Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 57 of 125
Found at i:11328315 original size:51 final size:50
Alignment explanation
Indices: 11328253--11328362 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 50
11328243 AGGAAATAGA
* * *
11328253 AGGTTTAGGGTTTTGATTTTAGAGTTTGAAGATTTTAGGG-TTTGGGTTTTG
1 AGGTTTGGGGTTTTGATTTAAGAGTTT--AGATTTTAGGGATTTGGATTTTG
11328304 AGGTTTGGGGTTTTGATTTAAGAGTTTAGATTTTAGGGATTTTGGATTTTG
1 AGGTTTGGGGTTTTGATTTAAGAGTTTAGATTTTAGGGA-TTTGGATTTTG
*
11328355 GGGTTTGG
1 AGGTTTGG
11328363 ATTTAAGAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
49 11 0.21
51 42 0.79
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (50 bp):
AGGTTTGGGGTTTTGATTTAAGAGTTTAGATTTTAGGGATTTGGATTTTG
Found at i:11328344 original size:23 final size:22
Alignment explanation
Indices: 11328318--11328412 Score: 84
Period size: 23 Copynumber: 4.2 Consensus size: 22
11328308 TTGGGGTTTT
*
11328318 GATTTAAGAGTTTAGATTTTAGG
1 GATTTAAGAGTTTAGAGTTT-GG
** * * *
11328341 GATTTTGGATTTTGGGGTTT-G
1 GATTTAAGAGTTTAGAGTTTGG
*
11328362 GATTTAAGAGTTTAAAGGTTTGG
1 GATTTAAGAGTTTAGA-GTTTGG
*
11328385 GATTTAAGAGTTTAAAGGTTTGG
1 GATTTAAGAGTTTAGA-GTTTGG
11328408 GATTT
1 GATTT
11328413 CGGATTTGGG
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
21 11 0.19
22 4 0.07
23 43 0.74
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (22 bp):
GATTTAAGAGTTTAGAGTTTGG
Found at i:11328383 original size:22 final size:23
Alignment explanation
Indices: 11328356--11328412 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
11328346 TGGATTTTGG
11328356 GGTTT-GGATTTAAGAGTTTAAA
1 GGTTTGGGATTTAAGAGTTTAAA
11328378 GGTTTGGGATTTAAGAGTTTAAA
1 GGTTTGGGATTTAAGAGTTTAAA
11328401 GGTTTGGGATTT
1 GGTTTGGGATTT
11328413 CGGATTTGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.15
23 29 0.85
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (23 bp):
GGTTTGGGATTTAAGAGTTTAAA
Found at i:11328387 original size:44 final size:44
Alignment explanation
Indices: 11328291--11328389 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 44
11328281 AAGATTTTAG
* *
11328291 GGTTTGGG-TTTTGAGGTTTGGGGTTTTGATTTAAGAGTTTAGA
1 GGTTTGGGATTTTGAGGTTTGGGGTTTGGATTTAAGAGTTTAAA
* *
11328334 -TTTTAGGGATTTTG-GATTTTGGGGTTTGGATTTAAGAGTTTAAA
1 GGTTT-GGGATTTTGAG-GTTTGGGGTTTGGATTTAAGAGTTTAAA
11328378 GGTTTGGGATTT
1 GGTTTGGGATTT
11328390 AAGAGTTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
42 3 0.06
43 4 0.09
44 37 0.79
45 3 0.06
ACGTcount: A:0.18, C:0.00, G:0.34, T:0.47
Consensus pattern (44 bp):
GGTTTGGGATTTTGAGGTTTGGGGTTTGGATTTAAGAGTTTAAA
Found at i:11328475 original size:16 final size:16
Alignment explanation
Indices: 11328426--11328475 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
11328416 ATTTGGGGGA
11328426 GGGGTTTGGATTTTAG
1 GGGGTTTGGATTTTAG
* *
11328442 GAGTTTTGGATTTTAG
1 GGGGTTTGGATTTTAG
*
11328458 GGGGTTTGGATTTAAG
1 GGGGTTTGGATTTTAG
11328474 GG
1 GG
11328476 ATTTTGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.42
Consensus pattern (16 bp):
GGGGTTTGGATTTTAG
Found at i:11328481 original size:16 final size:16
Alignment explanation
Indices: 11328430--11328481 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
11328420 GGGGGAGGGG
11328430 TTTGGATTTTA-GGAGT
1 TTTGGATTTTAGGGA-T
**
11328446 TTTGGATTTTAGGGGG
1 TTTGGATTTTAGGGAT
*
11328462 TTTGGATTTAAGGGAT
1 TTTGGATTTTAGGGAT
11328478 TTTG
1 TTTG
11328482 AAAATTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 28 0.93
17 2 0.07
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (16 bp):
TTTGGATTTTAGGGAT
Found at i:11329559 original size:15 final size:15
Alignment explanation
Indices: 11329539--11329572 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
11329529 CTGTTTGACT
*
11329539 TTTTTTTTGTTTCTA
1 TTTTTTGTGTTTCTA
11329554 TTTTTTGTGTTTCTA
1 TTTTTTGTGTTTCTA
11329569 TTTT
1 TTTT
11329573 CATGGTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.06, G:0.09, T:0.79
Consensus pattern (15 bp):
TTTTTTGTGTTTCTA
Found at i:11330415 original size:109 final size:109
Alignment explanation
Indices: 11330221--11330635 Score: 503
Period size: 109 Copynumber: 3.8 Consensus size: 109
11330211 AAATTTATGT
* * * *
11330221 CCGGAGGTCTTACAGAA-TCAACTGGGATAACATCGCAAGTCAAAAAATAAAGAATCGATCAGGA
1 CCGGAGGTCTTACAGAATTGATC-GGGATAACACCGCAAGTC-AAAAATAAAGAATCGATCGGGA
* * *
11330285 TAACACCGCGAATCGAAATTATGCTCGGAGGTATTAGAAATCATGC
64 TAACACCACGAATCGAAATTATGATCGAAGGTATTAGAAATCATGC
* * * *
11330331 CTGGAGGTCTTACAGAATTGATTGGGATAACACCACAAGTCAAAAATAAAGAATCGATCGGGACA
1 CCGGAGGTCTTACAGAATTGATCGGGATAACACCGCAAGTCAAAAATAAAGAATCGATCGGGATA
* * *
11330396 ACACCATGAATCGAAATTAT-ATCCGAAGGTCTTAAAAATCATGC
66 ACACCACGAATCGAAATTATGAT-CGAAGGTATTAGAAATCATGC
* * * * *
11330440 TCGGAGGTCTTACAGAATTGATCAGGATAACATCGTAAGTCAAAAATAAAGAATCGATTGGGATA
1 CCGGAGGTCTTACAGAATTGATCGGGATAACACCGCAAGTCAAAAATAAAGAATCGATCGGGATA
* * * *
11330505 ATATCACGAA-CTGAATTTATGATCGAAAGTATTAGAAATCATGC
66 ACACCACGAATC-GAAATTATGATCGAAGGTATTAGAAATCATGC
* * * *
11330549 CCAGAGGTCTTATAGAATTGATCGGGATAACACCGTAAGTCAAAAGATAAAGAATCGATCGAGAT
1 CCGGAGGTCTTACAGAATTGATCGGGATAACACCGCAAGTCAAAA-ATAAAGAATCGATCGGGAT
* *
11330614 AACATCACGAATCTAAATTATG
65 AACACCACGAATCGAAATTATG
11330636 CCCAGAGGTC
Statistics
Matches: 259, Mismatches: 40, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
108 2 0.01
109 186 0.72
110 68 0.26
111 3 0.01
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (109 bp):
CCGGAGGTCTTACAGAATTGATCGGGATAACACCGCAAGTCAAAAATAAAGAATCGATCGGGATA
ACACCACGAATCGAAATTATGATCGAAGGTATTAGAAATCATGC
Found at i:11330568 original size:218 final size:220
Alignment explanation
Indices: 11330222--11330634 Score: 564
Period size: 218 Copynumber: 1.9 Consensus size: 220
11330212 AATTTATGTC
*
11330222 CGGAGGTCTTACAGAATCAACTGGGATAACATCGCAAGTCAAAAAATAAAGAATCGATCAGGATA
1 CGGAGGTCTTACAGAATCAACTAGGATAACATCGCAAGTCAAAAAATAAAGAATCGATCAGGATA
* * * * **
11330287 ACACCGCGAATCGAAATTATGCTCGGAGGTATTAGAAATCATGCCTGGAGGTCTTACAGAATTGA
66 ACACCACGAATCGAAATTATGATCGAAAGTATTAGAAATCATGCCCAGAGGTCTTACAGAATTGA
* * *
11330352 TTGGGATAACACCACAAGTCAAAA-ATAAAGAATCGATCGGGACAACACCATGAATCGAAATTAT
131 TCGGGATAACACCACAAGTCAAAAGATAAAGAATCGATCGAGACAACACCACGAATCGAAATTAT
11330416 ATCCGAAGGTCTTAAAAATCATGCT
196 ATCCGAAGGTCTTAAAAATCATGCT
** * **
11330441 CGGAGGTCTTACAGAATTGA-TCAGGATAACATCGTAAGTC-AAAAATAAAGAATCGATTGGGAT
1 CGGAGGTCTTACAGAATCAACT-AGGATAACATCGCAAGTCAAAAAATAAAGAATCGATCAGGAT
* * * *
11330504 AATATCACGAA-CTGAATTTATGATCGAAAGTATTAGAAATCATGCCCAGAGGTCTTATAGAATT
65 AACACCACGAATC-GAAATTATGATCGAAAGTATTAGAAATCATGCCCAGAGGTCTTACAGAATT
** * * *
11330568 GATCGGGATAACACCGTAAGTCAAAAGATAAAGAATCGATCGAGATAACATCACGAATCTAAATT
129 GATCGGGATAACACCACAAGTCAAAAGATAAAGAATCGATCGAGACAACACCACGAATCGAAATT
11330633 AT
194 AT
11330635 GCCCAGAGGT
Statistics
Matches: 167, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
217 1 0.01
218 97 0.58
219 69 0.41
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.23
Consensus pattern (220 bp):
CGGAGGTCTTACAGAATCAACTAGGATAACATCGCAAGTCAAAAAATAAAGAATCGATCAGGATA
ACACCACGAATCGAAATTATGATCGAAAGTATTAGAAATCATGCCCAGAGGTCTTACAGAATTGA
TCGGGATAACACCACAAGTCAAAAGATAAAGAATCGATCGAGACAACACCACGAATCGAAATTAT
ATCCGAAGGTCTTAAAAATCATGCT
Found at i:11330870 original size:121 final size:121
Alignment explanation
Indices: 11330656--11331195 Score: 804
Period size: 121 Copynumber: 4.6 Consensus size: 121
11330646 TTGAAAGTTG
* * *
11330656 TGCCCGGAGGTCTTACAAATCTCAAACTCTTTGAATGCTTCTCATAATCAGAGGCAATGAAATTT
1 TGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTT
* *
11330721 TAAAATTTGAAAATCTTTTAATCTTGAAAGTCGTGTGCAGAGGCTTTTAGAAATTA
66 TAAAATTTGAAAATCTTTTAATCTTGAAAGTCGTGCGCAGAGGCTTTTAGAGATTA
* * *
11330777 TGCCCGGAGGTCTTACAAATCTCAACATCTTTGAATGCTCCTTATAATCAAAGGCAATGAAACTT
1 TGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTT
*
11330842 TAAAATTTGAAAATCTTTTAATCTTGAAAGTCGTGCGCAGAGGTTTTTAGAGATTA
66 TAAAATTTGAAAATCTTTTAATCTTGAAAGTCGTGCGCAGAGGCTTTTAGAGATTA
* * *
11330898 TGTCCGAAGATCTTACAAATCTCAAAATC-TT---TG--------AAT--GAGGCAATGAAACTT
1 TGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTT
* **
11330949 TAAAATTTGAAAATC-TTTAATTCTTAAAAGTTATGCGCAGAGGCTTTTAGAGATTA
66 TAAAATTTGAAAATCTTTTAA-TCTTGAAAGTCGTGCGCAGAGGCTTTTAGAGATTA
11331005 TGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTT
1 TGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTT
* *
11331070 TAAAATTTGAAAATCTTTTAATCTTGAAAGTCGTGCGCAGAGACTTTGAGAGATTA
66 TAAAATTTGAAAATCTTTTAATCTTGAAAGTCGTGCGCAGAGGCTTTTAGAGATTA
*
11331126 TGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGTAATGAAACTT
1 TGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTT
11331191 TAAAA
66 TAAAA
11331196 ATTAATTTTT
Statistics
Matches: 376, Mismatches: 27, Indels: 32
0.86 0.06 0.07
Matches are distributed among these distances:
106 5 0.01
107 86 0.23
108 2 0.01
109 3 0.01
111 2 0.01
117 2 0.01
119 3 0.01
120 2 0.01
121 266 0.71
122 5 0.01
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (121 bp):
TGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAATGAAACTT
TAAAATTTGAAAATCTTTTAATCTTGAAAGTCGTGCGCAGAGGCTTTTAGAGATTA
Found at i:11331103 original size:228 final size:228
Alignment explanation
Indices: 11330706--11331162 Score: 763
Period size: 228 Copynumber: 2.0 Consensus size: 228
11330696 CTCATAATCA
* * * *
11330706 GAGGCAATGAAATTTTAAAATTTGAAAATCTTTTAATCTTGAAAGTCGTGTGCAGAGGCTTTTAG
1 GAGGCAATGAAACTTTAAAATTTGAAAATCTTTTAATCTTAAAAGTCATGCGCAGAGGCTTTTAG
* *
11330771 AAATTATGCCCGGAGGTCTTACAAATCTCAACATCTTTGAATGCTCCTTATAATCAAAGGCAATG
66 AAATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAAAGGCAATG
** * *
11330836 AAACTTTAAAATTTGAAAATCTTTTAATCTTGAAAGTCGTGCGCAGAGGTTTTTAGAGATTATGT
131 AAACTTTAAAATTTGAAAATCTTTTAATCTTGAAAGTCGTGCGCAGAGACTTTGAGAGATTATGC
11330901 CCGAAGATCTTACAAATCTCAAAATCTTTGAAT
196 CCGAAGATCTTACAAATCTCAAAATCTTTGAAT
*
11330934 GAGGCAATGAAACTTTAAAATTTGAAAATC-TTTAATTCTTAAAAGTTATGCGCAGAGGCTTTTA
1 GAGGCAATGAAACTTTAAAATTTGAAAATCTTTTAA-TCTTAAAAGTCATGCGCAGAGGCTTTTA
* *
11330998 GAGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAGAGGCAAT
65 GAAATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAAAGGCAAT
11331063 GAAACTTTAAAATTTGAAAATCTTTTAATCTTGAAAGTCGTGCGCAGAGACTTTGAGAGATTATG
130 GAAACTTTAAAATTTGAAAATCTTTTAATCTTGAAAGTCGTGCGCAGAGACTTTGAGAGATTATG
* *
