTGCC
**
143609 TTGAGG
66 CCGAGG
* *
143615 CTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 CTCAACTCACTTCTCGCAATATGAGTTGATTTT
143648 CTTGGAAAAC
Statistics
Matches: 149, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
71 60 0.40
72 28 0.19
73 5 0.03
74 56 0.38
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (71 bp):
CTCAACTCACTTCTCGCAATATGAGTTGATTTTAGAAAAATAAATTGAAATTACCTCAGCGTGCC
CCGAGG
Found at i:143631 original size:71 final size:71
Alignment explanation
Indices: 143398--143647 Score: 266
Period size: 74 Copynumber: 3.5 Consensus size: 71
143388 ATTAAAAAGA
* * * * * * *
143398 CTCAACTCACCTTTCGCAATATGAATTAACTTTTGAAAATATAATTTGAAAATACCTTAGCGTGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-ATAAATTGAAATTACCTCAGCGTGC
* *
143463 CGCAAGG
65 CCCGAGG
* * ** *
143470 CTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAGCAT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAAATA--AATTGAAATTACCTCAGCGT
143535 GCCCCGAGG
63 GCCCCGAGG
* * * * *
143544 TTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAAAATAAATTGAAATTACCTCAACGTGTC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTGAAATTACCTCAGCGTGCC
**
143609 TTGAGG
66 CCGAGG
*
143615 CTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTT
143648 CTTGGAAAAC
Statistics
Matches: 147, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
71 53 0.36
72 33 0.22
73 5 0.03
74 56 0.38
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (71 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTGAAATTACCTCAGCGTGCC
CCGAGG
Found at i:149062 original size:22 final size:23
Alignment explanation
Indices: 149010--149062 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
149000 TTTATAGGAA
* *
149010 AAATAATTTATTTTCTATTAATTT
1 AAATAA-TTATTTTCCATTAATAT
*
149034 AAA-AATTATTTTCCGTTAA-AT
1 AAATAATTATTTTCCATTAATAT
149055 AAATAATT
1 AAATAATT
149063 TTTAATGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 4 0.16
22 16 0.64
23 2 0.08
24 3 0.12
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (23 bp):
AAATAATTATTTTCCATTAATAT
Found at i:176107 original size:23 final size:23
Alignment explanation
Indices: 176077--176124 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
176067 TGAGTTGTAG
176077 ATTGCCTGAAACCTCGGGGATAT
1 ATTGCCTGAAACCTCGGGGATAT
176100 ATTGCCTGAAACCTCGGGGATAT
1 ATTGCCTGAAACCTCGGGGATAT
176123 AT
1 AT
176125 ACTCTTTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (23 bp):
ATTGCCTGAAACCTCGGGGATAT
Found at i:185789 original size:13 final size:13
Alignment explanation
Indices: 185773--185799 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
185763 CCTGCAAAAA
185773 TGGCAGGCAATGT
1 TGGCAGGCAATGT
185786 TGGCAGGCAATGT
1 TGGCAGGCAATGT
185799 T
1 T
185800 ATGTTAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.37, T:0.26
Consensus pattern (13 bp):
TGGCAGGCAATGT
Found at i:186996 original size:12 final size:12
Alignment explanation
Indices: 186979--187004 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
186969 ATATGTTTAC
186979 TTTTTCCAGATA
1 TTTTTCCAGATA
186991 TTTTTCCAGATA
1 TTTTTCCAGATA
187003 TT
1 TT
187005 ATTAGAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (12 bp):
TTTTTCCAGATA
Found at i:189505 original size:2 final size:2
Alignment explanation
Indices: 189492--189522 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
189482 AAGCACAACT
189492 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
189523 ATACCAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:195235 original size:3 final size:3
Alignment explanation
Indices: 195227--195252 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
195217 TTTTATGTAT
195227 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
195253 CAGCAAAGCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:197550 original size:22 final size:21
Alignment explanation
Indices: 197525--197572 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 21
197515 AAATTTAATT
197525 TTTATATTTTTATTTTTAAGAA
1 TTTATATTTTTATTTTTAA-AA
* *
197547 TTTAATCTTTTTATTTTTTAAA
1 TTT-ATATTTTTATTTTTAAAA
197569 TTTA
1 TTTA
197573 AAAATTTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.04
22 8 0.35
23 14 0.61
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTATATTTTTATTTTTAAAA
Found at i:197573 original size:22 final size:23
Alignment explanation
Indices: 197531--197573 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
197521 AATTTTTATA
197531 TTTTTATTTTTAAGAATTTAATC
1 TTTTTATTTTTAAGAATTTAATC
*
197554 TTTTTATTTTTTA-AATTTAA
1 TTTTTATTTTTAAGAATTTAA
197574 AAATTTAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTTATTTTTAAGAATTTAATC
Found at i:205902 original size:16 final size:17
Alignment explanation
Indices: 205873--205907 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
205863 CTCTTAATCT
205873 TTTGAAAAATAGTCAAA
1 TTTGAAAAATAGTCAAA
205890 TTTGAAAAA-AGTCAAA
1 TTTGAAAAATAGTCAAA
205906 TT
1 TT
205908 AATTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.31
Consensus pattern (17 bp):
TTTGAAAAATAGTCAAA
Found at i:209498 original size:38 final size:38
Alignment explanation
Indices: 209447--209525 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
209437 TAATGTTAGA
*
209447 AAACTGGCTTCGACGACCCATTAAATGTGTAGGGACCG
1 AAACTGGCTTCGACGACCCATGAAATGTGTAGGGACCG
209485 AAACTGGCTTCGACGACCCATGAAATGTGTAGGGACCG
1 AAACTGGCTTCGACGACCCATGAAATGTGTAGGGACCG
209523 AAA
1 AAA
209526 TCCAAAAGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.19
Consensus pattern (38 bp):
AAACTGGCTTCGACGACCCATGAAATGTGTAGGGACCG
Found at i:217449 original size:15 final size:15
Alignment explanation
Indices: 217429--217458 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
217419 ATTTTCGTAA
217429 TCAGTGTTGGCCTGT
1 TCAGTGTTGGCCTGT
217444 TCAGTGTTGGCCTGT
1 TCAGTGTTGGCCTGT
217459 ACATTTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.20, G:0.33, T:0.40
Consensus pattern (15 bp):
TCAGTGTTGGCCTGT
Found at i:220059 original size:15 final size:16
Alignment explanation
Indices: 220030--220067 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
220020 TATAATTTGT
220030 TTTTTTATCTCTTTAA
1 TTTTTTATCTCTTTAA
*
220046 TTTTTTAT-TGTTTAA
1 TTTTTTATCTCTTTAA
220061 TATTTTT
1 T-TTTTT
220068 TTATGTGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTTTATCTCTTTAA
Found at i:225069 original size:22 final size:22
Alignment explanation
