Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 32 of 240
Found at i:11179503 original size:32 final size:31
Alignment explanation
Indices: 11179453--11179512 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
11179443 ATGAATTATC
*
11179453 AAATTAAAATAATTAATTTATAATCAGTTACT
1 AAATTAAAATAATCAATTTATAAT-AGTTACT
* *
11179485 AAATTCAAGTAATCAATTTATAATAGTT
1 AAATTAAAATAATCAATTTATAATAGTT
11179513 TATGATGCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 4 0.16
32 21 0.84
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (31 bp):
AAATTAAAATAATCAATTTATAATAGTTACT
Found at i:11182420 original size:44 final size:47
Alignment explanation
Indices: 11182329--11182421 Score: 129
Period size: 45 Copynumber: 2.0 Consensus size: 47
11182319 GCTGTCCCTC
* *
11182329 ATAAAGCAATAAAATTGAAATGAAAAGACAAGTGAAAACGTAAAGCAA
1 ATAAAGCAATAAAA-TGAAATGAAAAGACAAATGAAAACATAAAGCAA
*
11182377 ATAAAGCAAT-AAA-GAAATGAAAAGGCAAAT-AAAACATAAAGCAA
1 ATAAAGCAATAAAATGAAATGAAAAGACAAATGAAAACATAAAGCAA
11182421 A
1 A
11182422 GCCGCAGTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
44 14 0.33
45 15 0.36
47 3 0.07
48 10 0.24
ACGTcount: A:0.63, C:0.09, G:0.15, T:0.13
Consensus pattern (47 bp):
ATAAAGCAATAAAATGAAATGAAAAGACAAATGAAAACATAAAGCAA
Found at i:11203585 original size:42 final size:42
Alignment explanation
Indices: 11203526--11203650 Score: 232
Period size: 42 Copynumber: 3.0 Consensus size: 42
11203516 ATCAAATCCT
*
11203526 CAACAGCTGAAAGTGGGTTCGAAAGCTCTGTACCGTCTACTG
1 CAACAGCTGAAAGTGGGTTCGAAAGCTCCGTACCGTCTACTG
11203568 CAACAGCTGAAAGTGGGTTCGAAAGCTCCGTACCGTCTACTG
1 CAACAGCTGAAAGTGGGTTCGAAAGCTCCGTACCGTCTACTG
*
11203610 CAACAGCTGAAAATGGGTTCGAAAGCTCCGTACCGTCTACT
1 CAACAGCTGAAAGTGGGTTCGAAAGCTCCGTACCGTCTACT
11203651 ACGTTACAGT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 81 1.00
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (42 bp):
CAACAGCTGAAAGTGGGTTCGAAAGCTCCGTACCGTCTACTG
Found at i:11214377 original size:41 final size:38
Alignment explanation
Indices: 11214274--11214377 Score: 111
Period size: 41 Copynumber: 2.7 Consensus size: 38
11214264 TTCGAAGAAA
* *
11214274 TAAATTGACACCCAGTGTTTTATCG-GCTAAACTAAAG
1 TAAATTGACACCCAGTGTCTTATCGAACTAAACTAAAG
** * * *
11214311 TAAATTGACACCCAGTACCTCATCGAATTAATCTAAAGTAG
1 TAAATTGACACCCAGTGTCTTATCGAACTAAACT-AA--AG
11214352 TAAATTGACACCCAGTGTCTTATCGA
1 TAAATTGACACCCAGTGTCTTATCGA
11214378 CTCGAAGTCG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
37 21 0.40
38 5 0.09
39 2 0.04
41 25 0.47
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (38 bp):
TAAATTGACACCCAGTGTCTTATCGAACTAAACTAAAG
Found at i:11215273 original size:17 final size:18
Alignment explanation
Indices: 11215241--11215276 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
11215231 GAAACCCTAA
11215241 CTTTTTCTCCTTTCTTTCT
1 CTTTTTCT-CTTTCTTTCT
11215260 CTTTTTCT-TTTCTTTCT
1 CTTTTTCTCTTTCTTTCT
11215277 TTCCTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
CTTTTTCTCTTTCTTTCT
Found at i:11215377 original size:20 final size:20
Alignment explanation
Indices: 11215330--11215395 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
11215320 TTCTATTTCT
*
11215330 TTATTTGTTTTGTTTTAATTA
1 TTATTTATTTTGTTTT-ATTA
11215351 CTTATTTATTTTGTTTTATTA
1 -TTATTTATTTTGTTTTATTA
**
11215372 TTATTTCA-TTTACTTTATTA