11331128 CCCGGAGGTCTTACAAATCTCAAAATCTTTGAAT
195 CCCGAAGATCTTACAAATCTCAAAATCTTTGAAT
11331162 G
1 G
11331163 CTCCTCATAA
Statistics
Matches: 213, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
227 5 0.02
228 208 0.98
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (228 bp):
GAGGCAATGAAACTTTAAAATTTGAAAATCTTTTAATCTTAAAAGTCATGCGCAGAGGCTTTTAG
AAATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATCAAAGGCAATG
AAACTTTAAAATTTGAAAATCTTTTAATCTTGAAAGTCGTGCGCAGAGACTTTGAGAGATTATGC
CCGAAGATCTTACAAATCTCAAAATCTTTGAAT
Found at i:11331815 original size:33 final size:33
Alignment explanation
Indices: 11331727--11331972 Score: 200
Period size: 33 Copynumber: 7.5 Consensus size: 33
11331717 TTGGGGTAAA
* * * * *
11331727 ATAAACTGGGCTTAAA-TTTTATTAAAGGTCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* * *
11331759 CTAAACTGGGCTTAAAACCTCATTTGA-GGCCAG
1 ATAAACTGGGCTTAAAGCTTCA-TTGATGGCCAG
* * *
11331792 ATAAATTGGGCTTCAAA-CTTCATTAATGGCCAA
1 ATAAACTGGGCTT-AAAGCTTCATTGATGGCCAG
* *
11331825 ATAAACTGGGCTTAAA--TGTCGTTGATGGCCAA
1 ATAAACTGGGCTTAAAGCT-TCATTGATGGCCAG
*
11331857 ATAAACTGGGTTTAAAGCTTCATTGATGGCCCA-
1 ATAAACTGGGCTTAAAGCTTCATTGATGG-CCAG
* * *
11331890 ATAAACTGGGCTTAAATCTTCATTTGA-GACGAG
1 ATAAACTGGGCTTAAAGCTTCA-TTGATGGCCAG
* * *
11331923 ATAAACTGAGTTTAAAGCTTTATTGATGGCCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* *
11331956 ACAAATTGGGCTTAAAG
1 ATAAACTGGGCTTAAAG
11331973 TTTTTTTTTT
Statistics
Matches: 173, Mismatches: 30, Indels: 21
0.77 0.13 0.09
Matches are distributed among these distances:
31 1 0.01
32 54 0.31
33 104 0.60
34 14 0.08
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (33 bp):
ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
Found at i:11331886 original size:65 final size:66
Alignment explanation
Indices: 11331760--11331971 Score: 232
Period size: 66 Copynumber: 3.2 Consensus size: 66
11331750 AAAGGTCAGC
* * * * * *
11331760 TAAACTGGGCTTAAAACCTCATTTGAGGCCAGATAAATTGGGCTTCAAA-CTTCATTAATGGCCA
1 TAAACTGGGCTTAAATCGTCAGTTGAGGCCAGATAAACTGGG-TTTAAAGCTTCATTGATGGCCA
11331824 AA
65 AA
* *
11331826 TAAACTGGGCTTAAAT-GTC-GTTGATGGCCAAATAAACTGGGTTTAAAGCTTCATTGATGGCCC
1 TAAACTGGGCTTAAATCGTCAGTTGA-GGCCAGATAAACTGGGTTTAAAGCTTCATTGATGGCCA
11331889 AA
65 AA
* * * * * * *
11331891 TAAACTGGGCTTAAATCTTCATTTGAGACGAGATAAACTGAGTTTAAAGCTTTATTGATGGCCAG
1 TAAACTGGGCTTAAATCGTCAGTTGAGGCCAGATAAACTGGGTTTAAAGCTTCATTGATGGCCAA
11331956 A
66 A
* *
11331957 CAAATTGGGCTTAAA
1 TAAACTGGGCTTAAA
11331972 GTTTTTTTTT
Statistics
Matches: 123, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
64 9 0.07
65 47 0.38
66 63 0.51
67 4 0.03
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (66 bp):
TAAACTGGGCTTAAATCGTCAGTTGAGGCCAGATAAACTGGGTTTAAAGCTTCATTGATGGCCAA
A
Found at i:11336095 original size:41 final size:41
Alignment explanation
Indices: 11336038--11336119 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
11336028 TTCAAAATGG
11336038 GTTATCTAGATATATCCTTTCTATCTCAAAAGTTTGGTGAA
1 GTTATCTAGATATATCCTTTCTATCTCAAAAGTTTGGTGAA
*
11336079 GTTATCTAGATATATCCTTTCTGTCTCAAAAGTTTGGTGAA
1 GTTATCTAGATATATCCTTTCTATCTCAAAAGTTTGGTGAA
11336120 AACATACTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (41 bp):
GTTATCTAGATATATCCTTTCTATCTCAAAAGTTTGGTGAA
Found at i:11338242 original size:19 final size:19
Alignment explanation
Indices: 11338210--11338250 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11338200 GATTGACCTG
*
11338210 AAATAAATACCACATATTC
1 AAATAAATACCACATAATC
11338229 AAATATAATA-CACATAATC
1 AAATA-AATACCACATAATC
11338248 AAA
1 AAA
11338251 GGATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.59, C:0.17, G:0.00, T:0.24
Consensus pattern (19 bp):
AAATAAATACCACATAATC
Found at i:11340037 original size:14 final size:14
Alignment explanation
Indices: 11339991--11340093 Score: 64
Period size: 14 Copynumber: 6.7 Consensus size: 14
11339981 AAATGGAAGG
* *
11339991 TTTAGGATTTTGAT
1 TTTAGGGTTTGGAT
*
11340005 TTTAGAGTTTGAAGAT
1 TTTAGGGTTTG--GAT
11340021 TTTAGGGTTTGGAT
1 TTTAGGGTTTGGAT
11340035 TTT-GAGGTTTAGGGTATT
1 TTTAG-GGTTT--GG-A-T
*
11340053 GATTTAAGAGTTTGGAT
1 --TTT-AGGGTTTGGAT
11340070 TTTAGGGTTTGGAT
1 TTTAGGGTTTGGAT
*
11340084 TTTAGAGTTT
1 TTTAGGGTTT
11340094 AAAGGTTTGG
Statistics
Matches: 71, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
13 1 0.01
14 38 0.54
15 3 0.04
16 15 0.21
17 2 0.03
18 2 0.03
19 2 0.03
20 3 0.04
21 4 0.06
22 1 0.01
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (14 bp):
TTTAGGGTTTGGAT
Found at i:11340065 original size:21 final size:21
Alignment explanation
Indices: 11340016--11340065 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
11340006 TTAGAGTTTG
*
11340016 AAGATTTTAGGGTTTGGATTT
1 AAGAGTTTAGGGTTTGGATTT
*
11340037 -TGAGGTTTAGGGTATT-GATTT
1 AAGA-GTTTAGGGT-TTGGATTT
11340058 AAGAGTTT
1 AAGAGTTT
11340066 GGATTTTAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 6
0.72 0.09 0.19
Matches are distributed among these distances:
20 2 0.09
21 17 0.74
22 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (21 bp):
AAGAGTTTAGGGTTTGGATTT
Found at i:11340094 original size:49 final size:50
Alignment explanation
Indices: 11339988--11340094 Score: 155
Period size: 49 Copynumber: 2.1 Consensus size: 50
11339978 AGGAAATGGA
* *
11339988 AGGTTTAGGATTTTGATTTTAGAGTTTGAAGATTTTAGGGTTTGGATTTTG
1 AGGTTTAGGATATTGATTTAAGAGTTTG-AGATTTTAGGGTTTGGATTTTG
*
11340039 AGGTTTAGGGTATTGATTTAAGAGTTTG-GATTTTAGGGTTTGGATTTT-
1 AGGTTTAGGATATTGATTTAAGAGTTTGAGATTTTAGGGTTTGGATTTTG
11340087 AGAGTTTA
1 AG-GTTTA
11340095 AAGGTTTGGG
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
48 2 0.04
49 25 0.48
51 25 0.48
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (50 bp):
AGGTTTAGGATATTGATTTAAGAGTTTGAGATTTTAGGGTTTGGATTTTG
Found at i:11340151 original size:15 final size:15
Alignment explanation
Indices: 11340122--11340161 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
11340112 ATTTTGGGGG
11340122 GGGTTTTGGATTTTA
1 GGGTTTTGGATTTTA
*
11340137 GGGTGTTTGGATTTAA
1 GGGT-TTTGGATTTTA
11340153 GGGATTTTG
1 GGG-TTTTG
11340162 AAAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 17 0.77
17 1 0.05
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.47
Consensus pattern (15 bp):
GGGTTTTGGATTTTA
Found at i:11341622 original size:32 final size:33
Alignment explanation
Indices: 11341562--11341623 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
11341552 TTTGTTTTGT
11341562 TTTTATTTTTTTATATAATTTATAATTATTTTA
1 TTTTATTTTTTTATATAATTTATAATTATTTTA
*
11341595 TTTTATTTTTTT-TA-AATATTATTATTATT
1 TTTTATTTTTTTATATAAT-TTATAATTATT
11341624 ATTAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 3 0.11
32 12 0.44
33 12 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (33 bp):
TTTTATTTTTTTATATAATTTATAATTATTTTA
Found at i:11343953 original size:18 final size:19
Alignment explanation
Indices: 11343918--11343958 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
11343908 ATAAATAAAT
*
11343918 ATTATTAATATTTTACAA-
1 ATTATTAATATTTAACAAG
11343936 ATTATTAAT-TTTAAACAAG
1 ATTATTAATATTT-AACAAG
11343955 ATTA
1 ATTA
11343959 AAATTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 3 0.15
18 13 0.65
19 4 0.20
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (19 bp):
ATTATTAATATTTAACAAG
Found at i:11344085 original size:17 final size:18
Alignment explanation
Indices: 11344059--11344100 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
11344049 CAATGATATT
* *
11344059 TAATTTTTAAT-AATTAA
1 TAATTATTAATCAAATAA
11344076 TAATTATTAATCAAATAA
1 TAATTATTAATCAAATAA
11344094 -AATTATT
1 TAATTATT
11344101 TCAAATCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATTATTAATCAAATAA
Found at i:11344148 original size:21 final size:21
Alignment explanation
Indices: 11344122--11344161 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11344112 CAGTTAAGAT
*
11344122 CAATTTGGTAATAAAATCATC
1 CAATTTAGTAATAAAATCATC
*
11344143 CAATTTAGTAATAAGATCA
1 CAATTTAGTAATAAAATCA
11344162 CTTAGTGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (21 bp):
CAATTTAGTAATAAAATCATC
Found at i:11346960 original size:32 final size:32
Alignment explanation
Indices: 11346924--11346989 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
11346914 TAAGTAGTAG
11346924 TCAAGGAAGAATTCAAATAAGAATACAGAAGA
1 TCAAGGAAGAATTCAAATAAGAATACAGAAGA
* * *
11346956 TCAAGGAAGAATTTAAATAAGAATATAGAGGA
1 TCAAGGAAGAATTCAAATAAGAATACAGAAGA
11346988 TC
1 TC
11346990 CTATATATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.53, C:0.08, G:0.20, T:0.20
Consensus pattern (32 bp):
TCAAGGAAGAATTCAAATAAGAATACAGAAGA
Found at i:11355660 original size:15 final size:15
Alignment explanation
Indices: 11355637--11355696 Score: 54
Period size: 15 Copynumber: 4.0 Consensus size: 15
11355627 TGTTTACTTT
*
11355637 TTTAATTTCTTTATC
1 TTTATTTTCTTTATC
11355652 TTTATTTTCTTT-TAC
1 TTTATTTTCTTTAT-C
*
11355667 TTT-TATTTCATTTATT
1 TTTAT-TTTC-TTTATC
11355683 TTTATTTT-TTTATC
1 TTTATTTTCTTTATC
11355697 ATTACTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
14 7 0.19
15 19 0.51
16 9 0.24
17 2 0.05
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTATTTTCTTTATC
Found at i:11355737 original size:18 final size:20
Alignment explanation
Indices: 11355704--11355744 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
11355694 ATCATTACTA
*
11355704 TTTATGTTTATTGATTTATC
1 TTTATGTTTATTGATTTACC
11355724 TTTA-GTTT-TTGATTTACC
1 TTTATGTTTATTGATTTACC
11355742 TTT
1 TTT
11355745 CTTATGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 4 0.20
20 4 0.20
ACGTcount: A:0.17, C:0.07, G:0.10, T:0.66
Consensus pattern (20 bp):
TTTATGTTTATTGATTTACC
Found at i:11356440 original size:19 final size:19
Alignment explanation
Indices: 11356400--11356454 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
11356390 ATTTATTTAT
* *
11356400 TAATTTATTTTAAAATACA
1 TAATGTATTTTAAAATAAA
11356419 TAATGTATTTTAAGAA-AAA
1 TAATGTATTTTAA-AATAAA
*
11356438 TAAT-T-TTTGAAAATAAA
1 TAATGTATTTTAAAATAAA
11356455 AAATAAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 2 0.06
17 8 0.26
18 1 0.03
19 18 0.58
20 2 0.06
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (19 bp):
TAATGTATTTTAAAATAAA
Found at i:11357754 original size:19 final size:19
Alignment explanation
Indices: 11357732--11357769 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11357722 GTAAAGTACT