Indices: 225043--225090 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
225033 AATAATTTTA
*
225043 ATAACAT-AATAACCTTAATAAT
1 ATAACATCAATAA-CTTAAAAAT
*
225065 ATAACATCAATAATTTAAAAAT
1 ATAACATCAATAACTTAAAAAT
225087 ATAA
1 ATAA
225091 TTAGAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.31
Consensus pattern (22 bp):
ATAACATCAATAACTTAAAAAT
Found at i:232340 original size:23 final size:22
Alignment explanation
Indices: 232296--232340 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
232286 TCAAATTCTA
*
232296 CAAAATTCAACAATTTAGCAAT
1 CAAAATTCAACAATTTACCAAT
* *
232318 CAAAATTTACACATTTTACCAAT
1 CAAAATTCA-ACAATTTACCAAT
232341 TTAGTCTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (22 bp):
CAAAATTCAACAATTTACCAAT
Found at i:234431 original size:2 final size:2
Alignment explanation
Indices: 234420--234453 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
234410 TTTTTAAGTT
234420 TA TA -A TA 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 TA TA TA TA T
234454 TTATGTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:238915 original size:28 final size:29
Alignment explanation
Indices: 238883--238949 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
238873 AGGTTGAGAG
238883 CCAAAATGACCTT-AAAAAATAATAAAGA
1 CCAAAATGACCTTAAAAAAATAATAAAGA
238911 CCAAAATGACCTTAAAAAAATAATAAAGA
1 CCAAAATGACCTTAAAAAAATAATAAAGA
238940 CCAAAATGAC
1 CCAAAATGAC
238950 AAATAAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 13 0.34
29 25 0.66
ACGTcount: A:0.60, C:0.16, G:0.07, T:0.16
Consensus pattern (29 bp):
CCAAAATGACCTTAAAAAAATAATAAAGA
Found at i:239629 original size:16 final size:17
Alignment explanation
Indices: 239611--239644 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
239601 AAATATAAGA
239611 TTTTATAAATTT-AAAAT
1 TTTTAT-AATTTGAAAAT
239628 TTTTATAATTTGAAAAT
1 TTTTATAATTTGAAAAT
239645 AATTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTTATAATTTGAAAAT
Found at i:239795 original size:30 final size:30
Alignment explanation
Indices: 239730--239795 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
239720 TAATTTACTT
239730 TTATATAAAAATAAGAATTAAATTAAATAA
1 TTATATAAAAATAAGAATTAAATTAAATAA
* * * *
239760 ATATATAAAAATTTAGAATT-AATTATATTA
1 TTATATAAAAA-TAAGAATTAAATTAAATAA
239790 TTATAT
1 TTATAT
239796 CTTATATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 23 0.77
31 7 0.23
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (30 bp):
TTATATAAAAATAAGAATTAAATTAAATAA
Found at i:241789 original size:6 final size:6
Alignment explanation
Indices: 241778--241806 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
241768 AATTTAATTG
241778 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
241807 GATATATAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:241819 original size:19 final size:18
Alignment explanation
Indices: 241779--241821 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
241769 ATTTAATTGT
* * *
241779 TTTTATTTTTATTTTTAT
1 TTTTATTTTTATATATAG
241797 TTTTATTTTTGATATATAG
1 TTTTATTTTT-ATATATAG
241816 TTTTAT
1 TTTTAT
241822 CGTTAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTTATTTTTATATATAG
Found at i:244931 original size:24 final size:24
Alignment explanation
Indices: 244886--244937 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
244876 TTCAAATTCA
*
244886 TATTTTAAGTTTTAAATTATATTT
1 TATTTTAAGTTTTAAATAATATTT
* *
244910 CTATTTT-ATTTTTAAGTAATATTT
1 -TATTTTAAGTTTTAAATAATATTT
244934 TATT
1 TATT
244938 AGTTGTCACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.17
24 14 0.58
25 6 0.25
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (24 bp):
TATTTTAAGTTTTAAATAATATTT
Found at i:246543 original size:34 final size:34
Alignment explanation
Indices: 246501--246568 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
246491 TATACATCAA
*
246501 CATAAAGTATATTAGAAAAGGCAAAATATAATCT
1 CATAAAGTATATTAGAAAAGACAAAATATAATCT
246535 CATAAAGTATATTAGAAAAGACAAAATATAATCT
1 CATAAAGTATATTAGAAAAGACAAAATATAATCT
246569 AACTCTTAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.54, C:0.09, G:0.10, T:0.26
Consensus pattern (34 bp):
CATAAAGTATATTAGAAAAGACAAAATATAATCT
Found at i:252446 original size:2 final size:2
Alignment explanation
Indices: 252441--252471 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
252431 TTTTTCCTGT
252441 TA TA 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 TA TA T
252472 TGTGAGGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:254509 original size:14 final size:14
Alignment explanation
Indices: 254490--254517 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
254480 TTGTAACGAG
254490 TTTTATCCTTTTAT
1 TTTTATCCTTTTAT
254504 TTTTATCCTTTTAT
1 TTTTATCCTTTTAT
254518 CTTCAATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTATCCTTTTAT
Found at i:256581 original size:19 final size:21
Alignment explanation
Indices: 256538--256584 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
256528 CTGTATTTTG
256538 ATTAAAATATTGATGTAACTT
1 ATTAAAATATTGATGTAACTT
256559 -TTAAAA-ATTG-T-TAACATT
1 ATTAAAATATTGATGTAAC-TT
256577 ATTAAAAT
1 ATTAAAAT
256585 TATTTGTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 4 0.17
18 3 0.13
19 10 0.43
20 6 0.26
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (21 bp):
ATTAAAATATTGATGTAACTT
Found at i:259780 original size:23 final size:23
Alignment explanation
Indices: 259754--259802 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
259744 AAATGGTTAA
* * *
259754 ATAAGTTAATATATGACAAAATT
1 ATAAGTAAATAAATCACAAAATT
*
259777 ATAAGTAAATAAATCATAAAATT
1 ATAAGTAAATAAATCACAAAATT
259800 ATA
1 ATA
259803 TTTTGATCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (23 bp):
ATAAGTAAATAAATCACAAAATT
Found at i:265366 original size:19 final size:20
Alignment explanation
Indices: 265342--265384 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
265332 AAGGTAAAAC
265342 ACACCCAAATCCATATGA-G
1 ACACCCAAATCCATATGATG
265361 ACACCCAAATCCATATGATG
1 ACACCCAAATCCATATGATG
265381 ACAC
1 ACAC
265385 GAAAATACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.42, C:0.33, G:0.09, T:0.16
Consensus pattern (20 bp):
ACACCCAAATCCATATGATG
Found at i:265390 original size:20 final size:19
Alignment explanation
Indices: 265342--265390 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
265332 AAGGTAAAAC
*
265342 ACACCCAAATCCATATGAG