1 TTATTT-ATTTTGTTTTATTA
11215392 TTAT
1 TTAT
11215396 AATAATATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
20 20 0.50
21 5 0.12
22 15 0.38
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (20 bp):
TTATTTATTTTGTTTTATTA
Found at i:11215471 original size:19 final size:20
Alignment explanation
Indices: 11215429--11215478 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
11215419 ATATTAAGTA
*
11215429 ATACATAT-TTTATTATTAT
1 ATACATATGTATATTATTAT
11215448 ATACATATGTATATTATT-T
1 ATACATATGTATATTATTAT
* *
11215467 TTACACATGTAT
1 ATACATATGTAT
11215479 TCACCAACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (20 bp):
ATACATATGTATATTATTAT
Found at i:11216189 original size:18 final size:17
Alignment explanation
Indices: 11216166--11216201 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
11216156 AAAATAAACA
11216166 TAATTAATTAATTTAAAT
1 TAATTAATTAA-TTAAAT
11216184 TAATTAATTAATTAAAT
1 TAATTAATTAATTAAAT
11216201 T
1 T
11216202 CTTAACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATTAATTAATTAAAT
Found at i:11217719 original size:3 final size:3
Alignment explanation
Indices: 11217698--11217775 Score: 68
Period size: 3 Copynumber: 25.7 Consensus size: 3
11217688 ACAGTAAATG
* * *
11217698 ATA ATA ATGA A-A ATG ATA ATA ATA GTA ATA ATA ATA TTA ATA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
11217743 ACA AAA ATA ATA AAA ATA ATA CTA ATAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT
11217776 TTTTAGAGTT
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
2 2 0.03
3 52 0.88
4 5 0.08
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:11217857 original size:15 final size:14
Alignment explanation
Indices: 11217831--11217884 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 14
11217821 ATGGAGTAAT
11217831 AATAACAATAATAAA
1 AATAA-AATAATAAA
11217846 AGATAAAATAATATAAA
1 A-ATAAAAT-A-ATAAA
*
11217863 AATAAAAATAATATA
1 AAT-AAAATAATAAA
11217878 AATAAAA
1 AATAAAA
11217885 GAATGCACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
14 4 0.12
15 11 0.32
16 8 0.24
17 11 0.32
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (14 bp):
AATAAAATAATAAA
Found at i:11217863 original size:17 final size:17
Alignment explanation
Indices: 11217831--11217879 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
11217821 ATGGAGTAAT
*
11217831 AATAACAATAATA-AAA
1 AATAAAAATAATATAAA
*
11217847 GAT-AAAATAATATAAA
1 AATAAAAATAATATAAA
11217863 AATAAAAATAATATAAA
1 AATAAAAATAATATAAA
11217880 TAAAAGAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 13 0.46
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (17 bp):
AATAAAAATAATATAAA
Found at i:11218030 original size:17 final size:18
Alignment explanation
Indices: 11218003--11218036 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11217993 GAAAATAAAT
11218003 AAATAAATAAATCAAACA
1 AAATAAATAAATCAAACA
*
11218021 AAAT-AATAAATGAAAC
1 AAATAAATAAATCAAAC
11218037 TGTTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.71, C:0.09, G:0.03, T:0.18
Consensus pattern (18 bp):
AAATAAATAAATCAAACA
Found at i:11230739 original size:26 final size:26
Alignment explanation
Indices: 11230696--11230747 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
11230686 GCAATTACAA
11230696 AGTATTATTTTTACAAG-TATTAATTT
1 AGTATTATTTTTACAAGTTA-TAATTT