11357732 GATGCTTTTGTAAGATTTC
1 GATGCTTTTGTAAGATTTC
11357751 GATGCTTTTGTAAGATTTC
1 GATGCTTTTGTAAGATTTC
11357770 ATGTCTCTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.11, G:0.21, T:0.47
Consensus pattern (19 bp):
GATGCTTTTGTAAGATTTC
Found at i:11371759 original size:22 final size:21
Alignment explanation
Indices: 11371732--11371828 Score: 59
Period size: 22 Copynumber: 4.3 Consensus size: 21
11371722 AAAATATTTG
11371732 AATTTTCAATGTGAATTTTGAA
1 AATTTTCAATGTGAATTTT-AA
***
11371754 AATTTTTTTGTGTGAATCTTTAA
1 AA-TTTTCAATGTGAAT-TTTAA
* *
11371777 AGTTTCTCATATGTGAATTTTTGA
1 AATTT-TCA-ATGTGAA-TTTTAA
* **
11371801 AATATTGGATGTGAATTTCTAA
1 AATTTTCAATGTGAATTT-TAA
11371823 AATTTT
1 AATTTT
11371829 TCGAATACGA
Statistics
Matches: 55, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
21 3 0.05
22 19 0.35
23 16 0.29
24 16 0.29
25 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
AATTTTCAATGTGAATTTTAA
Found at i:11371861 original size:45 final size:44
Alignment explanation
Indices: 11371805--11371918 Score: 138
Period size: 45 Copynumber: 2.6 Consensus size: 44
11371795 TTTTGAAATA
*
11371805 TTGGATGTGAATTTCTAAAATTTTTCGAATACGAATCATTGAAGT
1 TTGGATGTGAATTTCTAAAATTTTTCCAATACGAATCATTGAA-T
* * **
11371850 TTGGATGTGAATCTCTAAAATCTTTCCAATGGGAATCATTGAAT
1 TTGGATGTGAATTTCTAAAATTTTTCCAATACGAATCATTGAAT
* * * *
11371894 TTTGATGTGGATTTTTAATATTTTT
1 TTGGATGTGAATTTCTAAAATTTTT
11371919 TGAAGGTGAA
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 20 0.34
45 38 0.66
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.44
Consensus pattern (44 bp):
TTGGATGTGAATTTCTAAAATTTTTCCAATACGAATCATTGAAT
Found at i:11372145 original size:27 final size:25
Alignment explanation
Indices: 11372115--11372205 Score: 67
Period size: 27 Copynumber: 3.4 Consensus size: 25
11372105 AATCTTGTGT
11372115 ATCTTTGAAACCTTATGAATATTTGAA
1 ATCTTTGAAACCTT-TGAAT-TTTGAA
*
11372142 ATC-TTGCAAACCTTTGAGTTTTTGCAA
1 ATCTTTG-AAACCTTTGA-ATTTTG-AA
* * *
11372169 ATCTTTAAAATCTTGCGAACTTTTGAA
1 ATCTTTGAAACCTT-TGAA-TTTTGAA
11372196 ATCTTGTGAA
1 ATCTT-TGAA
11372206 TCTATGAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
26 10 0.20
27 29 0.57
28 12 0.24
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (25 bp):
ATCTTTGAAACCTTTGAATTTTGAA
Found at i:11372157 original size:18 final size:18
Alignment explanation
Indices: 11372086--11372464 Score: 207
Period size: 18 Copynumber: 21.1 Consensus size: 18
11372076 TGAATTTTTA
* * *
11372086 AAATCTTGCAAATTTTTA
1 AAATCTTGCGAATCTTTG
* *
11372104 AAATCTTGTGTATCTTTG
1 AAATCTTGCGAATCTTTG
* ** *
11372122 AAACCTTATGAATATTTG
1 AAATCTTGCGAATCTTTG
* *
11372140 AAATCTTGCAAACCTTTG
1 AAATCTTGCGAATCTTTG
** * * *
11372158 AGTTTTTGCAAATCTTTA
1 AAATCTTGCGAATCTTTG
11372176 AAATCTTGCGAA-CTTTTG
1 AAATCTTGCGAATC-TTTG
* *
11372194 AAATCTTGTGAATCTATG
1 AAATCTTGCGAATCTTTG
*
11372212 AAATCTTGTGAATCTTTG
1 AAATCTTGCGAATCTTTG
* *
11372230 AATTCTTGTGAATCTTTG
1 AAATCTTGCGAATCTTTG
* * *
11372248 AATTCTTACAAAT-TTTG
1 AAATCTTGCGAATCTTTG
** *
11372265 AAATCTTGTAAATCTAT-
1 AAATCTTGCGAATCTTTG
* *
11372282 AAGTTCTTGTGAATCTTTG
1 AA-ATCTTGCGAATCTTTG
* *
11372301 AAATATTGTGAA-CTTTTG
1 AAATCTTGCGAATC-TTTG
*
11372319 AATTCTTGCGAATCTTTG
1 AAATCTTGCGAATCTTTG
*
11372337 AAATCTTAC--ATACTTTG
1 AAATCTTGCGAAT-CTTTG
* * * *
11372354 AATTGTTGTGAATTTTTG
1 AAATCTTGCGAATCTTTG
*
11372372 AATTAT-TTGC-AATTTTTTG
1 AA--ATCTTGCGAA-TCTTTG
* *
11372391 AAATCTTGTGAACCTTTG
1 AAATCTTGCGAATCTTTG
* *
11372409 AATTCTTGTGAATCTTTG
1 AAATCTTGCGAATCTTTG
* * **
11372427 AAATCTTGTGAACCTTCA
1 AAATCTTGCGAATCTTTG
* *
11372445 AAATCTTGTGAATCATTG
1 AAATCTTGCGAATCTTTG
11372463 AA
1 AA
11372465 TTCTCATGAA
Statistics
Matches: 280, Mismatches: 66, Indels: 30
0.74 0.18 0.08
Matches are distributed among these distances:
16 2 0.01
17 30 0.11
18 228 0.81
19 19 0.07
20 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (18 bp):
AAATCTTGCGAATCTTTG
Found at i:11372290 original size:71 final size:71
Alignment explanation
Indices: 11372189--11372343 Score: 215
Period size: 71 Copynumber: 2.2 Consensus size: 71
11372179 TCTTGCGAAC
* * *
11372189 TTTTGAAATCTTGTGAATCTATGAAATCTTGTGAATCTTTGAATTCTTGTGAA-TCTTTGAATTC
1 TTTTGAAATCTTGTAAATCTATGAAATCTTGTGAATCTTTGAAATATTGTGAACT-TTTGAATTC
11372253 TTACAAA
65 TTACAAA
*
11372260 TTTTGAAATCTTGTAAATCTAT-AAGTTCTTGTGAATCTTTGAAATATTGTGAACTTTTGAATTC
1 TTTTGAAATCTTGTAAATCTATGAA-ATCTTGTGAATCTTTGAAATATTGTGAACTTTTGAATTC
* *
11372324 TTGCGAA
65 TTACAAA
11372331 TCTTTGAAATCTT
1 T-TTTGAAATCTT
11372344 ACATACTTTG
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
70 2 0.03
71 61 0.81
72 12 0.16
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (71 bp):
TTTTGAAATCTTGTAAATCTATGAAATCTTGTGAATCTTTGAAATATTGTGAACTTTTGAATTCT
TACAAA
Found at i:11372310 original size:89 final size:88
Alignment explanation
Indices: 11372192--11372433 Score: 290
Period size: 89 Copynumber: 2.7 Consensus size: 88
11372182 TGCGAACTTT
* * *
11372192 TGAAATCTTGTGAATCTATGAAATCTTGTGAATCTTTGAATTCTTGTGAATCTTTGAATTCTTAC
1 TGAATTCTTGTGAATCTTTGAAATCTTGTGAA-CTTTGAATTCTTGTGAATCTTTGAAATCTTAC
*
11372257 AAATTTTGAAATCTTGTAAATCTA
65 AAACTTTGAAATCTTGTAAATCTA
* *
11372281 T-AAGTTCTTGTGAATCTTTGAAATATTGTGAACTTTTGAATTCTTGCGAATCTTTGAAATCTTA
1 TGAA-TTCTTGTGAATCTTTGAAATCTTGTGAAC-TTTGAATTCTTGTGAATCTTTGAAATCTTA
* * * * * *
11372345 CATACTTTGAATTGTTGTGAATTTT
64 CAAACTTTGAAATCTTGTAAATCTA
* *
11372370 TGAATTATT-TGCAATTTTTTGAAATCTTGTGAACCTTTGAATTCTTGTGAATCTTTGAAATCTT
1 TGAATTCTTGTG-AA-TCTTTGAAATCTTGTGAA-CTTTGAATTCTTGTGAATCTTTGAAATCTT
11372434 GTGAACCTTC
Statistics
Matches: 131, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
88 5 0.04
89 79 0.60
90 46 0.35
91 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (88 bp):
TGAATTCTTGTGAATCTTTGAAATCTTGTGAACTTTGAATTCTTGTGAATCTTTGAAATCTTACA
AACTTTGAAATCTTGTAAATCTA
Found at i:11372353 original size:53 final size:54
Alignment explanation
Indices: 11372296--11372397 Score: 136
Period size: 53 Copynumber: 1.9 Consensus size: 54
11372286 TCTTGTGAAT
11372296 CTTTGAAATATTGTGAACTTTTGAATT-CTTGCGAA-TCTTTGAAATCTTACATA
1 CTTTGAAATATTGTGAACTTTTGAATTACTTGC-AATTCTTTGAAATCTTACATA
* * * * *
11372349 CTTTGAATTGTTGTGAATTTTTGAATTATTTGCAATTTTTTGAAATCTT
1 CTTTGAAATATTGTGAACTTTTGAATTACTTGCAATTCTTTGAAATCTT
11372398 GTGAACCTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
53 26 0.62
54 16 0.38
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (54 bp):
CTTTGAAATATTGTGAACTTTTGAATTACTTGCAATTCTTTGAAATCTTACATA
Found at i:11372363 original size:71 final size:69
Alignment explanation
Indices: 11372179--11372415 Score: 196
Period size: 71 Copynumber: 3.3 Consensus size: 69
11372169 ATCTTTAAAA
* * *
11372179 TCTTGCGAA-CTTTTGAAATCTTGTGAATCTATGAA-ATCTTGTGAATCTTTGAATTCTTGTGAA
1 TCTTGCGAATC-TTTGAAATC-T-TAAATCTAT-AAGTTCTTGTGAATCTTTGAATTATTGTGAA
11372242 TCTTTGAAT
62 T-TTTGAAT
* * *
11372251 TCTTACAAAT-TTTGAAATCTTGTAAATCTATAAGTTCTTGTGAATCTTTGAAATATTGTGAACT
1 TCTTGCGAATCTTTGAAATC-T-TAAATCTATAAGTTCTTGTGAATCTTTGAATTATTGTGAA-T
11372315 TTTGAAT
63 TTTGAAT
* * * *
11372322 TCTTGCGAATCTTTGAAATCTTACATACTTTGAA-TTGTTGTGAATTTTTGAATTATT-TGCAAT
1 TCTTGCGAATCTTTGAAATCTTAAAT-CTAT-AAGTTCTTGTGAATCTTTGAATTATTGTG-AA-
*
11372385 TTTTTGAAA
62 -TTTTGAAT
* * *
11372394 TCTTGTGAACCTTTGAATTCTT
1 TCTTGCGAATCTTTGAAATCTT
11372416 GTGAATCTTT
Statistics
Matches: 139, Mismatches: 18, Indels: 16
0.80 0.10 0.09
Matches are distributed among these distances:
70 8 0.06
71 86 0.62
72 45 0.32
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.46
Consensus pattern (69 bp):
TCTTGCGAATCTTTGAAATCTTAAATCTATAAGTTCTTGTGAATCTTTGAATTATTGTGAATTTT
GAAT
Found at i:11372859 original size:14 final size:14
Alignment explanation
Indices: 11372836--11372872 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
11372826 TAAAGTTAAC
* *
11372836 TTAAACATATGTAA
1 TTAAAAATATGAAA
11372850 TTAAAAATATGAAA
1 TTAAAAATATGAAA
11372864 TTAAAAATA
1 TTAAAAATA
11372873 ATAGAAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.32
Consensus pattern (14 bp):
TTAAAAATATGAAA
Found at i:11374213 original size:15 final size:15
Alignment explanation
Indices: 11374192--11374228 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
11374182 TTTGTTTACT
11374192 TTTTATTTTC-TTTA
1 TTTTATTTTCTTTTA
11374206 TCTTTATTTTCTTTTA
1 T-TTTATTTTCTTTTA
11374222 TTTTATT
1 TTTTATT
11374229 CATCTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 15 0.71
16 5 0.24
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATTTTCTTTTA
Found at i:11374243 original size:25 final size:25
Alignment explanation
Indices: 11374186--11374243 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
11374176 TTTATCTTTG
* *
11374186 TTTACT-TTTTATTTTCTTTATCTT
1 TTTACTCTTTTATTTTATTCATCTT
*
11374210 TATT-TTCTTTTATTTTATTCATCTT
1 T-TTACTCTTTTATTTTATTCATCTT
11374235 TTTACTCTT
1 TTTACTCTT
11374244 ATTTCATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTACTCTTTTATTTTATTCATCTT
Found at i:11376205 original size:8 final size:8
Alignment explanation
Indices: 11376188--11376225 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
11376178 TAAAAGTAAG
11376188 AATA-AAA
1 AATATAAA
11376195 AATATAAA
1 AATATAAA
11376203 AATAT-AA
1 AATATAAA
11376210 AATATAAA
1 AATATAAA
*
11376218 AACATAAA
1 AATATAAA
11376226 GAAATTAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 11 0.39
8 17 0.61
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (8 bp):
AATATAAA
Found at i:11376211 original size:15 final size:15
Alignment explanation
Indices: 11376188--11376225 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
11376178 TAAAAGTAAG
*
11376188 AATAAAAAATATAAA
1 AATATAAAATATAAA
11376203 AATATAAAATATAAA
1 AATATAAAATATAAA
*
11376218 AACATAAA
1 AATATAAA
11376226 GAAATTAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AATATAAAATATAAA
Found at i:11376213 original size:22 final size:22
Alignment explanation
Indices: 11376156--11376225 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
11376146 CAAAGTTTAT
* *
11376156 TAAAAA-ATACAATAAATAATTA
1 TAAAAATATAAAATAAA-AAATA
* *
11376178 TAAAAGTA-AGAATAAAAAATA
1 TAAAAATATAAAATAAAAAATA
*
11376199 TAAAAATATAAAATATAAAAACA
1 TAAAAATATAAAATA-AAAAATA
11376222 TAAA
1 TAAA
11376226 GAAATTAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 11 0.28
22 17 0.44
23 11 0.28