1 ACACCAAAATCCATATGAG
*
265361 ACACCCAAATCCATATGATG
1 ACACCAAAATCCATATGA-G
*
265381 ACACGAAAAT
1 ACACCAAAAT
265391 ACTAATCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.45, C:0.29, G:0.10, T:0.16
Consensus pattern (19 bp):
ACACCAAAATCCATATGAG
Found at i:266662 original size:2 final size:2
Alignment explanation
Indices: 266655--266693 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
266645 GGATAAAGTT
266655 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
266694 TGCGATTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:270757 original size:27 final size:27
Alignment explanation
Indices: 270726--270784 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
270716 GTGGCTGAAG
** **
270726 AGGTGGGACCTTTGAAGTTGCCTTCAC
1 AGGTGGGACCTTCAAAGGCGCCTTCAC
270753 AGGTGGGACCTTCAAAGGCGCCTTCAC
1 AGGTGGGACCTTCAAAGGCGCCTTCAC
270780 AGGTG
1 AGGTG
270785 TCTAAACCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (27 bp):
AGGTGGGACCTTCAAAGGCGCCTTCAC
Found at i:275286 original size:21 final size:21
Alignment explanation
Indices: 275260--275305 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
275250 AGCGTAGTGT
275260 ATTTTTGTTTTTTACTTTTGG
1 ATTTTTGTTTTTTACTTTTGG
275281 ATTTTTGTTTTTTACTTTTGG
1 ATTTTTGTTTTTTACTTTTGG
275302 ATTT
1 ATTT
275306 AATGTATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.11, C:0.04, G:0.13, T:0.72
Consensus pattern (21 bp):
ATTTTTGTTTTTTACTTTTGG
Found at i:279367 original size:15 final size:16
Alignment explanation
Indices: 279335--279367 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
279325 TAGGTTTGTG
*
279335 TTAAGTTATTTTGTGT
1 TTAAGTTATTTTATGT
279351 TTAAGTT-TTTTATGT
1 TTAAGTTATTTTATGT
279366 TT
1 TT
279368 GTCATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.18, C:0.00, G:0.15, T:0.67
Consensus pattern (16 bp):
TTAAGTTATTTTATGT
Found at i:280553 original size:2 final size:2
Alignment explanation
Indices: 280546--280585 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
280536 TCATGAGTGA
280546 AT AT AT AT AT AT 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 AT AT AT AT AT AT
280586 GGTTGAGAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:281726 original size:13 final size:14
Alignment explanation
Indices: 281698--281724 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
281688 CCAATTGCCT
281698 TTATTTTTTAAAAA
1 TTATTTTTTAAAAA
281712 TTATTTTTTAAAA
1 TTATTTTTTAAAA
281725 TTTAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTTTTTAAAAA
Found at i:290582 original size:29 final size:29
Alignment explanation
Indices: 290550--290624 Score: 71
Period size: 31 Copynumber: 2.5 Consensus size: 29
290540 AAATTTATAT
290550 ATGAATTTTGATTTGGTGTAAT-TATGTAC
1 ATGAATTTTGATTTGGT-TAATATATGTAC
* * *
290579 ATGAAATTTGAATTGTGGTTTATATGTGTAC
1 ATGAATTTTG-ATT-TGGTTAATATATGTAC
*
290610 ATAAAATTTTGATTT
1 AT-GAATTTTGATTT
290625 TGATTCAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
29 9 0.24
30 7 0.19
31 15 0.41
32 6 0.16
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.48
Consensus pattern (29 bp):
ATGAATTTTGATTTGGTTAATATATGTAC
Found at i:297562 original size:2 final size:2
Alignment explanation
Indices: 297519--297543 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
297509 AAGTAAGATC
297519 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
297544 ATAAAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:311707 original size:2 final size:2
Alignment explanation
Indices: 311700--311731 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
311690 ACAATAATAC
*
311700 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
311732 ATAGAAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:311859 original size:39 final size:39
Alignment explanation
Indices: 311709--311861 Score: 93
Period size: 39 Copynumber: 3.8 Consensus size: 39
311699 CTATATATAA
* * * *
311709 ATATATATATATATATATATATAATAGAAATACACACTACT
1 ATATATAAATATATAAATATATAATACAAA-A-ACAATACT
*
311750 ATATA-ATAATAATAATAAATATAGAAATACAAAAAGCAA-A-T
1 ATATATA-AAT-AT-ATAAATATA-TAATACAAAAA-CAATACT
* *
311791 ATA-ATAAAAATATTAAATTAAAGTAATA-AAAAACAATACT
1 ATATATAAATATA-TAAA-TATA-TAATACAAAAACAATACT
*
311831 ATATATAAATATATATATATATACATA-AAAA
1 ATATATAAATATATAAATATATA-ATACAAAA
311862 TATACACTAA
Statistics
Matches: 89, Mismatches: 11, Indels: 26
0.71 0.09 0.21
Matches are distributed among these distances:
38 6 0.07
39 22 0.25
40 19 0.21
41 20 0.22
42 4 0.04
43 11 0.12
44 7 0.08
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (39 bp):
ATATATAAATATATAAATATATAATACAAAAACAATACT
Found at i:312101 original size:3 final size:3
Alignment explanation
Indices: 312088--312173 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
312078 GAGGGCATAT
312088 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
312132 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
312174 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 9 0.13
3 48 0.71
4 9 0.13
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:312112 original size:12 final size:12
Alignment explanation
Indices: 312088--312170 Score: 73
Period size: 12 Copynumber: 6.8 Consensus size: 12
312078 GAGGGCATAT
312088 ATAATAT-AATA
1 ATAATATAAATA
312099 ATAATATAAATA
1 ATAATATAAATA
312111 ATAATATATACATGA
1 ATAATATA-A-AT-A
312126 GA-AATA-ATAATA
1 -ATAATATA-AATA
312138 ATAATATAAATA
1 ATAATATAAATA
* *
312150 ATAGTAAAAATA
1 ATAATATAAATA
*
312162 ATAAAATAA
1 ATAATATAA
312171 TAAAACAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.13
12 37 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:312132 original size:21 final size:18
Alignment explanation
Indices: 312093--312173 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
312083 CATATATAAT
*
312093 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
312111 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
312132 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
* *
312150 ATAGTAAAAATA-ATAA-A
1 ATAATAATAATAGA-AATA
312167 ATAATAA
1 ATAATAA
312174 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 8 0.15
18 24 0.44
19 5 0.09
20 5 0.09
21 12 0.22
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:312161 original size:27 final size:27
Alignment explanation
Indices: 312088--312174 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
312078 GAGGGCATAT
* *