11230722 AGTATTATTTTTTA-AAGTTATAATTT
1 AGTATTA-TTTTTACAAGTTATAATTT
11230748 TTTTGTTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (26 bp):
AGTATTATTTTTACAAGTTATAATTT
Found at i:11242393 original size:10 final size:10
Alignment explanation
Indices: 11242378--11242450 Score: 50
Period size: 10 Copynumber: 7.5 Consensus size: 10
11242368 TTTAAAATAC
11242378 TTTTTTAAAA
1 TTTTTTAAAA
11242388 TTTTTT-AAA
1 TTTTTTAAAA
*
11242397 -TTTTAAAAA
1 TTTTTTAAAA
*
11242406 ATTTTTAAACTA
1 TTTTTTAAA--A
11242418 CTTTTTT--AA
1 -TTTTTTAAAA
11242427 --TTTTAAAA
1 TTTTTTAAAA
11242435 TATTTTTAAAA
1 T-TTTTTAAAA
11242446 TTTTT
1 TTTTT
11242451 GTTTTAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 20
0.68 0.04 0.27
Matches are distributed among these distances:
6 4 0.08
8 6 0.12
9 7 0.14
10 17 0.34
11 10 0.20
12 1 0.02
13 5 0.10
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:11242393 original size:30 final size:28
Alignment explanation
Indices: 11242357--11242468 Score: 125
Period size: 30 Copynumber: 3.7 Consensus size: 28
11242347 AAATATTTTT
11242357 ATTTTTTTAATTTTAAAATACTTTTTTAAA
1 ATTTTTTTAATTTTAAAATA--TTTTTAAA
* *
11242387 ATTTTTTAAATTTTAAAAAATTTTTAAA
1 ATTTTTTTAATTTTAAAATATTTTTAAA
*
11242415 CTACTTTTTTAATTTTAAAATATTTTTAAA
1 --ATTTTTTTAATTTTAAAATATTTTTAAA
11242445 ATTTTTGTTTTAATTTTTAAAATA
1 A--TTT-TTTTAA-TTTTAAAATA
11242469 AATTTTTGGT
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
28 9 0.13
30 45 0.64
31 6 0.09
32 10 0.14
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (28 bp):
ATTTTTTTAATTTTAAAATATTTTTAAA
Found at i:11242442 original size:41 final size:40
Alignment explanation
Indices: 11242367--11242450 Score: 100
Period size: 39 Copynumber: 2.1 Consensus size: 40
11242357 ATTTTTTTAA
**
11242367 TTTTAAAATACTTTTTTAAAATTTTTTAAATTTTAAAAAAT
1 TTTTAAAATACTTTTTT-AAATTTTAAAAATTTTAAAAAAT
* *
11242408 TTTTAAACTACTTTTTT-AATTTTAAAATATTTT-TAAAAT
1 TTTTAAAATACTTTTTTAAATTTTAAAA-ATTTTAAAAAAT
11242447 TTTT
1 TTTT
11242451 GTTTTAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 17 0.45
40 5 0.13
41 16 0.42
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (40 bp):
TTTTAAAATACTTTTTTAAATTTTAAAAATTTTAAAAAAT
Found at i:11244565 original size:28 final size:28
Alignment explanation
Indices: 11244532--11244629 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 28
11244522 TAATGAGATT
* *
11244532 AGCACTAAGTGTGCGAGTTTAATTG-AA
1 AGCACTAAGTGTGCGAGTATAATGGTAA
11244559 ATGCACTAAGTGTGCGAGTATAATGGTAA
1 A-GCACTAAGTGTGCGAGTATAATGGTAA
* * ** *
11244588 AGCACTAAGTGTGCGAGTGTGATTATTA
1 AGCACTAAGTGTGCGAGTATAATGGTAA
11244616 AGCACTAAGTGTGC
1 AGCACTAAGTGTGC
11244630 TTACTTATTA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 58 0.94
29 3 0.05
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTATAATGGTAA
Found at i:11257114 original size:6 final size:6
Alignment explanation
Indices: 11257103--11257132 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
11257093 AAGGAGCTAG
11257103 AATTTT AATTTT AATTTT AATTTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT
11257133 TGCATCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
AATTTT
Found at i:11261286 original size:3 final size:3
Alignment explanation
Indices: 11261280--11261308 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11261270 CGAAGAGGAT