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (22 bp):
TAAAAATATAAAATAAAAAATA
Found at i:11376506 original size:127 final size:128
Alignment explanation
Indices: 11376297--11376544 Score: 356
Period size: 127 Copynumber: 1.9 Consensus size: 128
11376287 GACAATTAGT
* * *
11376297 GGTCCACTTATAGTTCTATAATAGTTCAGTCTAATTCTCTAGTGGTTTAAAGTAGTTTTCTAACA
1 GGTCCACTCACAGTTCTATAATAGTTCAGTCTAATTCTCTAGTGCTTTAAAGTAGTTTTCTAACA
* * *
11376362 ATTAAATTCAGTTCTATGGTGACTTGGATTGGTTTAGAAATGGTTTAACTAGACCAATTCGAC
66 ATTAAATTCAGTTCTATGGTGACTTGGACTGGTTTAGAAATGCTTCAACTAGACCAATTCGAC
* * * * * *
11376425 GGTCCACTCACAGTTCTATAATAGTTCAGT-TAATTTTCTAGTGCTTTAGAGTATTTTTTTAGCG
1 GGTCCACTCACAGTTCTATAATAGTTCAGTCTAATTCTCTAGTGCTTTAAAGTAGTTTTCTAACA
*
11376489 GTTAAATTC-GATTCTATGGTGACTTGGACTGGTTTAGAAATGCTTCAACTAGACCA
66 ATTAAATTCAG-TTCTATGGTGACTTGGACTGGTTTAGAAATGCTTCAACTAGACCA
11376545 GTTAAAGGCT
Statistics
Matches: 106, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
126 1 0.01
127 77 0.73
128 28 0.26
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (128 bp):
GGTCCACTCACAGTTCTATAATAGTTCAGTCTAATTCTCTAGTGCTTTAAAGTAGTTTTCTAACA
ATTAAATTCAGTTCTATGGTGACTTGGACTGGTTTAGAAATGCTTCAACTAGACCAATTCGAC
Found at i:11383041 original size:21 final size:21
Alignment explanation
Indices: 11383017--11383059 Score: 52
Period size: 24 Copynumber: 2.0 Consensus size: 21
11383007 CCCATGGTAC
11383017 TTTCT-CATTCGATAGATTTTT
1 TTTCTACATTCGATAG-TTTTT
11383038 TTTCTAAGCATTCGATAGTTTT
1 TTTCT-A-CATTCGATAGTTTT
11383060 CAGAGAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.26
23 4 0.21
24 10 0.53
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (21 bp):
TTTCTACATTCGATAGTTTTT
Found at i:11383631 original size:26 final size:27
Alignment explanation
Indices: 11383602--11383656 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
11383592 AAATTCTGAC
*
11383602 AAGAATGAA-GTTTTAAATATAATAGT
1 AAGAAAGAATGTTTTAAATATAATAGT
* *
11383628 AAGAAAGAATTTTTTAATTATAATAGT
1 AAGAAAGAATGTTTTAAATATAATAGT
11383655 AA
1 AA
11383657 TAATTACAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 8 0.32
27 17 0.68
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (27 bp):
AAGAAAGAATGTTTTAAATATAATAGT
Found at i:11387561 original size:60 final size:59
Alignment explanation
Indices: 11387489--11387621 Score: 164
Period size: 59 Copynumber: 2.2 Consensus size: 59
11387479 TTTGTTATAA
*
11387489 ATTTGTTAAAATTTATTT-GGATTTT-AGTTAACCAATTTATTGAGTTTTTGTTGGATATT-T
1 ATTTGTTGAAATTTATTTAGG-TTTTGA-TT-ACCAATTTATTGAGTTTTTGTTGG-TATTAT
* * *
11387549 ATTTGTTGAAATTTGTTTAGGTTTTGATTATCAATTTATTGAGTTTTTGTTGGTTTTAT
1 ATTTGTTGAAATTTATTTAGGTTTTGATTACCAATTTATTGAGTTTTTGTTGGTATTAT
*
11387608 ATTTATTGAAATTT
1 ATTTGTTGAAATTT
11387622 GTTGGTTATA
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
58 3 0.05
59 37 0.57
60 22 0.34
61 3 0.05
ACGTcount: A:0.25, C:0.02, G:0.16, T:0.57
Consensus pattern (59 bp):
ATTTGTTGAAATTTATTTAGGTTTTGATTACCAATTTATTGAGTTTTTGTTGGTATTAT
Found at i:11387615 original size:26 final size:25
Alignment explanation
Indices: 11387582--11387653 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 25
11387572 TTGATTATCA
*
11387582 ATTTATTGAGTTTTTGTTGGTTTTAT
1 ATTTATTGA-TTTTTGTTGGTTATAT
**
11387608 ATTTATTGAAATTTGTTGGTTATAT
1 ATTTATTGATTTTTGTTGGTTATAT
11387633 ATTTTATTGAATTTTTTGTTG
1 A-TTTATTG-A-TTTTTGTTG
11387654 AGTATTAATG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
25 14 0.37
26 16 0.42
27 1 0.03
28 7 0.18
ACGTcount: A:0.21, C:0.00, G:0.17, T:0.62
Consensus pattern (25 bp):
ATTTATTGATTTTTGTTGGTTATAT
Found at i:11387627 original size:25 final size:26
Alignment explanation
Indices: 11387594--11387643 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
11387584 TTATTGAGTT
*
11387594 TTTGTTGGTTTTATA-TTTATTGAAA
1 TTTGTTGGTTATATATTTTATTGAAA
11387619 TTTGTTGGTTATATATTTTATTGAA
1 TTTGTTGGTTATATATTTTATTGAA
11387644 TTTTTTGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (26 bp):
TTTGTTGGTTATATATTTTATTGAAA
Found at i:11387711 original size:23 final size:22
Alignment explanation
Indices: 11387684--11387747 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
11387674 TTACTTTTTT
11387684 GGGATTTATTTTTAGTATTGTTG-
1 GGGATTTATTTTTA-T-TTGTTGA
11387707 GGGATTT-TTTTTATTTGTTGA
1 GGGATTTATTTTTATTTGTTGA
**
11387728 GTAATTTATTTTTTATTTGT
1 GGGATTTA-TTTTTATTTGT
11387748 GAAAGTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 6 0.17
21 6 0.17
22 6 0.17
23 18 0.50
ACGTcount: A:0.17, C:0.00, G:0.20, T:0.62
Consensus pattern (22 bp):
GGGATTTATTTTTATTTGTTGA
Found at i:11387724 original size:20 final size:23
Alignment explanation
Indices: 11387684--11387740 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
11387674 TTACTTTTTT
11387684 GGGATTTATTTTTAGTATTGTTG
1 GGGATTTATTTTTAGTATTGTTG
11387707 GGGATTT-TTTTTA-T-TTGTTG
1 GGGATTTATTTTTAGTATTGTTG
**
11387727 AGTAATTTATTTTT
1 -GGGATTTATTTTT
11387741 TATTTGTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 6 0.20
21 6 0.20
22 11 0.37
23 7 0.23
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.61
Consensus pattern (23 bp):
GGGATTTATTTTTAGTATTGTTG
Found at i:11391243 original size:29 final size:31
Alignment explanation
Indices: 11391186--11391244 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
11391176 ATCAAAACAT
*
11391186 AATTATTTTAAAAGATTAAGAATTCAAATGG
1 AATTATTTTAAAAGATTAAGAATTAAAATGG
*
11391217 AATTA-TTTAACA-ATTAAGAATTAAAATG
1 AATTATTTTAAAAGATTAAGAATTAAAATG
11391245 AAACCAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 15 0.58
30 6 0.23
31 5 0.19
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (31 bp):
AATTATTTTAAAAGATTAAGAATTAAAATGG
Found at i:11393625 original size:28 final size:28
Alignment explanation
Indices: 11393571--11393649 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 28
11393561 AAAATTATAG
* *
11393571 TAAAATATTTAATATAATATCTAAATTT
1 TAAAATATATAATATAATATCTAAATTA
* * *
11393599 TAAAATATATAATATGATATTTGAATTA
1 TAAAATATATAATATAATATCTAAATTA
*
11393627 TAAATTTATTAATAATATAATAT
1 TAAA-ATA-T-ATAATATAATAT
11393650 TTATTTTTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 27 0.66
29 2 0.05
30 1 0.02
31 11 0.27
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.46
Consensus pattern (28 bp):
TAAAATATATAATATAATATCTAAATTA
Found at i:11394602 original size:2 final size:2
Alignment explanation
Indices: 11394591--11394655 Score: 69
Period size: 2 Copynumber: 33.0 Consensus size: 2
11394581 AGTATCCACT
* * * * * *
11394591 TA TA -A TA TA TA TA TA TA TA TA TG TG TG TG TG TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11394632 TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
11394656 ATGCATGATA
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (2 bp):
TA
Found at i:11397306 original size:36 final size:36
Alignment explanation
Indices: 11397259--11397333 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
11397249 TAAGTTCAAT
*
11397259 TATTTATTTGTCCGAGAAACATTGCTAACGTTTATA
1 TATTTATTTGTCCGAGAAACATTACTAACGTTTATA
11397295 TATTTATTTGTCCGAGAAACATTACTAACGTTTATA
1 TATTTATTTGTCCGAGAAACATTACTAACGTTTATA
11397331 TAT
1 TAT
11397334 ATATATATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (36 bp):
TATTTATTTGTCCGAGAAACATTACTAACGTTTATA
Found at i:11397334 original size:2 final size:2
Alignment explanation
Indices: 11397327--11397366 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
11397317 TACTAACGTT
*
11397327 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11397367 AGTTCTGGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11398595 original size:14 final size:14
Alignment explanation
Indices: 11398573--11398621 Score: 73
Period size: 14 Copynumber: 3.5 Consensus size: 14
11398563 GAAGGAGTTT
*
11398573 GAGAGAAAGAAAGA
1 GAGAGAAAGAGAGA
11398587 GAG-GTAAAGAGAGA
1 GAGAG-AAAGAGAGA
11398601 GAGAGAAAGAGAGA
1 GAGAGAAAGAGAGA
11398615 GAGAGAA
1 GAGAGAA
11398622 GAAAGAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 1 0.03
14 30 0.94
15 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.41, T:0.02
Consensus pattern (14 bp):
GAGAGAAAGAGAGA
Found at i:11399914 original size:14 final size:15
Alignment explanation
Indices: 11399889--11399917 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11399879 GTTATAGCAC
11399889 TTTATCATTTTTATT
1 TTTATCATTTTTATT
11399904 TTTAT-ATTTTTATT
1 TTTATCATTTTTATT
11399918 ATTTGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATCATTTTTATT
Found at i:11401889 original size:24 final size:21
Alignment explanation
Indices: 11401862--11401911 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
11401852 TAATATTTAC
11401862 ATAAAAAAAATTACTTAGTTAAAT
1 ATAAAAAAAATTA---AGTTAAAT
*
11401886 AT-AAAATAATTAAGTTAAAT
1 ATAAAAAAAATTAAGTTAAAT
11401906 ATAAAA
1 ATAAAA
11401912 TAATTAGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 10 0.42
21 3 0.12
23 9 0.38
24 2 0.08
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (21 bp):
ATAAAAAAAATTAAGTTAAAT
Found at i:11401901 original size:20 final size:20
Alignment explanation
Indices: 11401878--11401917 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
11401868 AAAATTACTT
11401878 AGTTAAATATAAAATAATTA
1 AGTTAAATATAAAATAATTA
11401898 AGTTAAATATAAAATAATTA
1 AGTTAAATATAAAATAATTA
11401918 GATTAAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
AGTTAAATATAAAATAATTA
Found at i:11401923 original size:20 final size:20
Alignment explanation
Indices: 11401876--11401925 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
11401866 AAAAAATTAC
11401876 TTAG-TTAAATATAAAATAA
1 TTAGATTAAATATAAAATAA
11401895 TTA-AGTTAAATATAAAATAA
1 TTAGA-TTAAATATAAAATAA
11401915 TTAGATTAAAT
1 TTAGATTAAAT
11401926 GGATAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.11
20 24 0.86
21 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
TTAGATTAAATATAAAATAA
Found at i:11407602 original size:60 final size:60
Alignment explanation
Indices: 11407517--11407668 Score: 152
Period size: 60 Copynumber: 2.5 Consensus size: 60
11407507 TTAGAAAATA
* * * *
11407517 AATTTTTTTAAAATATATATATTTCACAAGAA-ACGTTTTTAAGAAAAATTTGAAAGTATC
1 AATTTTTTTAAAATATAAATATTTCA-AAAAATACGTTTTTAAGAAAAAGTTAAAAGTATC
** *
11407577 AATTTTTCTTAAAA-ATGAAAT-TTTCAAAAAATATTTTTTTAAGGAAAAGTTAAAAGTATC
1 AATTTTT-TTAAAATAT-AAATATTTCAAAAAATACGTTTTTAAGAAAAAGTTAAAAGTATC
*