312088 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* *
312114 AT-ATATACAT--GAG-AAATAATAATA
1 ATAATATAAATAATAGTAAA-AATAATA
312138 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
312165 A-AATAATAAA
1 ATAAT-ATAAA
312175 ACAAAGCTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 7 0.15
27 15 0.31
28 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:312504 original size:25 final size:25
Alignment explanation
Indices: 312472--312520 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
312462 AAAAACTAGC
*
312472 CTTTCC-AAGAAACAAAAATAACCTT
1 CTTTCCAAAAAAACAAAAA-AACCTT
312497 CTTTCCAAAAAAACAAAAAAACCT
1 CTTTCCAAAAAAACAAAAAAACCT
312521 CCTCCAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.53, C:0.24, G:0.02, T:0.20
Consensus pattern (25 bp):
CTTTCCAAAAAAACAAAAAAACCTT
Found at i:312668 original size:21 final size:21
Alignment explanation
Indices: 312630--312686 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
312620 TGGGGTGGTT
312630 TAGGTGGCCAAGGGTGGTGGAG
1 TAGGTGGCCAA-GGTGGTGGAG
*
312652 TTGGTGGCCAAGGTGGTGGAG
1 TAGGTGGCCAAGGTGGTGGAG
312673 TAGGTGGCCAAGGT
1 TAGGTGGCCAAGGT
312687 TTTTATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
21 23 0.70
22 10 0.30
ACGTcount: A:0.18, C:0.11, G:0.51, T:0.21
Consensus pattern (21 bp):
TAGGTGGCCAAGGTGGTGGAG
Found at i:313099 original size:44 final size:44
Alignment explanation
Indices: 313050--313778 Score: 590
Period size: 44 Copynumber: 16.6 Consensus size: 44
313040 TCTTCGATCC
* *
313050 GTTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
*
313094 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* * *
313138 GTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-T
1 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACTT
* * * * * * * *
313181 GCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TT
1 G-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
*
313225 CGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
1 -GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* * *
313270 GTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-T
1 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACTT
** * * * * * * * *
313313 GCTTTACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTT
1 G-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* *
313358 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTTAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* * *
313402 GTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-T
1 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACTT
* * * ** * * * * *
313445 GCTTCACTGTAAGCACAGGAATATCAGATCTGCTATCTTCGATTT
1 G-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* * *
313490 GTTCCCTATAAGCACAGGGATACCAAATCTGCTGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* * * * *
313534 GTTCCCTATAAGCACAGAGATGCC--ATGCTAAAATCTTCGA-TCT
1 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGATATTTTCAACT-T
* * * * * * * * *
313577 GCTTCACTGTAAGCACAAGAATGTCAGATCTGCTATCTTCGA-TCT
1 G-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACT-T
* * * *
313622 GTTCCCTATAAGCACAGGGATGTCAAATCT-ACTATCTTTGATC-C
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGA-TAT-TTTCAACTT
* *
313666 GTTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
*
313710 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
*
313754 GTTCTCTATAAGCACAGGGATGCCA
1 GTTCCCTATAAGCACAGGGATGCCA
313779 TGCTAAAATC
Statistics
Matches: 542, Mismatches: 113, Indels: 60
0.76 0.16 0.08
Matches are distributed among these distances:
42 9 0.02
43 35 0.06
44 452 0.83
45 38 0.07
46 8 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (44 bp):
GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
Found at i:313740 original size:132 final size:132
Alignment explanation
Indices: 313093--313690 Score: 1004
Period size: 132 Copynumber: 4.5 Consensus size: 132
313083 GTTTTCAACT
313093 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGA
313158 TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
313223 T-
131 TC
313224 TCGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 T-GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
*
313289 ATGCCATGCTGAAATCTTTGATCTGCTTTACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
65 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
*
313354 ATT
130 ATC
*
313357 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTTAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGA
*
313422 TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATATCAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
*
313487 TT
131 TC
* * *
313489 TGTTCCCTATAAGCACAGGGATACCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGAGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGA
* * *
313554 TGCCATGCTAAAATCTTCGATCTGCTTCACTGTAAGCACAAGAATGTCAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
313619 TC
131 TC
* * * * *
313621 TGTTCCCTATAAGCACAGGGATGTCAAATCT-ACTATCTTTGATC-CGTTCCCTATAAGCACAGG
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGA-TGT-TTTCAACTTGTTCCCTATAAGCACAGG
313684 GATGCCA
64 GATGCCA
313691 AATCTGTTGT
Statistics
Matches: 442, Mismatches: 21, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
131 1 0.00
132 435 0.98
133 6 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (132 bp):
TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGA
TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
TC
Found at i:313999 original size:68 final size:68
Alignment explanation
Indices: 313890--314088 Score: 260
Period size: 68 Copynumber: 2.9 Consensus size: 68
313880 TCTTCTTCCA
* * ** *
313890 CTGAAACTTCAAGAAGATCTGCTGTGGCTTTTAGCCTCTCCAATGCCATTTTTGGAA-AAAGAGG
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAA-AGA
*
313954 T-TT
65 TCCT
* * * *
313957 GCTGAAACTTCAAGGAGATTTGTTATGGCTTTTAGCCGCTCCAATGCTATTTCAGGAAGAAAAGA
1 -CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
314022 TCCT
65 TCCT
*
314026 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGGA-AAAAGA
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
314089 AATTTGTAAT
Statistics
Matches: 114, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
67 6 0.05
68 104 0.91
69 4 0.04
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
CCT
Found at i:314257 original size:43 final size:44
Alignment explanation
Indices: 314164--314830 Score: 338