11261280 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
11261309 TGATGATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:11261359 original size:3 final size:3
Alignment explanation
Indices: 11261353--11261377 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11261343 GACGACGACC
11261353 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
11261378 CAAATATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:11261716 original size:12 final size:12
Alignment explanation
Indices: 11261685--11261725 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
11261675 TGATGATGAT
11261685 GATGACGACGAC
1 GATGACGACGAC
**
11261697 GACAACGACGAC
1 GATGACGACGAC
*
11261709 GATGACGACGAT
1 GATGACGACGAC
11261721 GATGA
1 GATGA
11261726 TGATGACAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.32, T:0.10
Consensus pattern (12 bp):
GATGACGACGAC
Found at i:11261883 original size:354 final size:358
Alignment explanation
Indices: 11261285--11262022 Score: 1376
Period size: 354 Copynumber: 2.1 Consensus size: 358
11261275 AGGATGAAGA
11261285 AGAAGAAGAAGAAGAAGAAGAAGATGATGATGATGATGATGACGACGACGACGACAACGACGACG
1 AGAAGAAGAAGAAGAAGAAGAAGATGATGATGATGATGATGACGACGACGACGACAAC-ACGACG
* * *
11261350 ACCATGATGATGATGATGATGATGATGACAAATATTCACCAATGGGATCATTTTTAGAAGAAGAA
65 ACCA-GATGACGACGATGATGATGATGACAAATATTCACCAATGGGATCATTTTTAGAAGAAAAA
*
11261415 GATGATGATGATGATAACAGCAACAAATATTCATCAGTGGGATCACCATTTTCAGAAGAAGAAGA
129 GATGATGATGATGATAACAGCAACAAATATTCATCAATGGGATCACCATTTTCAGAAGAAGAAGA
11261480 AGAAGACTCACTGTTACAATCACCAAATTCAACAGAAGAAGATGAAGAACATTCACCGATGGGAT
194 AGAAGACTCACTGTTACAATCACCAAATTCAACAGAAGAAGATGAAGAACATTCACCGATGGGAT
*
11261545 CAACACTTGAAGAAGAAGAAGGCTCATCATTGCAATCATCATTGTCAACAGGGGAAGAAGATGAA
259 CAACACTTGAAGAAGAAGAAGACTCATCATTGCAATCATCATTGTCAACAGGGGAAGAAGATGAA
11261610 GAAGAATATTCACAAATGCAATCATCATTTTCAAC
324 GAAGAATATTCACAAATGCAATCATCATTTTCAAC
*
11261645 AGAAGAAGAAGAAGAAGAAGAAGATGATGATGATGATGATGATGACGACGACGAC-A-ACGACGA
1 AGAAGAAGAAGAAGAAGAAGAAGATGATGATGATGATGATGACGACGACGACGACAACACGACGA
11261708 -C-GATGACGACGATGATGATGATGACAAATATTCACCAATGGGATCATTTTTAGAAGAAAAAGA
66 CCAGATGACGACGATGATGATGATGACAAATATTCACCAATGGGATCATTTTTAGAAGAAAAAGA
11261771 TGATGATGATGATAACAGCAACAAATATTCATCAATGGGATCACCATTTTCAGAAGAAGAAGAAG
131 TGATGATGATGATAACAGCAACAAATATTCATCAATGGGATCACCATTTTCAGAAGAAGAAGAAG
11261836 AAGACTCACTGTTACAATCACCAAATTCAACAGAAGAAGATGAAGAACATTCACCGATGGGATCA
196 AAGACTCACTGTTACAATCACCAAATTCAACAGAAGAAGATGAAGAACATTCACCGATGGGATCA
11261901 ACACTTGAAGAAGAAGAAGACTCATCATTGCAATCATCATTGTCAACAGGGGAAGAAGATGAAGA
261 ACACTTGAAGAAGAAGAAGACTCATCATTGCAATCATCATTGTCAACAGGGGAAGAAGATGAAGA
11261966 AGAATATTCACAAATGCAATCATCATTTTCAAC
326 AGAATATTCACAAATGCAATCATCATTTTCAAC
11261999 AGAAGAAGAAGAAGAAGAAGAAGA
1 AGAAGAAGAAGAAGAAGAAGAAGA
11262023 AGAAGAAGAA
Statistics
Matches: 372, Mismatches: 6, Indels: 6
0.97 0.02 0.02
Matches are distributed among these distances:
354 309 0.83
356 1 0.00
357 7 0.02
359 1 0.00
360 54 0.15
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.20
Consensus pattern (358 bp):
AGAAGAAGAAGAAGAAGAAGAAGATGATGATGATGATGATGACGACGACGACGACAACACGACGA
CCAGATGACGACGATGATGATGATGACAAATATTCACCAATGGGATCATTTTTAGAAGAAAAAGA
TGATGATGATGATAACAGCAACAAATATTCATCAATGGGATCACCATTTTCAGAAGAAGAAGAAG
AAGACTCACTGTTACAATCACCAAATTCAACAGAAGAAGATGAAGAACATTCACCGATGGGATCA