11407637 AATTTTTTTTTTAAATA-AAA-ATTTCAAAAAAT
1 AA--TTTTTTTAAAATATAAATATTTCAAAAAAT
11407669 GTTTTAGAGG
Statistics
Matches: 77, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
59 4 0.05
60 53 0.69
61 14 0.18
62 6 0.08
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (60 bp):
AATTTTTTTAAAATATAAATATTTCAAAAAATACGTTTTTAAGAAAAAGTTAAAAGTATC
Found at i:11407667 original size:61 final size:60
Alignment explanation
Indices: 11407552--11407673 Score: 163
Period size: 60 Copynumber: 2.0 Consensus size: 60
11407542 ACAAGAAACG
* * * *
11407552 TTTTTAAGAAAAATTTGAAAGTATCAATTTTTCTTAAAAATGAAATTTTCAAAAAATATT
1 TTTTTAAGAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAAAATTTCAAAAAATATT
* * ** *
11407612 TTTTTAAGGAAAAGTTAAAAGTATCAATTTTTTTTTTAAATAAAAATTTCAAAAAATGTT
1 TTTTTAAGAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAAAATTTCAAAAAATATT
11407672 TT
1 TT
11407674 AGAGGTGGCC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (60 bp):
TTTTTAAGAAAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAAAATTTCAAAAAATATT
Found at i:11414384 original size:73 final size:73
Alignment explanation
Indices: 11414307--11414468 Score: 270
Period size: 73 Copynumber: 2.2 Consensus size: 73
11414297 TGGAAAACAG
* * *
11414307 ATCGATTCGATCCAAGGGAGATCAATCGATTCCTTAACATTTTCCCTTAATTTGGCTATTGGATA
1 ATCGATTCGATCCAAGGGAGATCAATCGATTCCTCAACATTTTCCCTTAATTTGACTACTGGATA
11414372 AAAAATCA
66 AAAAATCA
*
11414380 ATCGATTCGATCCAAGGGGGATCAATCGATTCCTCAACATTTTCCCTTAATTTGACTACTGGATA
1 ATCGATTCGATCCAAGGGAGATCAATCGATTCCTCAACATTTTCCCTTAATTTGACTACTGGATA
11414445 AAAAATCA
66 AAAAATCA
* *
11414453 ATCGGTCCGATCCAAG
1 ATCGATTCGATCCAAG
11414469 AAGGATCGAT
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 83 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (73 bp):
ATCGATTCGATCCAAGGGAGATCAATCGATTCCTCAACATTTTCCCTTAATTTGACTACTGGATA
AAAAATCA
Found at i:11420535 original size:117 final size:116
Alignment explanation
Indices: 11420375--11420584 Score: 273
Period size: 117 Copynumber: 1.8 Consensus size: 116
11420365 TGGGTGGTCG
* * **
11420375 ATCCTCTATGTGGGGGGATCAAACCTTTTTATTGATTTTTAACCCCA-TTTTGCATT-TTGTATA
1 ATCCCCTATATGGGGGGATCAAACCTTTTTATTGATTTTTAA-CCCAGGATTGCATTCTT-TATA
**
11420438 AAAAAATAGATTGATCTCTTTAAGGGAAGGTCAATCCCACACTTAGGTGATCA
64 AAAAAATAGATCAATCTCTTTAAGGGAAGGTCAATCCCACACTTAGGTGATCA
* * *
11420491 ATCCCCTATATGGGGGGATCAATCCTTTTT-TGTGCCTTTTTAACCTAGGATTGCATTCTTTATA
1 ATCCCCTATATGGGGGGATCAAACCTTTTTAT-TG-ATTTTTAACCCAGGATTGCATTCTTTATA
*
11420555 AAAAAATAGATCAATCTTTTTAAGGGAAGG
64 AAAAAATAGATCAATCTCTTTAAGGGAAGG
11420585 ATCGATCGAG
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
115 1 0.01
116 32 0.40
117 45 0.56
118 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (116 bp):
ATCCCCTATATGGGGGGATCAAACCTTTTTATTGATTTTTAACCCAGGATTGCATTCTTTATAAA
AAAATAGATCAATCTCTTTAAGGGAAGGTCAATCCCACACTTAGGTGATCA
Found at i:11429348 original size:49 final size:49
Alignment explanation
Indices: 11429277--11429891 Score: 544
Period size: 49 Copynumber: 12.5 Consensus size: 49
11429267 AGGAAAGATT
* * * *
11429277 AATTTTAAAAGTTATTGAGCTTTTGCTTAGAGGAGCTTTTTCTAAAATGA
1 AATTTT-AAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCCAAAATGA
* * * * *
11429327 AATTTTAAAGTTGTTGAGCTTTTGCTTAGATGAGCTTTTT-CAAGATAA
1 AATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCCAAAATGA
* * *
11429375 AATTTTTAAAGTTGTTGAGCCTTTGCTTAGAAGAGCTTTTTCCAAGAT-A
1 AA-TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCCAAAATGA
* * * *
11429424 GAATTTCTAAAATTGTT-AACCTGCTACTTAGAAGAGCTTTTTCCAAAATGA
1 -AATTT-TAAAGTTGTTGAGCCT-CTGCTTAGAGGAGCTTTTTCCAAAATGA
* * * *
11429475 AATTTTAAAGTTGTTGAGTCTCTGCTTAGAGGAGCTTTTTTCAAGATTA
1 AATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCCAAAATGA
* * * ** **
11429524 AATTTTTAAATTTGTTAAGTCTCTATTTAGAAAAGCTTTTTCCAAAATGA
1 AA-TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCCAAAATGA
* * * * * *
11429574 AGTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCCTTCTCCAAGATAA
1 AATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCCAAAATGA
* * *
11429623 AATTTATAAAGTTGTTGAGCCTCTACTTAGTGGAGC-TTTTCCTAAATGA
1 AATTT-TAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCCAAAATGA
* * * *
11429672 AATTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAACTTTTTTC-AAATAA
1 AATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCCAAAATGA
* * * * *
11429720 AATTTTAAAGTTGTTGAGCCTCTGTTTAAAGAAGC-TTATCCAAGATGA
1 AATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCCAAAATGA
* * * * * * *
11429768 ATTTTTAAAGTTGTTGAGCATTTACTTAAATGAGCTTTTT-CAATATGA
1 AATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCCAAAATGA
* * * ** *
11429816 ATATTTTCAAAAGTTGTCGAGCCTCTACTTTGAAAAGCTTTTT-CAAAATTA
1 A-ATTTT--AAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCCAAAATGA
*
11429867 AATTTTTAAAGTTGTTGAACCTCTG
1 AA-TTTTAAAGTTGTTGAGCCTCTG
11429892 TTGATGTGAG
Statistics
Matches: 466, Mismatches: 83, Indels: 33
0.80 0.14 0.06
Matches are distributed among these distances:
47 4 0.01
48 108 0.23
49 192 0.41
50 123 0.26
51 39 0.08
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (49 bp):
AATTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCCAAAATGA
Found at i:11429486 original size:99 final size:97
Alignment explanation
Indices: 11429277--11429884 Score: 534
Period size: 99 Copynumber: 6.2 Consensus size: 97
11429267 AGGAAAGATT
* * * *
11429277 AATTTTAAAAGTTATTGAGCTTTTGCTTAGAGGAGCTTTTTCTAAAAT-GAAATTTTAAAGTTGT
1 AATTTT-AAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTCCAAGATAG-AATTTTAAAGTTGT
* * * * * * *
11429341 TGAGCTTTTGCTTAGATGAGCTTTTT-CAAGATAA
64 T-AACCTCTACTTAGAAGAGCTTTTTCCAAAATGA
* *
11429375 AATTTTTAAAGTTGTTGAGCCTTTGCTTAGAAGAGCTTTTTCCAAGATAGAATTTCTAAAATTGT
1 AA-TTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTCCAAGATAGAATTT-TAAAGTTGT
11429440 TAACCTGCTACTTAGAAGAGCTTTTTCCAAAATGA
64 TAACCT-CTACTTAGAAGAGCTTTTTCCAAAATGA
* * * *
11429475 AATTTTAAAGTTGTTGAGTCTCTGCTTAGAGGAGCTTTTTTCAAGATTA-AATTTTTAAATTTGT
1 AATTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTCCAAGA-TAGAA-TTTTAAAGTTGT
* * *
11429539 TAAGTCTCTATTTAGAAAAGCTTTTTCCAAAATGA
64 TAA-CCTCTACTTAGAAGAGCTTTTTCCAAAATGA
* * * * * *
11429574 AGTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCCTTCTCCAAGATAAAATTTATAAAGTTGTT
1 AATTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTCCAAGATAGAATTT-TAAAGTTGTT
* ** *
11429639 GAGCCTCTACTTAGTGGAGC-TTTTCCTAAATGA
65 -AACCTCTACTTAGAAGAGCTTTTTCCAAAATGA
* * *
11429672 AATTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAACTTTTTTCAA-ATAAAATTTTAAAGTTGTTG
1 AATTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTCCAAGATAGAATTTTAAAGTTGTT-
* ** * *
11429736 AGCCTCTGTTTA-AAGAAGC-TTATCCAAGATGA
65 AACCTCTACTTAGAAG-AGCTTTTTCCAAAATGA
* * * * * *
11429768 ATTTTTAAAGTTGTTGAGCATTTACTTAAATGAGCTTTTT-CAATAT-GAATATTTTCAAAAGTT
1 AATTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTCCAAGATAG-A-ATTTT--AAAGTT
* * * * *
11429831 GTCGAGCCTCTACTTTGAAAAGCTTTTT-CAAAATTA
62 GT-TAACCTCTACTTAGAAGAGCTTTTTCCAAAATGA
11429867 AATTTTTAAAGTTGTTGA
1 AA-TTTTAAAGTTGTTGA
11429885 ACCTCTGTTG
Statistics
Matches: 424, Mismatches: 65, Indels: 40
0.80 0.12 0.08
Matches are distributed among these distances:
95 4 0.01
96 71 0.17
97 14 0.03
98 100 0.24
99 199 0.47
100 36 0.08
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (97 bp):
AATTTTAAAGTTGTTGAGCCTTTGCTTAGAGGAGCTTTTTCCAAGATAGAATTTTAAAGTTGTTA
ACCTCTACTTAGAAGAGCTTTTTCCAAAATGA
Found at i:11430109 original size:17 final size:17
Alignment explanation
Indices: 11430084--11430127 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
11430074 TAGACACCCA
*
11430084 TTTTATTTTTATATTTG
1 TTTTCTTTTTATATTTG
*
11430101 TTTTCTTTTTTATATTTT
1 TTTTC-TTTTTATATTTG
11430119 TTTTCTTTT
1 TTTTCTTTT
11430128 CTTTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.11, C:0.05, G:0.02, T:0.82
Consensus pattern (17 bp):
TTTTCTTTTTATATTTG
Found at i:11430127 original size:16 final size:16
Alignment explanation
Indices: 11430090--11430139 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
11430080 CCCATTTTAT
*
11430090 TTTTATATTTGTTTTCTT
1 TTTTATATTT-TTTT-TC
11430108 TTTTATATTTTTTTTC
1 TTTTATATTTTTTTTC
*
11430124 TTTTCT-TTTTTTTTC
1 TTTTATATTTTTTTTC
11430139 T
1 T
11430140 AGCACCTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 10 0.33
16 6 0.20
17 4 0.13
18 10 0.33
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.82
Consensus pattern (16 bp):
TTTTATATTTTTTTTC
Found at i:11430127 original size:23 final size:24
Alignment explanation
Indices: 11430084--11430134 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
11430074 TAGACACCCA
*
11430084 TTTTATTTTTATATTTGTTTTCTT
1 TTTTATTTTTATATTTCTTTTCTT
11430108 TTTTATATTTT-T-TTTCTTTTCTT
1 TTTTAT-TTTTATATTTCTTTTCTT
11430131 TTTT
1 TTTT
11430135 TTTCTAGCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 14 0.56
24 7 0.28
25 4 0.16
ACGTcount: A:0.10, C:0.06, G:0.02, T:0.82
Consensus pattern (24 bp):
TTTTATTTTTATATTTCTTTTCTT
Found at i:11430137 original size:18 final size:18
Alignment explanation
Indices: 11430089--11430127 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
11430079 ACCCATTTTA
*
11430089 TTTTTATATTTGTTTTCT
1 TTTTTATATTTTTTTTCT
11430107 TTTTTATATTTTTTTTCT
1 TTTTTATATTTTTTTTCT
11430125 TTT
1 TTT
11430128 CTTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.05, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTTATATTTTTTTTCT
Found at i:11430410 original size:23 final size:23
Alignment explanation
Indices: 11430384--11430430 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
11430374 AAAAAAAAAA
* * *
11430384 AGATCCAAAAAATTTTTTTTGCC
1 AGATCAAAAAAACTTTTTCTGCC
11430407 AGATCAAAAAAACTTTTTCTGCC
1 AGATCAAAAAAACTTTTTCTGCC
11430430 A
1 A
11430431 AAACAACAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (23 bp):
AGATCAAAAAAACTTTTTCTGCC
Found at i:11431080 original size:31 final size:30
Alignment explanation
Indices: 11431038--11431096 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
11431028 TTAGGTAAAA
* *
11431038 AATATTTTTTTTAGATTTTTTCAAATTTTTT
1 AATATTATTTTTA-ATTTTTTAAAATTTTTT
*
11431069 AATATTATTTTTATTTTTTTAAAATTTT
1 AATATTATTTTTAATTTTTTAAAATTTT
11431097 ATTATTAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (30 bp):
AATATTATTTTTAATTTTTTAAAATTTTTT