Period size: 43 Copynumber: 15.3 Consensus size: 44
314154 TTCTCAACTA
* * *
314164 CTTAAGGGGTTAA-GATCTGTAAATCTTCAGCCTGTTACCCTACTG
1 CTTAGGGGGTTAAGGCT-TGTAAATCTT-AGCTTGTTACCCTACTG
*
314209 CTTAGGGGGTTAAGGCTTGTAAAT-TTGGCTTGTTACCCTACTG
1 CTTAGGGGGTTAAGGCTTGTAAATCTTAGCTTGTTACCCTACTG
* * *** * * * *
314252 TTTAGGGGGTTAAAGCCCAT-CATCTTCGATCTGTTTCCCTACTG
1 CTTAGGGGGTTAAGGCTTGTAAATCTTAGCT-TGTTACCCTACTG
* * *
314296 CTTAGAGGGTTAA-GATCTGTAAATCTTCAGCCTGTTACCCTACTG
1 CTTAGGGGGTTAAGGCT-TGTAAATCTT-AGCTTGTTACCCTACTG
* *
314341 CTTAGGGGTTTAAGGCTTGTAAAT-TCAGCTTGTTACCCTACTG
1 CTTAGGGGGTTAAGGCTTGTAAATCTTAGCTTGTTACCCTACTG
* *** * * * *
314384 CTTAGGGGGTTAAAGCCCAT-CATCTTCGATCTGTTTCCCTACTG
1 CTTAGGGGGTTAAGGCTTGTAAATCTTAGCT-TGTTACCCTACTG
* * * * * * *
314428 CTTA-GGGGATAA-GATCTGCAATTC-GA-TTTGTTACCCTACCG
1 CTTAGGGGGTTAAGGCT-TGTAAATCTTAGCTTGTTACCCTACTG
* * * * ** * * *
314469 ATTAGGGGTTTAAGACCCT-T-CGTCTTCGATCTGTTTCCCTACTG
1 CTTAGGGGGTTAAG-GCTTGTAAATCTTAGCT-TGTTACCCTACTG
* *
314513 CTTAGGGGGTTAA-GATCTGTAAATCTTCAGCCTGTTACCCTACTG
1 CTTAGGGGGTTAAGGCT-TGTAAATCTT-AGCTTGTTACCCTACTG
* * *
314558 CTTAGGGGTTTAAGGCCTGTAAAT-TCAGCTTGTTACCCTACTG
1 CTTAGGGGGTTAAGGCTTGTAAATCTTAGCTTGTTACCCTACTG
* *** * * * *
314601 CTTAGGGGGTTAAAGCCCAT-CATCTTCGATCTGTTTCCCTACTG
1 CTTAGGGGGTTAAGGCTTGTAAATCTTAGCT-TGTTACCCTACTG
* * * * *
314645 CTTA-GGGGATAA-GATCTG-CAAT-TCAG-TCTGTTACCCTACCG
1 CTTAGGGGGTTAAGGCT-TGTAAATCTTAGCT-TGTTACCCTACTG
* * * * ** * * * *
314686 ATTAGGGGTTTAAGACCCT-T-CGTCTTCGATCTATTTCCCTACTG
1 CTTAGGGGGTTAAG-GCTTGTAAATCTTAGCT-TGTTACCCTACTG
* *
314730 CTTAGGGGGTTAA-GATCTGTAAATCTTCAGCCTGTTACCCTACTG
1 CTTAGGGGGTTAAGGCT-TGTAAATCTT-AGCTTGTTACCCTACTG
* *
314775 CTTAGGGGTTTAAGGCTTGTAAAT-TCAGCTTGTTACCCTACTG
1 CTTAGGGGGTTAAGGCTTGTAAATCTTAGCTTGTTACCCTACTG
314818 CTTAGGGGGTTAA
1 CTTAGGGGGTTAA
314831 AGCCCATCAT
Statistics
Matches: 454, Mismatches: 131, Indels: 76
0.69 0.20 0.11
Matches are distributed among these distances:
41 32 0.07
42 24 0.05
43 155 0.34
44 110 0.24
45 123 0.27
46 10 0.02
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (44 bp):
CTTAGGGGGTTAAGGCTTGTAAATCTTAGCTTGTTACCCTACTG
Found at i:314306 original size:44 final size:43
Alignment explanation
Indices: 314106--315001 Score: 430
Period size: 44 Copynumber: 20.6 Consensus size: 43
314096 AATTTCCAGC
* *
314106 CTGTTACCCTACTACTTAGGGGTTTAAGGCCCAT-CATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAA-GCCCTTGCATCTTCGAT
* * * * * ** ** *
314150 CTATTTCTCAACTACTTAAGGGGTTAAGATCTGTAAATCTTC-AGC
1 CTGTTACCCTACTGCTT-AGGGGTTAAGCCCT-TGCATCTTCGA-T
* * * *
314195 CTGTTACCCTACTGCTTAGGGGGTTAAG-GCTTGTAAAT-TTGGCT
1 CTGTTACCCTACTGCTTA-GGGGTTAAGCCCTTG--CATCTTCGAT
* *
314239 -TGTTACCCTACTGTTTAGGGGGTTAAAGCCCAT-CATCTTCGAT
1 CTGTTACCCTACTGCTTA-GGGGTT-AAGCCCTTGCATCTTCGAT
* ** ** *
314282 CTGTTTCCCTACTGCTTAGAGGGTTAAGATCTGTAAATCTTC-AGC
1 CTGTTACCCTACTGCTTAG-GGGTTAAGCCCT-TGCATCTTCGA-T
* * ** *
314327 CTGTTACCCTACTGCTTAGGGGTTTAAG-GCTTGTAAATTC-AG
1 CTGTTACCCTACTGCTTAGGGG-TTAAGCCCTTGCATCTTCGAT
*
314369 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCAT-CATCTTCGAT
1 C-TGTTACCCTACTGCTTA-GGGGTT-AAGCCCTTGCATCTTCGAT
* * ** *
314414 CTGTTTCCCTACTGCTTAGGGGATAAGATC-TGCA-ATTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTAAGCCCTTGCATCTTCGAT
* * * *
314455 TTGTTACCCTACCGATTAGGGGTTTAAGACCCTT-CGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAG-CCCTTGCATCTTCGAT
* ** ** *
314499 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGCCCT-TGCATCTTCGA-T
* * ** *
314544 CTGTTACCCTACTGCTTAGGGGTTTAAGGCC-TGTAAATTC-AG
1 CTGTTACCCTACTGCTTAGGGG-TTAAGCCCTTGCATCTTCGAT
*
314586 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCAT-CATCTTCGAT
1 C-TGTTACCCTACTGCTTA-GGGGTT-AAGCCCTTGCATCTTCGAT
* * ** *
314631 CTGTTTCCCTACTGCTTAGGGGATAAGATC-TGCA-ATTC-AGT
1 CTGTTACCCTACTGCTTAGGGGTTAAGCCCTTGCATCTTCGA-T
* * *
314672 CTGTTACCCTACCGATTAGGGGTTTAAGACCCTT-CGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAG-CCCTTGCATCTTCGAT
* * ** ** *
314716 CTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGCCCT-TGCATCTTCGA-T
* * ** *
314761 CTGTTACCCTACTGCTTAGGGGTTTAAG-GCTTGTAAATTC-AG
1 CTGTTACCCTACTGCTTAGGGG-TTAAGCCCTTGCATCTTCGAT
*
314803 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCAT-CATCTTCGAT
1 C-TGTTACCCTACTGCTTA-GGGGTT-AAGCCCTTGCATCTTCGAT
* * ** * * *
314848 CTGTTTCCCTACTGCTTAGGGGATAAGATC-TACA-ATTCGGT
1 CTGTTACCCTACTGCTTAGGGGTTAAGCCCTTGCATCTTCGAT
* * *
314889 CTGTTACCCTACCGATTAGGGGTTTAAGACCCTT-CGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGG-TTAAG-CCCTTGCATCTTCGAT
* ** *
314933 CTGTTTCCCTACTGCTTAGGGGGTTAAGATC-TGTCAATCTTC-AGC
1 CTGTTACCCTACTGCTTA-GGGGTTAAGCCCTTG-C-ATCTTCGA-T
314978 CTGTTACCCTACTGCTTAGGGGTT
1 CTGTTACCCTACTGCTTAGGGGTT
315002 TAAGGCTTGT
Statistics
Matches: 648, Mismatches: 140, Indels: 128
0.71 0.15 0.14
Matches are distributed among these distances:
40 1 0.00
41 74 0.11
42 36 0.06
43 136 0.21
44 235 0.36
45 166 0.26
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGTTAAGCCCTTGCATCTTCGAT
Found at i:314344 original size:132 final size:132
Alignment explanation
Indices: 314106--315016 Score: 612
Period size: 132 Copynumber: 7.0 Consensus size: 132
314096 AATTTCCAGC
* * * * * * *
314106 CTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCTCAACTACTTAAGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTT-AGG
*
314171 GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTTG
65 GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTTA
314236 GCT
130 GCT
*
314239 -TGTTACCCTACTGTTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAG-G
* *
314303 GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCA
65 GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTTA
314368 GCT
130 GCT
314371 -TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGG
* * ** * * * * *
314435 GATAAGATCTG-CAA--TTC-GATTTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGT---C
66 GTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAG--GCTT-GTAAAT
* *
314493 TTCGAT
127 TTAGCT
* * ** * * *
314499 CTGTTTCCCTACTGCTTAGGGGGTT-AAGATCTGTAAATCTTC-AGCCTGTTACCCTACTGCTTA
1 CTGTTACCCTACTGCTTAGGGGGTTAAAG-CCCAT-CATCTTCGA-TCTGTTTCCCTACTGCTTA
** * * *** *
314562 GGGGTTTAAGGCCTGTAAA--TTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCAT-CAT
63 GGGG-TTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAAT
* *
314624 CTTCGAT