ACACTTGAAGAAGAAGAAGACTCATCATTGCAATCATCATTGTCAACAGGGGAAGAAGATGAAGA
AGAATATTCACAAATGCAATCATCATTTTCAAC
Found at i:11262005 original size:3 final size:3
Alignment explanation
Indices: 11261999--11262077 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
11261989 CATTTTCAAC
11261999 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
11262047 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
11262078 AGCAAAAAGA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11264707 original size:9 final size:9
Alignment explanation
Indices: 11264693--11264750 Score: 82
Period size: 9 Copynumber: 6.4 Consensus size: 9
11264683 GTAGTGATTC
11264693 AATTCGGTT
1 AATTCGGTT
11264702 AATTCGGTT
1 AATTCGGTT
11264711 AATTCTGG-T
1 AATTC-GGTT
*
11264720 AATCCGGTT
1 AATTCGGTT
*
11264729 AATTCGGGT
1 AATTCGGTT
11264738 AATTCGGTT
1 AATTCGGTT
11264747 AATT
1 AATT
11264751 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
8 2 0.05
9 39 0.91
10 2 0.05
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:11273049 original size:34 final size:35
Alignment explanation
Indices: 11273005--11273071 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
11272995 CAGTAAAATA
11273005 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
11273039 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
11273072 CTGCTGCTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:11274386 original size:16 final size:16
Alignment explanation
Indices: 11274365--11274396 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11274355 AAATATATTT
*
11274365 TTTTTAAATTTTTTTA
1 TTTTTAAATCTTTTTA
11274381 TTTTTAAATCTTTTTA
1 TTTTTAAATCTTTTTA
11274397 ATTAATAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTAAATCTTTTTA
Found at i:11280420 original size:28 final size:26
Alignment explanation
Indices: 11280389--11280451 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 26
11280379 AATATTAAAT
11280389 ATTATTTTAATATAATATAATATAATTA
1 ATTATTTTAATAT-AT-TAATATAATTA
* *
11280417 ATTA-TTTAA-ATATTGATCTAATTA
1 ATTATTTTAATATATTAATATAATTA
11280441 ATTATTTTAAT
1 ATTATTTTAAT
11280452 GAAATTCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
24 13 0.42
25 7 0.23
26 2 0.06
27 5 0.16
28 4 0.13
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
ATTATTTTAATATATTAATATAATTA
Found at i:11282513 original size:31 final size:32
Alignment explanation
Indices: 11282478--11282539 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
11282468 AAAAACAAAG
* *
11282478 ATAATGATAAATGATATTTAAA-TAATTTAAT
1 ATAATGATAAATGAAATATAAATTAATTTAAT
*
11282509 ATAATGATATATGAAATATAAATTAATTTAA
1 ATAATGATAAATGAAATATAAATTAATTTAA
11282540 ATTTTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 19 0.70
32 8 0.30
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (32 bp):
ATAATGATAAATGAAATATAAATTAATTTAAT
Found at i:11287423 original size:29 final size:32
Alignment explanation
Indices: 11287358--11287423 Score: 86
Period size: 29 Copynumber: 2.2 Consensus size: 32
11287348 AAATGTGAAA
*
11287358 ATTAAACCAAAATTAAAGTTTGATATATATAC
1 ATTACACCAAAATTAAAGTTTGATATATATAC
*
11287390 A-TACACC-AAATTAAAG-TTGATGTATA-AC
1 ATTACACCAAAATTAAAGTTTGATATATATAC
11287418 ATTACA
1 ATTACA
11287424 AATTGTAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 3 0.10
29 13 0.42