Found at i:11432845 original size:19 final size:17
Alignment explanation
Indices: 11432821--11432855 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
11432811 AAGTCATTGA
11432821 TTTATGTATATACATTATG
1 TTTATGT-TATA-ATTATG
11432840 TTTATGTTATAATTAT
1 TTTATGTTATAATTAT
11432856 ATTATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (17 bp):
TTTATGTTATAATTATG
Found at i:11436773 original size:21 final size:21
Alignment explanation
Indices: 11436735--11436774 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11436725 ATATCCTTAA
**
11436735 TTTTAATCTCATTGTTATAAT
1 TTTTAATCTCATCATTATAAT
*
11436756 TTTTAATTTCATCATTATA
1 TTTTAATCTCATCATTATA
11436775 GTAACTAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTTAATCTCATCATTATAAT
Found at i:11441820 original size:12 final size:13
Alignment explanation
Indices: 11441796--11441825 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
11441786 ATATATTGGT
11441796 TTAAAATTTTTTA
1 TTAAAATTTTTTA
11441809 TTAAAA-TTTTTA
1 TTAAAATTTTTTA
11441821 TTAAA
1 TTAAA
11441826 TCATTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTAAAATTTTTTA
Found at i:11452416 original size:53 final size:55
Alignment explanation
Indices: 11452348--11452456 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
11452338 GAAAGAAATG
11452348 AAATTATCACTGGTA-TTTATAAG-TAAGAATGTTTTTTGTGTTTGAATGTGTTA
1 AAATTATCACTGGTATTTTATAAGTTAAGAATGTTTTTTGTGTTTGAATGTGTTA
*
11452401 AAATTATCACTGGTATTTTATGAGTTAAGAATGTTTTTTGTGTTTGAATGTGTTA
1 AAATTATCACTGGTATTTTATAAGTTAAGAATGTTTTTTGTGTTTGAATGTGTTA
11452456 A
1 A
11452457 CTGTTCCATT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
53 15 0.28
54 7 0.13
55 31 0.58
ACGTcount: A:0.29, C:0.04, G:0.19, T:0.48
Consensus pattern (55 bp):
AAATTATCACTGGTATTTTATAAGTTAAGAATGTTTTTTGTGTTTGAATGTGTTA
Found at i:11454473 original size:25 final size:24
Alignment explanation
Indices: 11454419--11454473 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
11454409 ATAAAATAGA
11454419 AAAAAATTGAAAATAAAGCAAAAC
1 AAAAAATTGAAAATAAAGCAAAAC
** *
11454443 TTAAAATATGAAAATAAA-TAAAATC
1 AAAAAAT-TGAAAATAAAGCAAAA-C
11454468 AAAAAA
1 AAAAAA
11454474 GAAAAGAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.18
Consensus pattern (24 bp):
AAAAAATTGAAAATAAAGCAAAAC
Found at i:11455284 original size:3 final size:3
Alignment explanation
Indices: 11455276--11455374 Score: 94
Period size: 3 Copynumber: 33.3 Consensus size: 3
11455266 AAATAAAGAA
**
11455276 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
** * * * * *
11455324 -AT TGT ATAT TAT ACT AAT AAC AAT AAT AAT AGT AAA AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11455369 -AT AAT A
1 AAT AAT A
11455375 CTATAATAGA
Statistics
Matches: 76, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
2 4 0.05
3 71 0.93
4 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11457065 original size:22 final size:22
Alignment explanation
Indices: 11457013--11457065 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
11457003 TCATTAATAA
*
11457013 TACTCAAAATCAACATTTTATT
1 TACTCAAAATCAACACTTTATT
***
11457035 TAAGAAAAATCAA-ACTTTATAT
1 TACTCAAAATCAACACTTTAT-T
11457057 TACTCAAAA
1 TACTCAAAA
11457066 CATTGATTTT
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (22 bp):
TACTCAAAATCAACACTTTATT
Found at i:11457784 original size:14 final size:16
Alignment explanation
Indices: 11457767--11457803 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
11457757 AATAAAATTA
11457767 TTTATTTGC-TATA-T
1 TTTATTTGCTTATACT
*
11457781 TTTATTTTCTTATACT
1 TTTATTTGCTTATACT
11457797 TTTATTT
1 TTTATTT
11457804 TGAATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 8 0.40
15 4 0.20
16 8 0.40
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.70
Consensus pattern (16 bp):
TTTATTTGCTTATACT
Found at i:11458421 original size:93 final size:93
Alignment explanation
Indices: 11458317--11458502 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
11458307 TTTTTTGTCC
11458317 AAACAGTATAACTCAAATAAATATATATAATTTTAAAATTTTAATTAATCCCCTCAAAATCAAAT
1 AAACAGTATAACTCAAATAAATATATATAATTTTAAAATTTTAATTAATCCCCTCAAAATCAAAT
11458382 CCCAGTTTAGGTTCTATCAAATAGGAAT
66 CCCAGTTTAGGTTCTATCAAATAGGAAT
11458410 AAACAGTATAACTCAAATAAATATATATAATTTTAAAATTTTAATTAATCCCCTCAAAATCAAAT
1 AAACAGTATAACTCAAATAAATATATATAATTTTAAAATTTTAATTAATCCCCTCAAAATCAAAT
11458475 CCCAGTTTAGGTTCTATCAAATAGGAAT
66 CCCAGTTTAGGTTCTATCAAATAGGAAT
11458503 TTCATCTAAA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.33
Consensus pattern (93 bp):
AAACAGTATAACTCAAATAAATATATATAATTTTAAAATTTTAATTAATCCCCTCAAAATCAAAT
CCCAGTTTAGGTTCTATCAAATAGGAAT
Found at i:11460866 original size:69 final size:69
Alignment explanation
Indices: 11460755--11460894 Score: 253
Period size: 69 Copynumber: 2.0 Consensus size: 69
11460745 TTCCTGAAGT
* *
11460755 ATGAGAATCATCCTAATTGCAAATGATTAGTGGTAAAGCAAAAGCAATAGATCATATATGAGATA
1 ATGAGAATCATCCTAATTGCAAATGATTAGTGGTAAAGCAAAAGCAACAGATCATATAGGAGATA
11460820 AGCA
66 AGCA
*
11460824 ATGAGAATCATCCTAATTGCAAATGATTAGTGGTAAAGCAAAAGGAACAGATCATATAGGAGATA
1 ATGAGAATCATCCTAATTGCAAATGATTAGTGGTAAAGCAAAAGCAACAGATCATATAGGAGATA
11460889 AGCA
66 AGCA
11460893 AT
1 AT
11460895 CAAATTACAG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.24
Consensus pattern (69 bp):
ATGAGAATCATCCTAATTGCAAATGATTAGTGGTAAAGCAAAAGCAACAGATCATATAGGAGATA
AGCA
Found at i:11462671 original size:22 final size:22
Alignment explanation
Indices: 11462633--11462682 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
11462623 GATCTCTAAA
*
11462633 CATAATCTTCAAGACC-TCTGGG
1 CATAATCTTCAAAACCTTC-GGG
11462655 CATAATC-TCTAAAACCTTCGGG
1 CATAATCTTC-AAAACCTTCGGG
11462677 CATAAT
1 CATAAT
11462683 TTTGACTTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 2 0.08
22 21 0.84
23 2 0.08
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (22 bp):
CATAATCTTCAAAACCTTCGGG
Found at i:11462701 original size:131 final size:129
Alignment explanation
Indices: 11462431--11462701 Score: 280
Period size: 132 Copynumber: 2.1 Consensus size: 129
11462421 TCTATTCACG
* * *
11462431 GTGTTATCTTGATCGATTTTTTATTTTTTGACTTGTGGTATTATCCCAGTTAATTCTGTAAGACC
1 GTGTTATCTCGATCGATTTGTTATTTTTTGACTTGTGGTATTATCCCAATTAATTCTGTAAGACC
** * * *
11462496 TCTAGGCATGATTTCTAAAACCTTCAAGCATAATCTTTAAGACTTCCAGGCATAATTTTGATTC
66 TCTAAACATAATTTCTAAAACCTTCAAGCATAATCTCTAAAACTTCCAGGCATAATTTTGATTC
* * * *
11462560 GTGATATTATCTCGATTGATTTGTTATTTTTTGACTTGTGGTGTTATCCCAATTGATT-TTTAAG
1 GTG---TTATCTCGATCGATTTGTTATTTTTTGACTTGTGGTATTATCCCAATTAATTCTGTAAG
* * ** *
11462624 ATCTCTAAACATAATCTTC-AAGACC-TCTGGGCATAATCTCTAAAACCTT-CGGGCATAATTTT
63 ACCTCTAAACATAAT-TTCTAAAACCTTC-AAGCATAATCTCTAAAA-CTTCCAGGCATAATTTT
11462686 GACTTGC
125 GA-TT-C
11462693 AGTGTTATC
1 -GTGTTATC
11462702 CCAGTCAATT
Statistics
Matches: 116, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
129 3 0.03
130 2 0.02
131 53 0.46
132 54 0.47
133 1 0.01
134 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (129 bp):
GTGTTATCTCGATCGATTTGTTATTTTTTGACTTGTGGTATTATCCCAATTAATTCTGTAAGACC
TCTAAACATAATTTCTAAAACCTTCAAGCATAATCTCTAAAACTTCCAGGCATAATTTTGATTC
Found at i:11462773 original size:37 final size:37
Alignment explanation
Indices: 11462694--11462913 Score: 135
Period size: 37 Copynumber: 5.9 Consensus size: 37
11462684 TTGACTTGCA
* * * * *
11462694 GTGTTATCCCAGTCAATTCTTTATTTCTCAACTTACG
1 GTGTTGTCCCAGTCGATTCTTTACTTCTCGACTCACG
* *
11462731 ATGTTGTCCCAGTCGATTCTTTACTTCTCGACTCATG
1 GTGTTGTCCCAGTCGATTCTTTACTTCTCGACTCACG
*** * * * *
11462768 GTGTTGTCTTGGTCG-TTTTCTTACTTTTTGACTCACA
1 GTGTTGTCCCAGTCGATTCT-TTACTTCTCGACTCACG
* * *
11462805 GTGCTAT-TCCGA-TCGATTCTTTACTTTTTGACTCACG
1 GTG-T-TGTCCCAGTCGATTCTTTACTTCTCGACTCACG
* * * * * *
11462842 GTGTTGTCCTAGTC-ATTTTCTTACTTTTTGACTCGCA
1 GTGTTGTCCCAGTCGATTCT-TTACTTCTCGACTCACG
* *
11462879 GTGTTGTCCC-GATCAATTCTTTACTTCTCAACTCA
1 GTGTTGTCCCAG-TCGATTCTTTACTTCTCGACTCA
11462914 TGATGTTATC
Statistics
Matches: 143, Mismatches: 31, Indels: 18
0.74 0.16 0.09
Matches are distributed among these distances:
35 1 0.01
36 13 0.09
37 118 0.83
38 10 0.07
39 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.15, T:0.45
Consensus pattern (37 bp):
GTGTTGTCCCAGTCGATTCTTTACTTCTCGACTCACG
Found at i:11462838 original size:74 final size:72
Alignment explanation
Indices: 11462743--11462985 Score: 256
Period size: 74 Copynumber: 3.3 Consensus size: 72
11462733 GTTGTCCCAG
*
11462743 TCGATTCTTTACTTCTCGACTCATGGTGTTGTCTTGGTCGTTTTCTTACTTTTTGACTCACAGTG
1 TCGATTCTTTACTTCTCGACTCATGGTGTTGTCTTGGTCATTTTCTTACTTTTTGACTCACAGTG
11462808 CTATTCCGA
66 -T-TTCCGA
* * * * * *
11462817 TCGATTCTTTACTTTTTGACTCACGGTGTTGTCCTAGTCATTTTCTTACTTTTTGACTCGCAGTG
1 TCGATTCTTTACTTCTCGACTCATGGTGTTGTCTTGGTCATTTTCTTACTTTTTGACTCACAGTG
11462882 TTGTCCCGA
66 TT-T-CCGA
* * * * * * *
11462891 TCAATTCTTTACTTCTCAACTCATGATGTTATCTCGATCATTTTCTTA-TTTCTCGAC-CAGCAG
1 TCGATTCTTTACTTCTCGACTCATGGTGTTGTCTTGGTCATTTTCTTACTTT-TTGACTCA-CAG
11462954 TGTTGTCCTGA
64 TGTT-TCC-GA
* *
11462965 TCGATTCTTTATTTTTCGACT
1 TCGATTCTTTACTTCTCGACT
11462986 TGCGATATTG
Statistics
Matches: 140, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
72 1 0.01
73 8 0.06
74 131 0.94
ACGTcount: A:0.16, C:0.23, G:0.15, T:0.46
Consensus pattern (72 bp):
TCGATTCTTTACTTCTCGACTCATGGTGTTGTCTTGGTCATTTTCTTACTTTTTGACTCACAGTG
TTTCCGA
Found at i:11462997 original size:37 final size:36
Alignment explanation
Indices: 11462956--11463059 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 36
11462946 ACCAGCAGTG
*
11462956 TTGTCCTGATCGATTCTTTATTTTTCGACTTGCGATA
1 TTGTCCTGATC-ATTCTTTATTTTTCGACTTACGATA
* * *
11462993 TTGTCCTAATCATTTTCTTTATTATTCGACTTACGGTA
1 TTGTCCTGATCA--TTCTTTATTTTTCGACTTACGATA
* *
11463031 TTGT-CTCGGTCATTCTTTATTTTTTGACT
1 TTGTCCT-GATCATTCTTTATTTTTCGACT
11463060 CGCGGTGTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
36 16 0.29
37 12 0.21
38 28 0.50
ACGTcount: A:0.16, C:0.18, G:0.13, T:0.52
Consensus pattern (36 bp):
TTGTCCTGATCATTCTTTATTTTTCGACTTACGATA
Found at i:11463005 original size:74 final size:74
Alignment explanation
Indices: 11462732--11463072 Score: 246
Period size: 74 Copynumber: 4.6 Consensus size: 74
11462722 CAACTTACGA
* * * * * ** *
11462732 TGTTGTCCC-AGTCGATTCTTTACTTCTCGACTCATGGTGTTGTCTTGGTCGTTTTCTTACTTTT
1 TGTTGTCCCGA-TCGATTCTTTATTTTTCGACTCACGATGTTGTCCTAATCATTTTCTTACTTTT
* *
11462796 TGACTCACAG