127 -TTAGCT
* * ** * * * *
314631 CTGTTTCCCTACTGCTTA-GGGGAT-AAGATC-TGCA-ATTC-AGTCTGTTACCCTACCGATTAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCAT-CATCTTCGA-TCTGTTTCCCTACTGCTTAG
* ** * * * *
314691 GGGTTTAAGACCCT-T-CGTCTTC-GATCTATTTCCCTACTGCTTAGGGGGTTAA-GATCTGTAA
64 GGG-TTAAGA-TCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGGCT-TGTAA
314752 ATCTTCAGC-
125 AT-TT-AGCT
* * *** ** * *
314761 CTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGT-AAATTC-AGCTTGTTACCCTACTGCTTAGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATC-TGTTTCCCTACTGCTTA-G
* ** * * * * * *
314824 GGGTTAA-AGC-CCATCATCTTC-GATCTGTTTCCCTACTGCTTA-GGGGATAA-G-ATCTACAA
64 GGGTTAAGATCTGTA-AATCTTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTA-AA
* *
314883 -TTCGGT
126 TTTAGCT
* * * * *
314889 CTGTTACCCTACCGATTA-GGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAG-CCCATCATCTTCGATCTGTTTCCCTACTGCTTA-G
* * *
314953 GGGTTAAGATCTGTCAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTGAATT
64 GGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATT
315017 CACTGATTCT
Statistics
Matches: 624, Mismatches: 111, Indels: 86
0.76 0.14 0.10
Matches are distributed among these distances:
127 9 0.01
128 88 0.14
129 91 0.15
130 85 0.14
131 54 0.09
132 288 0.46
133 9 0.01
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (132 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGG
GTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTTAG
CT
Found at i:314495 original size:85 final size:85
Alignment explanation
Indices: 314106--315005 Score: 502
Period size: 85 Copynumber: 10.3 Consensus size: 85
314096 AATTTCCAGC
* * * * * * *
314106 CTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCTCAACTACTTAAGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGATCTGTTTCCCTACTGCTT-AGG
* *
314171 GGTTAAGATCTGTAAATCTTC-AGC
65 GGTTAAGATCTG-CAA--TTCGA-T
* * * * * * * *
314195 CTGTTACCCTACTGCTTAGGGGGTTAAG-GCTTGTAAAT-TTGGCT-TGTTACCCTACTGTTTAG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-T-CATCTTCGATCTGTTTCCCTACTGCTTA-
** *
314257 GGGGTTAAAGCCCAT-CATCTTCGAT
63 GGGGTT-AAGATC-TGCA-ATTCGAT
* * * * *
314282 CTGTTTCCCTACTGCTTAGAGGG-TTAAGA-TCTGTAAATCTTC-AGCCTGTTACCCTACTGCTT
1 CTGTTACCCTACTGCTTAG-GGGTTTAAGACCCT-T-CATCTTCGA-TCTGTTTCCCTACTGCTT
* * *
314344 AGGGGTTTAAG-GCTTGTAAATTC-AG
62 AGGGG-TTAAGATC-TG-CAATTCGAT
* *
314369 CTTGTTACCCTACTGCTTAGGGGGTTAA-AGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAG
1 C-TGTTACCCTACTGCTTAGGGGTTTAAGA-CCCTTCATCTTCGATCTGTTTCCCTACTGCTTAG
*
314433 GGGATAAGATCTGCAATTCGAT
64 GGGTTAAGATCTGCAATTCGAT
* * * *
314455 TTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGATCTGTTTCCCTACTGCTTA-GG
* *
314520 GGTTAAGATCTGTAAATCTTC-AGC
65 GGTTAAGATCTG-CAA--TTCGA-T
* ** * *
314544 CTGTTACCCTACTGCTTAGGGGTTTAAG-GCCTGT-AAATTC-AGCTTGTTACCCTACTGCTTAG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-TCATCTTCGATC-TGTTTCCCTACTGCTTA-
** *
314606 GGGGTTAAAGCCCAT-CATCTTCGAT
63 GGGGTT-AAGATC-TGCA-ATTCGAT
* * * * * * * *
314631 CTGTTTCCCTACTGCTTAGGGG-ATAAGA-TCTGCA-ATTC-AGTCTGTTACCCTACCGATTAGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGA-TCTGTTTCCCTACTGCTTAGG
* * **
314692 GGTTTAAGACCCTTCGTCTTCGAT
65 GG-TTAAGA-TCTGC-AATTCGAT
* * * * * * *
314716 CTATTTCCCTACTGCTTAGGGGGTTAAGA-TCTGTAAATCTTC-AGCCTGTTACCCTACTGCTTA
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-T-CATCTTCGA-TCTGTTTCCCTACTGCTTA
* * *
314779 GGGGTTTAAG-GCTTGTAAATTC-AG
63 GGGG-TTAAGATC-TG-CAATTCGAT
* *
314803 CTTGTTACCCTACTGCTTAGGGGGTTAA-AGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAG
1 C-TGTTACCCTACTGCTTAGGGGTTTAAGA-CCCTTCATCTTCGATCTGTTTCCCTACTGCTTAG
* * *
314867 GGGATAAGATCTACAATTCGGT
64 GGGTTAAGATCTGCAATTCGAT
* * *
314889 CTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGATCTGTTTCCCTACTGCTTA-GG
*
314954 GGTTAAGATCTGTCAATCTTC-AGC
65 GGTTAAGATCTG-CAA--TTCGA-T
314978 CTGTTACCCTACTGCTTAGGGGTTTAAG
1 CTGTTACCCTACTGCTTAGGGGTTTAAG
315006 GCTTGTGAAT
Statistics
Matches: 641, Mismatches: 111, Indels: 118
0.74 0.13 0.14
Matches are distributed among these distances:
84 8 0.01
85 171 0.27
86 56 0.09
87 133 0.21
88 120 0.19
89 149 0.23
90 4 0.01
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (85 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGG
GTTAAGATCTGCAATTCGAT
Found at i:314504 original size:217 final size:217
Alignment explanation
Indices: 314239--315018 Score: 1411
Period size: 217 Copynumber: 3.6 Consensus size: 217
314229 AAATTTGGCT
* * * * * *
314239 TGTTACCCTACTGTTTAGGGGGTTAA-AGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGAG
1 TGTTACCCTACCGATTAGGGGTTTAAGA-CCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGG
314303 GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCA
65 GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCA
314368 GCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAG
130 GCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAG
*
314433 GGGATAAGATCTGCAATTCGATT
195 GGGATAAGATCTGCAATTCGATC
314456 TGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGG
1 TGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGG
*
314521 GTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCTGTAAATTCAG
66 GTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAG
314586 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGG
131 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGG
314651 GGATAAGATCTGCAATTC-AGTC
196 GGATAAGATCTGCAATTCGA-TC
*
314673 TGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTATTTCCCTACTGCTTAGGGG
1 TGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGG
314738 GTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAG
66 GTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAG
314803 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGG
131 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGG
* *
314868 GGATAAGATCTACAATTCGGTC
196 GGATAAGATCTGCAATTCGATC
314890 TGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGG
1 TGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGG
* *
314955 GTTAAGATCTGTCAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTGAATTCA
66 GTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCA
315019 CTGATTCTAG
Statistics
Matches: 545, Mismatches: 15, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
216 1 0.00
217 543 1.00