30 9 0.29
31 5 0.16
32 1 0.03
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (32 bp):
ATTACACCAAAATTAAAGTTTGATATATATAC
Found at i:11290280 original size:30 final size:32
Alignment explanation
Indices: 11290227--11290290 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 32
11290217 GCTAAGTTTC
*
11290227 TAATCAATCTTAATTTCTTCAAGTGTTTGTAT
1 TAATCAATCTTAATTTCTTCAAGTATTTGTAT
*
11290259 TAATCAATTTTAA-TT-TTCAAGTATTTGTAT
1 TAATCAATCTTAATTTCTTCAAGTATTTGTAT
11290289 TA
1 TA
11290291 TTTATCCTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 16 0.53
31 2 0.07
32 12 0.40
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.52
Consensus pattern (32 bp):
TAATCAATCTTAATTTCTTCAAGTATTTGTAT
Found at i:11294166 original size:21 final size:21
Alignment explanation
Indices: 11294112--11294159 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
11294102 ATAAAAAAAA
*
11294112 TCCTATTATTTTGTTATTGTTT
1 TCCTA-TATTTTATTATTGTTT
*
11294134 TTCTATATTTTATTATTGTTT
1 TCCTATATTTTATTATTGTTT
11294155 TCCTA
1 TCCTA
11294160 CTTTTTACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.17, C:0.10, G:0.06, T:0.67
Consensus pattern (21 bp):
TCCTATATTTTATTATTGTTT
Found at i:11294207 original size:22 final size:22
Alignment explanation
Indices: 11294154--11294208 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
11294144 TATTATTGTT
* **
11294154 TTCCTACT-TTTTACTATCATT
1 TTCCTACTATTTCACTATCACG
* *
11294175 TTGCTATTATTTCACTATCACG
1 TTCCTACTATTTCACTATCACG
11294197 TTCCTACTATTT
1 TTCCTACTATTT
11294209 TGTTATTAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.20, C:0.24, G:0.04, T:0.53
Consensus pattern (22 bp):
TTCCTACTATTTCACTATCACG
Found at i:11300799 original size:17 final size:17
Alignment explanation
Indices: 11300766--11300800 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11300756 AGTCTACAGC
11300766 AATATTAAATATATATA
1 AATATTAAATATATATA
11300783 AATATATAAATAT-TATA
1 AATAT-TAAATATATATA
11300800 A
1 A
11300801 CCTTTTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATATTAAATATATATA
Found at i:11301579 original size:41 final size:40
Alignment explanation
Indices: 11301534--11301622 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 40
11301524 GGCACTTAGG
*
11301534 CTGCTAGACATATAGTCTAAAATGTA-TCACCGGCATTAAGC
1 CTGCTAGACATAAAGTCT-AAAT-TACTCACCGGCATTAAGC
* *
11301575 CTGCTAGACGTAAAGTCTGAATTACTTCACCGGCATTAAGC
1 CTGCTAGACATAAAGTCTAAATTAC-TCACCGGCATTAAGC
11301616 CTGCTAG
1 CTGCTAG
11301623 GTACATAACC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 2 0.05
40 3 0.07
41 38 0.88
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (40 bp):
CTGCTAGACATAAAGTCTAAATTACTCACCGGCATTAAGC
Found at i:11303387 original size:13 final size:13
Alignment explanation
Indices: 11303369--11303393 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11303359 CAATCAAATG
11303369 CACACAAAATAAA
1 CACACAAAATAAA
11303382 CACACAAAATAA
1 CACACAAAATAA
11303394 TATTAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:11308557 original size:5 final size:5
Alignment explanation
Indices: 11308547--11308618 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
11308537 GTGTTAAAAA
* *
11308547 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
11308593 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