65 CGACTCGCAG
* * * * *
11462806 TGCTATTCCGATCGATTCTTTACTTTTT-GACTCACGGTGTTGTCCTAGTCATTTTCTTACTTTT
1 TGTTGTCCCGATCGATTCTTTA-TTTTTCGACTCACGATGTTGTCCTAATCATTTTCTTACTTTT
*
11462870 TGACTCGCAG
65 CGACTCGCAG
* * * * * * *
11462880 TGTTGTCCCGATCAATTCTTTACTTCTCAACTCATGATGTTAT-CTCGATCATTTTCTTA-TTTC
1 TGTTGTCCCGATCGATTCTTTATTTTTCGACTCACGATGTTGTCCT-AATCATTTTCTTACTTT-
11462943 TCGAC-CAGCAG
64 TCGACTC-GCAG
* ** *
11462954 TGTTGTCCTGATCGATTCTTTATTTTTCGACTTGCGATATTGTCCTAATCATTTTCTTTA-TTAT
1 TGTTGTCCCGATCGATTCTTTATTTTTCGACTCACGATGTTGTCCTAATCATTTTC-TTACTT-T
** *
11463018 TCGACTTACGG
64 TCGACTCGCAG
* * * * * *
11463029 TATTGTCTCGGTC-ATTCTTTATTTTTTGACTCGCGGTGTTGTCC
1 TGTTGTCCCGATCGATTCTTTATTTTTCGACTCACGATGTTGTCC
11463073 AGTCGTTTTC
Statistics
Matches: 212, Mismatches: 45, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
73 9 0.04
74 175 0.83
75 27 0.13
76 1 0.00
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.46
Consensus pattern (74 bp):
TGTTGTCCCGATCGATTCTTTATTTTTCGACTCACGATGTTGTCCTAATCATTTTCTTACTTTTC
GACTCGCAG
Found at i:11463044 original size:38 final size:37
Alignment explanation
Indices: 11462969--11463087 Score: 125
Period size: 38 Copynumber: 3.2 Consensus size: 37
11462959 TCCTGATCGA
* *
11462969 TTCTTTATTTTTCGACTTGCGATATTGTCCTAATCATT
1 TTCTTTATTTTTCGACTTGCGGTATTGTCC-AGTCATT
* * *
11463007 TTCTTTATTATTCGACTTACGGTATTGTCTCGGTCA--
1 TTCTTTATTTTTCGACTTGCGGTATTGTC-CAGTCATT
* * * *
11463043 TTCTTTATTTTTTGACTCGCGGTGTTGTCCAGTCGTT
1 TTCTTTATTTTTCGACTTGCGGTATTGTCCAGTCATT
11463080 TTCTTTAT
1 TTCTTTAT
11463088 CACTTGACTC
Statistics
Matches: 66, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
35 4 0.06
36 24 0.36
37 8 0.12
38 29 0.44
39 1 0.02
ACGTcount: A:0.14, C:0.18, G:0.15, T:0.52
Consensus pattern (37 bp):
TTCTTTATTTTTCGACTTGCGGTATTGTCCAGTCATT
Found at i:11463046 original size:148 final size:148
Alignment explanation
Indices: 11462710--11463049 Score: 352
Period size: 148 Copynumber: 2.3 Consensus size: 148
11462700 TCCCAGTCAA
* * * * * * *
11462710 TTCTTTATTTCTCAACTTACGATGTTGTCCCAGTCGATTCTTTACTTCTCGACTCATGGTGTTGT
1 TTCTTTATTT-TCGACTTACGGTGTTGTCCCGGTCAATTCTTTACTTCTCAACTCATGATGTTAT
* * * *
11462775 CTTGGTCGTTTTCTTACTTTTTGACTCACAGTGCTATTCCGATCGATTCTTTACTTTTTGACTCA
65 CTCGATCATTTTCTTACTTTTCGACTCACAGTGCTATTCCGATCGATTCTTTACTTTTTGACTCA
* * *
11462840 CGGTGTTGTCCTAGTCATT
130 CGATATTGTCCTAATCATT
* ** * *
11462859 TTC-TTACTTTTTGACTCGCAGTGTTGTCCCGATCAATTCTTTACTTCTCAACTCATGATGTTAT
1 TTCTTTA-TTTTCGACTTACGGTGTTGTCCCGGTCAATTCTTTACTTCTCAACTCATGATGTTAT
11462923 CTCGATCATTTTCTTA-TTTCTCGAC-CAGCAGTG-T-TGTCCTGATCGATTCTTTA-TTTTTCG
65 CTCGATCATTTTCTTACTTT-TCGACTCA-CAGTGCTAT-TCC-GATCGATTCTTTACTTTTT-G
**
11462983 ACTTGCGATATTGTCCTAATCATT
125 ACTCACGATATTGTCCTAATCATT
* *
11463007 TTCTTTATTATTCGACTTACGGTATTGTCTCGGTC-ATTCTTTA
1 TTCTTTATT-TTCGACTTACGGTGTTGTCCCGGTCAATTCTTTA
11463050 TTTTTTGACT
Statistics
Matches: 155, Mismatches: 28, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
146 1 0.01
147 14 0.09
148 113 0.73
149 27 0.17
ACGTcount: A:0.16, C:0.22, G:0.15, T:0.46
Consensus pattern (148 bp):
TTCTTTATTTTCGACTTACGGTGTTGTCCCGGTCAATTCTTTACTTCTCAACTCATGATGTTATC
TCGATCATTTTCTTACTTTTCGACTCACAGTGCTATTCCGATCGATTCTTTACTTTTTGACTCAC
GATATTGTCCTAATCATT
Found at i:11463087 original size:37 final size:37
Alignment explanation
Indices: 11462821--11463087 Score: 133
Period size: 37 Copynumber: 7.2 Consensus size: 37
11462811 TTCCGATCGA
*
11462821 TTCTTTACTTTTT-GACTCACGGTGTTGTCCTAGTCATT
1 TTCTTTA-TTTTTCGACTCGCGGTGTTGTCC-AGTCATT
* * *
11462859 TTC-TTACTTTTT-GACTCGCAGTGTTGTCCCGATCA-A
1 TTCTTTA-TTTTTCGACTCGCGGTGTTGTCCAG-TCATT
* * * ** * *
11462895 TTCTTTACTTCTCAACTCATGATGTTATCTC-GATCATT
1 TTCTTTATTTTTCGACTCGCGGTGTTGTC-CAG-TCATT
* * *
11462933 TTC-TTATTTCTCGAC-CAGCAGTGTTGTCCTGATCGA--
1 TTCTTTATTTTTCGACTC-GCGGTGTTGTCCAG-TC-ATT
* * * *
11462969 TTCTTTATTTTTCGACTTGCGATATTGTCCTAATCATT
1 TTCTTTATTTTTCGACTCGCGGTGTTGTCC-AGTCATT
* ** * *
11463007 TTCTTTATTATTCGACTTACGGTATTGTCTCGGTCA--
1 TTCTTTATTTTTCGACTCGCGGTGTTGTC-CAGTCATT
* *
11463043 TTCTTTATTTTTTGACTCGCGGTGTTGTCCAGTCGTT
1 TTCTTTATTTTTCGACTCGCGGTGTTGTCCAGTCATT
11463080 TTCTTTAT
1 TTCTTTAT
11463088 CACTTGACTC
Statistics
Matches: 174, Mismatches: 39, Indels: 33
0.71 0.16 0.13
Matches are distributed among these distances:
35 4 0.02
36 37 0.21
37 95 0.55
38 37 0.21
39 1 0.01
ACGTcount: A:0.16, C:0.21, G:0.15, T:0.48
Consensus pattern (37 bp):
TTCTTTATTTTTCGACTCGCGGTGTTGTCCAGTCATT
Found at i:11464736 original size:3 final size:3
Alignment explanation
Indices: 11464693--11464719 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11464683 ATGCTTAAAA
11464693 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
11464720 CTAAAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11464857 original size:3 final size:3
Alignment explanation
Indices: 11464837--11464931 Score: 101
Period size: 3 Copynumber: 33.3 Consensus size: 3
11464827 TTGGAAAATT
* **
11464837 ATA AAA ATA A-A A-A ATA ATA ATA A-A A-A AGC ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
11464881 ATA ATA ATA ATA ATA ATA ATA ATA A-A CTG ATA ATA ATA TTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11464928 ATA A
1 ATA A
11464932 ATTTTTATAA
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
2 9 0.12
3 69 0.88
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:11465791 original size:28 final size:28
Alignment explanation
Indices: 11465721--11465785 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
11465711 TTAAATGTTG
11465721 AAGAATTTTAAGATAATTCTTTAACTTA
1 AAGAATTTTAAGATAATTCTTTAACTTA
11465749 AAGAATTTTAAGATAATTCTTTAACTTA
1 AAGAATTTTAAGATAATTCTTTAACTTA
*
11465777 AAGATTTTT
1 AAGAATTTT
11465786 TCGATACTCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.45
Consensus pattern (28 bp):
AAGAATTTTAAGATAATTCTTTAACTTA
Found at i:11466654 original size:13 final size:13
Alignment explanation
Indices: 11466623--11466675 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
11466613 AAAGAGGCAA
*
11466623 AAATTATGCAAA-
1 AAATCATGCAAAT
11466635 AACATCATGCAAAT
1 AA-ATCATGCAAAT
11466649 AAATCAT---AAT
1 AAATCATGCAAAT
*
11466659 AAATGATGCAAAT
1 AAATCATGCAAAT
11466672 AAAT
1 AAAT
11466676 AAACTCCATA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 9 0.26
12 2 0.06
13 21 0.62
14 2 0.06
ACGTcount: A:0.57, C:0.11, G:0.08, T:0.25
Consensus pattern (13 bp):
AAATCATGCAAAT
Found at i:11466733 original size:15 final size:15
Alignment explanation
Indices: 11466708--11466754 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
11466698 CGAAAACATC
*
11466708 ATAATAAATCATGTAA
1 ATAA-AAATCATGCAA
11466724 ATAAAAATCATGCAA
1 ATAAAAATCATGCAA
* *
11466739 ATAAATATCATACAA
1 ATAAAAATCATGCAA
11466754 A
1 A
11466755 ATATTATACA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 24 0.86
16 4 0.14
ACGTcount: A:0.60, C:0.11, G:0.04, T:0.26
Consensus pattern (15 bp):
ATAAAAATCATGCAA
Found at i:11466771 original size:15 final size:15
Alignment explanation
Indices: 11466722--11466772 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
11466712 TAAATCATGT
* *
11466722 AAATAAAAATCATGC
1 AAATAAATATCATAC
11466737 AAATAAATATCATAC
1 AAATAAATATCATAC
*
11466752 --A-AAATATTATAC
1 AAATAAATATCATAC
11466764 AAATAAATA
1 AAATAAATA
11466773 AAATTCATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 10 0.33
13 1 0.03
14 1 0.03
15 18 0.60
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (15 bp):
AAATAAATATCATAC
Found at i:11466967 original size:14 final size:14
Alignment explanation
Indices: 11466917--11466967 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
11466907 TCACAATTAG
*
11466917 AAAAATATAAAATAT
1 AAAAAAATAAAA-AT
*
11466932 AAAATAAATCAAAAT
1 AAAA-AAATAAAAAT
*
11466947 AAGAAAATAAAAAT
1 AAAAAAATAAAAAT
11466961 AAAAAAA
1 AAAAAAA
11466968 AACCTACAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 15 0.50
15 9 0.30
16 6 0.20
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:11466969 original size:24 final size:24
Alignment explanation
Indices: 11466917--11466969 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
11466907 TCACAATTAG
* *
11466917 AAAAATATAAAATATAAAATAAAT
1 AAAAATAGAAAATATAAAATAAAA
*
11466941 CAAAATAAGAAAATA-AAAATAAAA
1 AAAAAT-AGAAAATATAAAATAAAA
11466965 AAAAA
1 AAAAA
11466970 CCTACAATCG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (24 bp):
AAAAATAGAAAATATAAAATAAAA
Found at i:11467117 original size:27 final size:27
Alignment explanation
Indices: 11467075--11467131 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
11467065 TTCTTTTCTC
11467075 TCTCTAGTCTTTTTTCACTCTAACCTT
1 TCTCTAGTCTTTTTTCACTCTAACCTT
11467102 TCTCTAGT-TTTGTTTCACTCTAACCTT
1 TCTCTAGTCTTT-TTTCACTCTAACCTT
11467129 TCT
1 TCT
11467132 TTAAAACTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 3 0.10
27 26 0.90
ACGTcount: A:0.14, C:0.28, G:0.05, T:0.53
Consensus pattern (27 bp):
TCTCTAGTCTTTTTTCACTCTAACCTT
Found at i:11472435 original size:30 final size:31
Alignment explanation
Indices: 11472364--11472435 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
11472354 TTCACTTTTT
* *
11472364 CTTTTAGTGAAATAACATTTGGTGAAGCATT
1 CTTTTAGTGAAATAACATTTGGTGAAACATA
*
11472395 TTTTTA-TGAAATAAC-TCTTGGTGAAACA-A
1 CTTTTAGTGAAATAACAT-TTGGTGAAACATA
11472424 CTTTTAGTGAAA
1 CTTTTAGTGAAA
11472436 AGAGTTTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 6 0.17
30 24 0.69
31 5 0.14
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.39
Consensus pattern (31 bp):
CTTTTAGTGAAATAACATTTGGTGAAACATA
Found at i:11472527 original size:16 final size:16
Alignment explanation
Indices: 11472508--11472561 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
11472498 TATGAAAGTG
*
11472508 TTATTCTGTGAAGCAA
1 TTATTCTGTGAAACAA
11472524 TTATTCTGT-AAACAA
1 TTATTCTGTGAAACAA
* *
11472539 CTATTCTGTGAAAAAA
1 TTATTCTGTGAAACAA
11472555 TTATTCT
1 TTATTCT
11472562 ATAAATAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 13 0.39
16 20 0.61
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (16 bp):
TTATTCTGTGAAACAA
Found at i:11472545 original size:15 final size:16
Alignment explanation
Indices: 11472509--11472574 Score: 64
Period size: 15 Copynumber: 4.2 Consensus size: 16
11472499 ATGAAAGTGT
* *
11472509 TATTCTGTGAAGCAAT
1 TATTCTGTGAAACAAC
11472525 TATTCTGT-AAACAAC