218 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (217 bp):
TGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGG
GTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAG
CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGG
GGATAAGATCTGCAATTCGATC
Found at i:315175 original size:66 final size:66
Alignment explanation
Indices: 315069--315195 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
315059 TCTATGCTTA
*
315069 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATGAAT
315134 G
66 G
* *
315135 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTAT
315196 TATATGAATG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATGAAT
G
Found at i:316356 original size:6 final size:6
Alignment explanation
Indices: 316347--316394 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
316337 TGTTTTTTTT
*
316347 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCA TTTGCC TTTGCC TTTGCC
1 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
316395 ATATAACTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.02, C:0.31, G:0.17, T:0.50
Consensus pattern (6 bp):
TTTGCC
Found at i:320304 original size:12 final size:12
Alignment explanation
Indices: 320282--320324 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
320272 AATAAAAAAC
320282 AATACTATATATA
1 AATA-TATATATA
320295 AATATATATATA
1 AATATATATATA
* * *
320307 TATATACATAAA
1 AATATATATATA
320319 AATATA
1 AATATA
320325 CACTAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 22 0.85
13 4 0.15
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (12 bp):
AATATATATATA
Found at i:320560 original size:3 final size:3
Alignment explanation
Indices: 320547--320629 Score: 57
Period size: 3 Copynumber: 27.3 Consensus size: 3
320537 GAGGGCATAT
**
320547 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GGA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A ATA ATA ATA
* *
320594 ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
320630 AACAAAGCTC
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
2 8 0.13
3 45 0.71
4 9 0.14
5 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:320571 original size:12 final size:12
Alignment explanation
Indices: 320547--320626 Score: 67
Period size: 12 Copynumber: 6.8 Consensus size: 12
320537 GAGGGCATAT
320547 ATAATAT-AATA
1 ATAATATAAATA
320558 ATAATATAAATA
1 ATAATATAAATA
*
320570 ATAATATATACATG
1 ATAATATA-A-ATA
**
320584 AGGA-AT-AATA
1 ATAATATAAATA
320594 ATAATATAAATA
1 ATAATATAAATA
* *
320606 ATAGTAAAAATA
1 ATAATATAAATA
*
320618 ATAAAATAA
1 ATAATATAA
320627 TAAAACAAAG
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
10 4 0.08
11 10 0.19
12 32 0.60
13 3 0.06
14 4 0.08
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:320577 original size:30 final size:32
Alignment explanation
Indices: 320543--320608 Score: 82
Period size: 36 Copynumber: 2.0 Consensus size: 32
320533 TGAAGAGGGC
320543 ATATATA-AT-ATAATAATAATATAAATAATA
1 ATATATACATGATAATAATAATATAAATAATA
320573 ATATATACATGAGGAATAATAATAATATAAATAATA
1 ATATATACAT---G-ATAATAATAATATAAATAATA
320609 GTAAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
30 7 0.23
31 2 0.07
36 21 0.70
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (32 bp):
ATATATACATGATAATAATAATATAAATAATA
Found at i:321005 original size:23 final size:20
Alignment explanation
Indices: 320963--321023 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 20
320953 TCTTTCCAAA
320963 AAAACAAAAAAACCTCCTCC
1 AAAACAAAAAAACCTCCTCC
*
320983 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAA-AA-AA-CCTCCTCC
321006 AAAA-AACCAAAAACCTCC
1 AAAACAA--AAAAACCTCC
321024 CTTTGAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
20 8 0.24
21 6 0.18
22 6 0.18
23 13 0.38
24 1 0.03
ACGTcount: A:0.54, C:0.33, G:0.02, T:0.11
Consensus pattern (20 bp):
AAAACAAAAAAACCTCCTCC
Found at i:321128 original size:21 final size:21
Alignment explanation
Indices: 321090--321146 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
321080 TGGGGTGGTT
321090 TAGGTGGCCAAGGGTGGTGGAG
1 TAGGTGGCCAA-GGTGGTGGAG
*
321112 TTGGTGGCCAAGGTGGTGGAG
1 TAGGTGGCCAAGGTGGTGGAG
321133 TAGGTGGCCAAGGT
1 TAGGTGGCCAAGGT
321147 TTTTATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
21 23 0.70
22 10 0.30
ACGTcount: A:0.18, C:0.11, G:0.51, T:0.21
Consensus pattern (21 bp):
TAGGTGGCCAAGGTGGTGGAG
Found at i:325407 original size:3 final size:3
Alignment explanation
Indices: 325399--325424 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
325389 TAATTCGAGA
325399 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
325425 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:326286 original size:2 final size:2
Alignment explanation
Indices: 326279--326307 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
326269 TTTAAGCCAC
326279 TA 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 TA T
326308 GGCTTTATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:340228 original size:14 final size:15
Alignment explanation
Indices: 340200--340229 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
340190 ATAAAATTTT
340200 AAAAATTAAAGTTAA
1 AAAAATTAAAGTTAA
340215 AAAAATTAAA-TTAA
1 AAAAATTAAAGTTAA
340229 A
1 A
340230 TTATAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AAAAATTAAAGTTAA
Found at i:342661 original size:16 final size:16
Alignment explanation
Indices: 342642--342675 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
342632 TATATATATA
*
342642 TATATAGACACACACT
1 TATATACACACACACT
*
342658 TATATACATACACACT
1 TATATACACACACACT
342674 TA
1 TA
342676 ACAGAAGCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.24, G:0.03, T:0.29
Consensus pattern (16 bp):
TATATACACACACACT
Found at i:342663 original size:2 final size:2
Alignment explanation
Indices: 342617--342647 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
342607 ACAACTCGTA
342617 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
342648 GACACACACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:343391 original size:2 final size:2
Alignment explanation
Indices: 343384--343426 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
343374 TTAATTTTGA
343384 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
343426 A
1 A
343427 AACTAATTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:347210 original size:13 final size:13
Alignment explanation