1 TATTCTGTGAAACAAC
* *
11472540 TATTCTGTGAAAAAAT
1 TATTCTGTGAAACAAC
* *
11472556 TATTCTAT-AAATAAC
1 TATTCTGTGAAACAAC
11472571 TATT
1 TATT
11472575 TTATAAAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
15 22 0.52
16 20 0.48
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (16 bp):
TATTCTGTGAAACAAC
Found at i:11472547 original size:31 final size:31
Alignment explanation
Indices: 11472509--11472574 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
11472499 ATGAAAGTGT
** *
11472509 TATTCTGTGAAGCAATTATTCTGTAAACAAC
1 TATTCTGTGAAAAAATTATTCTATAAACAAC
*
11472540 TATTCTGTGAAAAAATTATTCTATAAATAAC
1 TATTCTGTGAAAAAATTATTCTATAAACAAC
11472571 TATT
1 TATT
11472575 TTATAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (31 bp):
TATTCTGTGAAAAAATTATTCTATAAACAAC
Found at i:11478996 original size:14 final size:14
Alignment explanation
Indices: 11478977--11479044 Score: 70
Period size: 14 Copynumber: 4.7 Consensus size: 14
11478967 TTTATATATC
11478977 AAATAATATTTTGT
1 AAATAATATTTTGT
11478991 AAATAA-ATATTTG-
1 AAATAATAT-TTTGT
11479004 AAA-AATATTTCTAGAT
1 AAATAATATTT-T-G-T
11479020 AAATAATATTTTGT
1 AAATAATATTTTGT
11479034 AAATAAATATT
1 AAAT-AATATT
11479045 AATAACTAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
12 4 0.09
13 8 0.17
14 16 0.35
15 7 0.15
16 4 0.09
17 7 0.15
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (14 bp):
AAATAATATTTTGT
Found at i:11479842 original size:2 final size:2
Alignment explanation
Indices: 11479835--11479890 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
11479825 AGTTAAGCTC
11479835 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11479877 CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT
11479891 ATATATATAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:11479895 original size:2 final size:2
Alignment explanation
Indices: 11479890--11479920 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11479880 TCTCTCTCTC
11479890 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
11479921 GGCTTAACTG
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:11480052 original size:22 final size:23
Alignment explanation
Indices: 11480017--11480071 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
11480007 GTAAATTGAA
* * *
11480017 ATTATTAGTTTAT-ATTTGATGT
1 ATTATTAATATATAATTTGATAT
*
11480039 ATTATTAATATATAAATTTTATAT
1 ATTATTAATATAT-AATTTGATAT
11480063 ATTATTAAT
1 ATTATTAAT
11480072 GATTTAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 11 0.41
24 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (23 bp):
ATTATTAATATATAATTTGATAT
Found at i:11480122 original size:15 final size:15
Alignment explanation
Indices: 11480087--11480128 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
11480077 AAATAATATT
*
11480087 ATTTTATTAA-TAAA
1 ATTTTTTTAATTAAA
11480101 AGTTTTTTTAATTAAA
1 A-TTTTTTTAATTAAA
*
11480117 ATTTTTTGAATT
1 ATTTTTTTAATT
11480129 TAATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 18 0.75
16 5 0.21
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (15 bp):
ATTTTTTTAATTAAA
Found at i:11483160 original size:17 final size:17
Alignment explanation
Indices: 11483138--11483184 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
11483128 TTTGATCAAA
11483138 ATGAAAATACTTTAAAT
1 ATGAAAATACTTTAAAT
11483155 ATGAAAATACTTTAAAT
1 ATGAAAATACTTTAAAT
*
11483172 ATCAAAATACTTT
1 ATGAAAATACTTT
11483185 TTTCACTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (17 bp):
ATGAAAATACTTTAAAT
Found at i:11483422 original size:26 final size:27
Alignment explanation
Indices: 11483377--11483438 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
11483367 CTTTGAAAAC
*
11483377 AAATGTATGATATGCATGAATATA-ATA
1 AAATGAATGATATGCATGAATA-ACATA
11483404 AAATGAATGA-ATGCATGAATAACATA
1 AAATGAATGATATGCATGAATAACATA
*
11483430 ATATGAATG
1 AAATGAATG
11483439 CATGGCTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 1 0.03
26 22 0.69
27 9 0.28
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (27 bp):
AAATGAATGATATGCATGAATAACATA
Found at i:11483684 original size:35 final size:36
Alignment explanation
Indices: 11483612--11483689 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 36
11483602 GGGTTTAGTG
* * *
11483612 TTTGACTATGATTTAGGATTTAACCTCGATTTTGGA
1 TTTGACTATGATTAAGGATTCAACCTCGATTTAGGA
*
11483648 TTTGACTATGGTTAAGG-TTCAACCAT-GATTTAGGA
1 TTTGACTATGATTAAGGATTCAACC-TCGATTTAGGA
11483683 TTTGACT
1 TTTGACT
11483690 TAGTGTTTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 21 0.57
36 16 0.43
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.42
Consensus pattern (36 bp):
TTTGACTATGATTAAGGATTCAACCTCGATTTAGGA
Found at i:11483707 original size:19 final size:18
Alignment explanation
Indices: 11483676--11483968 Score: 148
Period size: 19 Copynumber: 15.7 Consensus size: 18
11483666 TCAACCATGA
*
11483676 TTTAGGATTTGACTTAGTG
1 TTTAGGGTTTGACTTAG-G
* *
11483695 TTTGGGGTTTGACCTAGGG
1 TTTAGGGTTTGACTTA-GG
*
11483714 TTT-GGGATTTG--TAAAGG
1 TTTAGGG-TTTGACT-TAGG
* *
11483731 TTTAAGATTTGACTTAGGG
1 TTTAGGGTTTGACTTA-GG
* *
11483750 TTTATGGTTTGACTTAATG
1 TTTAGGGTTTGACTT-AGG
*
11483769 TTTAAGGTTTGACTTAGG
1 TTTAGGGTTTGACTTAGG
* * *
11483787 ATTTGGGGTTTAACATAGG
1 -TTTAGGGTTTGACTTAGG
* * *
11483806 ATTTAAGGTTTAACTGAGGG
1 -TTTAGGGTTTGACTTA-GG
*
11483826 TTTAGGG-TTGACCTAAGG
1 TTTAGGGTTTGA-CTTAGG
* **
11483844 ATTAGGGTTTGACCCAAGG
1 TTTAGGGTTTGA-CTTAGG
* *
11483863 TTTAGAG-TTGACCTAGGG
1 TTTAGGGTTTGACTTA-GG
*
11483881 TTTAGGGTTTAACTTAGGG
1 TTTAGGGTTTGACTTA-GG
* **
11483900 TTTAAGGTTTGA-AAAGTG
1 TTTAGGGTTTGACTTAG-G
*
11483918 TTTAGGCTTTGACTTAGG
1 TTTAGGGTTTGACTTAGG
**
11483936 CTTTAGTCTTTGACTTAAGG
1 -TTTAGGGTTTGACTT-AGG
11483956 TTTAGGGTTTGAC
1 TTTAGGGTTTGAC
11483969 CTGGGGTCTA
Statistics
Matches: 213, Mismatches: 43, Indels: 36
0.73 0.15 0.12
Matches are distributed among these distances:
17 13 0.06
18 44 0.21
19 149 0.70
20 7 0.03
ACGTcount: A:0.23, C:0.08, G:0.30, T:0.40
Consensus pattern (18 bp):
TTTAGGGTTTGACTTAGG
Found at i:11483850 original size:18 final size:18
Alignment explanation
Indices: 11483824--11483889 Score: 87
Period size: 18 Copynumber: 3.6 Consensus size: 18
11483814 TTTAACTGAG
11483824 GGTTTAGGGTTGACCTAA
1 GGTTTAGGGTTGACCTAA
* *
11483842 GGATTAGGGTTTGACCCAA
1 GGTTTAGGG-TTGACCTAA
* *
11483861 GGTTTAGAGTTGACCTAG
1 GGTTTAGGGTTGACCTAA
11483879 GGTTTAGGGTT
1 GGTTTAGGGTT
11483890 TAACTTAGGG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
18 25 0.62
19 15 0.38
ACGTcount: A:0.21, C:0.11, G:0.35, T:0.33
Consensus pattern (18 bp):
GGTTTAGGGTTGACCTAA
Found at i:11483902 original size:37 final size:37
Alignment explanation
Indices: 11483802--11483903 Score: 114
Period size: 37 Copynumber: 2.8 Consensus size: 37
11483792 GGGTTTAACA
* * * *
11483802 TAGGATTTAAGGTTTAACTGAGGGTTTAGGGTTGACC
1 TAGGGTTTAGGGTTTAACTCAGGGTTTAGAGTTGACC
* * * * *
11483839 TAAGGATTAGGGTTTGACCCAAGGTTTAGAGTTGACC
1 TAGGGTTTAGGGTTTAACTCAGGGTTTAGAGTTGACC
*
11483876 TAGGGTTTAGGGTTTAACTTAGGGTTTA
1 TAGGGTTTAGGGTTTAACTCAGGGTTTA
11483904 AGGTTTGAAA
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.25, C:0.09, G:0.31, T:0.35
Consensus pattern (37 bp):
TAGGGTTTAGGGTTTAACTCAGGGTTTAGAGTTGACC
Found at i:11484226 original size:18 final size:18
Alignment explanation
Indices: 11484181--11484226 Score: 74
Period size: 19 Copynumber: 2.5 Consensus size: 18
11484171 GAATTTAAAG
*
11484181 TTTAGGGTTGACTTAGGA
1 TTTAGGTTTGACTTAGGA
11484199 TTTAAGGTTTGACTTAGGA
1 TTT-AGGTTTGACTTAGGA
11484218 TTTAGGTTT
1 TTTAGGTTT
11484227 TTACCTAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.22, C:0.04, G:0.28, T:0.46
Consensus pattern (18 bp):
TTTAGGTTTGACTTAGGA
Found at i:11484295 original size:19 final size:19
Alignment explanation
Indices: 11484248--11484284 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
11484238 TAAGGTAGAT
11484248 CTAAGGTTTGGTGTTTGAC
1 CTAAGGTTTGGTGTTTGAC
11484267 CTAAGGTTTGGTGTTTGA
1 CTAAGGTTTGGTGTTTGA
11484285 TCTAGAGTTT
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:0.16, C:0.08, G:0.32, T:0.43
Consensus pattern (19 bp):
CTAAGGTTTGGTGTTTGAC
Found at i:11484296 original size:31 final size:31
Alignment explanation
Indices: 11484260--11484337 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
11484250 AAGGTTTGGT
* *
11484260 GTTTGACCTAAGGTTTGGTGTTTGATCTAGA
1 GTTTGACCTAAGATTTGATGTTTGATCTAGA
*
11484291 GTTTGACCTAAGATTTGATGTTTGATCTAGG
1 GTTTGACCTAAGATTTGATGTTTGATCTAGA
*
11484322 GTTTGACCTAAAATTT
1 GTTTGACCTAAGATTT
11484338 AGGATTTGAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.23, C:0.10, G:0.24, T:0.42
Consensus pattern (31 bp):
GTTTGACCTAAGATTTGATGTTTGATCTAGA
Found at i:11484346 original size:31 final size:31
Alignment explanation
Indices: 11484260--11484357 Score: 110
Period size: 31 Copynumber: 3.2 Consensus size: 31
11484250 AAGGTTTGGT
** *
11484260 GTTTGACCTAAGGTTTG-GTGTTTGATCTAGA
1 GTTTGACCTAAAATTTGAG-GTTTGATCTAGG
* *
11484291 GTTTGACCTAAGATTTGATGTTTGATCTAGG
1 GTTTGACCTAAAATTTGAGGTTTGATCTAGG
*
11484322 GTTTGACCTAAAATTT-AGGATTTGACCTAGG
1 GTTTGACCTAAAATTTGAGG-TTTGATCTAGG
11484353 GTTTG
1 GTTTG
11484358 GGGTTTTACA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
30 2 0.03
31 57 0.97
ACGTcount: A:0.22, C:0.10, G:0.27, T:0.41
Consensus pattern (31 bp):
GTTTGACCTAAAATTTGAGGTTTGATCTAGG
Found at i:11484384 original size:38 final size:38
Alignment explanation
Indices: 11484342--11484546 Score: 144
Period size: 38 Copynumber: 5.4 Consensus size: 38
11484332 AAATTTAGGA
* *
11484342 TTTGACCTAGGGTTTGGGGTTTTACATAAGGTTTTGAG
1 TTTGACCTAGGGTTTGGGGTTTTACTTAAGGTTTAGAG
* ** * *
11484380 TTTGACTTAGGGTTTAAGGCTTTA-TCTAAGGTTTCGAG
1 TTTGACCTAGGGTTTGGGGTTTTACT-TAAGGTTTAGAG
* ** * * *
11484418 TTTGATCT-GGAGTTAAGGGTTTGACTTAGGGTTTAAAG
1 TTTGACCTAGG-GTTTGGGGTTTTACTTAAGGTTTAGAG
* * * * * *
11484456 TTTGACCTAGTGTTTGAGGTTTGAGTTAAGATTTAGGG
1 TTTGACCTAGGGTTTGGGGTTTTACTTAAGGTTTAGAG
** * * * *
11484494 TTTGATTTAGGGTTTGGGATTTTACCTAAGTTTTAGGG
1 TTTGACCTAGGGTTTGGGGTTTTACTTAAGGTTTAGAG
*
11484532 TTTGACCAAGGGTTT
1 TTTGACCTAGGGTTT
11484547 AGAAAAATGA
Statistics
Matches: 126, Mismatches: 37, Indels: 8
0.74 0.22 0.05
Matches are distributed among these distances:
37 2 0.02
38 122 0.97
39 2 0.02
ACGTcount: A:0.20, C:0.07, G:0.30, T:0.42
Consensus pattern (38 bp):
TTTGACCTAGGGTTTGGGGTTTTACTTAAGGTTTAGAG
Done.