Indices: 347188--347218 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
347178 AAATTCTCTA
347188 ATTA-GTCCCTGT
1 ATTATGTCCCTGT
347200 ATTATGTCCCTGT
1 ATTATGTCCCTGT
347213 ATTATG
1 ATTATG
347219 GCGTATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.45
Consensus pattern (13 bp):
ATTATGTCCCTGT
Found at i:353034 original size:2 final size:2
Alignment explanation
Indices: 353027--353055 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
353017 TTGTGTTGTC
353027 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
353056 AAAGGGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:365757 original size:33 final size:35
Alignment explanation
Indices: 365712--365786 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 35
365702 AACTTCACTC
*
365712 TATCACTTG-AAC-ATAACTAATTGTGGGCAAAAA
1 TATCACTAGAAACAATAACTAATTGTGGGCAAAAA
365745 TATCACTAGAACAACAATAACTAATTGTGGGCAAAAA
1 TATCACTAG-A-AACAATAACTAATTGTGGGCAAAAA
365782 TATCA
1 TATCA
365787 TGAGACAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
33 8 0.22
36 3 0.08
37 26 0.70
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (35 bp):
TATCACTAGAAACAATAACTAATTGTGGGCAAAAA
Found at i:370438 original size:7 final size:7
Alignment explanation
Indices: 370426--370451 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
370416 TTTTTTTCCT
370426 AAAAATA
1 AAAAATA
370433 AAAAATA
1 AAAAATA
370440 AAAAATA
1 AAAAATA
370447 AAAAA
1 AAAAA
370452 CTGAGCTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:376071 original size:15 final size:15
Alignment explanation
Indices: 376051--376081 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
376041 GCAATCCAAA
376051 TCCTAATACAAAGGC
1 TCCTAATACAAAGGC
*
376066 TCCTAATACGAAGGC
1 TCCTAATACAAAGGC
376081 T
1 T
376082 TCCATGTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (15 bp):
TCCTAATACAAAGGC
Found at i:379423 original size:37 final size:37
Alignment explanation
Indices: 379381--379478 Score: 98
Period size: 32 Copynumber: 2.8 Consensus size: 37
379371 ATGATATTTG
*
379381 TTAAACTAGTGCTATATTTCATTTTGTTTCATATCCC
1 TTAAACTAGTGCTATATTTCATTTTGTTTCATATACC
* * **
379418 TTAAACTAAT-CTGTA---C-TTTTGTTTTGTATACC
1 TTAAACTAGTGCTATATTTCATTTTGTTTCATATACC
* *
379450 TTAAATTGGTGCTATATTTCATTTTGTTT
1 TTAAACTAGTGCTATATTTCATTTTGTTT
379479 AAGATGATAT
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
32 20 0.43
33 5 0.11
36 5 0.11
37 17 0.36
ACGTcount: A:0.23, C:0.14, G:0.10, T:0.52
Consensus pattern (37 bp):
TTAAACTAGTGCTATATTTCATTTTGTTTCATATACC
Found at i:381932 original size:2 final size:2
Alignment explanation
Indices: 381925--381953 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
381915 TTCAAGCATC
381925 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
381954 TAATAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:387840 original size:18 final size:21
Alignment explanation
Indices: 387795--387840 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
387785 CGTTGAATTT
387795 AATTAAATAAAAAGTATAAAA
1 AATTAAATAAAAAGTATAAAA
*
387816 ATTTTAAA-AAAAA-TA-AAAA
1 A-ATTAAATAAAAAGTATAAAA
387835 AATTAA
1 AATTAA
387841 TTCAACTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
18 4 0.18
19 5 0.23
20 2 0.09
21 6 0.27
22 5 0.23
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (21 bp):
AATTAAATAAAAAGTATAAAA
Found at i:389216 original size:16 final size:17
Alignment explanation
Indices: 389195--389227 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
389185 TCCACACAGC
*
389195 AAAATTGATTTG-TTTT
1 AAAATTAATTTGCTTTT
389211 AAAATTAATTTGCTTTT
1 AAAATTAATTTGCTTTT
389228 TGGTCCTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (17 bp):
AAAATTAATTTGCTTTT
Found at i:389867 original size:8 final size:9
Alignment explanation
Indices: 389842--389866 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
389832 ATATTTGTAA
389842 AAAAAAAAT
1 AAAAAAAAT
389851 AAAAAAAAT
1 AAAAAAAAT
389860 AAAAAAA
1 AAAAAAA
389867 TTGGATAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:401198 original size:31 final size:31
Alignment explanation
Indices: 401160--401225 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
401150 ATCCACTCTG
* *
401160 AACTTGGCATTTGTT-CCAATATTGGGGGCTA
1 AACTTGGCAATTGTTCCCAA-ATTGGAGGCTA
*
401191 AACTTGGCAATTGTTCCCAAATTGGAGTCTA
1 AACTTGGCAATTGTTCCCAAATTGGAGGCTA
401222 AACT
1 AACT
401226 CTAGGTCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Consensus pattern (31 bp):
AACTTGGCAATTGTTCCCAAATTGGAGGCTA
Found at i:401305 original size:58 final size:59
Alignment explanation
Indices: 401234--401356 Score: 162
Period size: 59 Copynumber: 2.1 Consensus size: 59
401224 CTCTAGGTCT
* ** *
401234 TTCAAGGACTAACTTGGA-CCAAAAAA-TTTCAAGCCCCAATGTAGGAACAATTGTCAAG
1 TTCAAGGACTAACTTGAATAAAAAAAAGTTT-AAGCCCCAATGTAGGAACAATTATCAAG
* *
401292 TTCAAGGTCTAACTTGAATAAAAAAAAGTTTAATCCCCAATGTAGGAACAATTATCAAG
1 TTCAAGGACTAACTTGAATAAAAAAAAGTTTAAGCCCCAATGTAGGAACAATTATCAAG
401351 TT-AAGG
1 TTCAAGG
401357 GCCTTTAGAC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
58 20 0.35
59 34 0.60
60 3 0.05
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.25
Consensus pattern (59 bp):
TTCAAGGACTAACTTGAATAAAAAAAAGTTTAAGCCCCAATGTAGGAACAATTATCAAG
Found at i:409784 original size:14 final size:14
Alignment explanation
Indices: 409744--409788 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
409734 AAATTTGAAA
409744 AAAATATATAAATT
1 AAAATATATAAATT
409758 AAAATGAT-TAAATT
1 AAAAT-ATATAAATT
*
409772 AAAATATAAAAATT
1 AAAATATATAAATT
409786 AAA
1 AAA
409789 TGTAACTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 2 0.07
14 24 0.86
15 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (14 bp):
AAAATATATAAATT
Found at i:415146 original size:29 final size:29
Alignment explanation
Indices: 415052--415146 Score: 86
Period size: 31 Copynumber: 3.1 Consensus size: 29
415042 TAAATTGTAC
*
415052 AATTGAATCAAAATCAAAGTTTCATGTATA
1 AATTGAA-CCAAATCAAAGTTTCATGTATA
* *
415082 CATATGAACCACAATTC-AAGTTTCATGTGTA
1 AAT-TGAACCA-AA-TCAAAGTTTCATGTATA
*
415113 TAATTGCACCAAATCAAAGTTT-ATGTATCA
1 -AATTGAACCAAATCAAAGTTTCATGTAT-A
415143 AATT
1 AATT
415147 ACACATTGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
29 11 0.21
30 13 0.25
31 25 0.47
32 4 0.08
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.34
Consensus pattern (29 bp):
AATTGAACCAAATCAAAGTTTCATGTATA
Done.