11308619 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:11308600 original size:19 final size:19
Alignment explanation
Indices: 11308576--11308618 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
11308566 ATTATGTTTT
11308576 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
11308595 TATATTATATTATATTATA
1 TATATTATATTATATTATA
11308614 TATAT
1 TATAT
11308619 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:11308651 original size:18 final size:19
Alignment explanation
Indices: 11308623--11308662 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
11308613 ATATATACAT
*
11308623 AAAACAAAAGAAAGAATAG
1 AAAACAAAAGAAAGAAAAG
11308642 AAAA-AAAAGAAAGAAAAG
1 AAAACAAAAGAAAGAAAAG
11308660 AAA
1 AAA
11308663 CAGAATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.03
Consensus pattern (19 bp):
AAAACAAAAGAAAGAAAAG
Found at i:11309681 original size:46 final size:44
Alignment explanation
Indices: 11309622--11309736 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
11309612 ACAGGACAGA
* *
11309622 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
11309668 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
11309712 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
11309737 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:11309717 original size:44 final size:45
Alignment explanation
Indices: 11309622--11309755 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
11309612 ACAGGACAGA
* *
11309622 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
11309668 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
11309712 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
11309756 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:11313046 original size:18 final size:18
Alignment explanation
Indices: 11313025--11313063 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
11313015 GATTGAGAGT
* *
11313025 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
11313043 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
11313061 GAA
1 GAA
11313064 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:11326416 original size:24 final size:24
Alignment explanation
Indices: 11326363--11326408 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
11326353 TATTTCTAGA
*
11326363 ATATTTAGTATTTATCAGTATAAT
1 ATATTTAGCATTTATCAGTATAAT
*
11326387 ATATTTAGCATTTATTAGTATA
1 ATATTTAGCATTTATCAGTATA
11326409 GTTTATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (24 bp):
ATATTTAGCATTTATCAGTATAAT
Found at i:11326949 original size:30 final size:30
Alignment explanation
Indices: 11326915--11326976 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
11326905 CCTAAACGCA
*
11326915 ATATCGACTCTTCCTAAACTCCTAAACAAG
1 ATATCAACTCTTCCTAAACTCCTAAACAAG
* * * * *
11326945 ATATCAAGTTTTTCTAAACTCCTGAACGAG
1 ATATCAACTCTTCCTAAACTCCTAAACAAG
11326975 AT
1 AT
11326977 GTCGGGTCTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (30 bp):
ATATCAACTCTTCCTAAACTCCTAAACAAG
Found at i:11336398 original size:23 final size:23
Alignment explanation
Indices: 11336372--11336422 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
11336362 TAATTTTTAA
*
11336372 ATTTAGGATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
11336395 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
11336418 ATTTA
1 ATTTA
11336423 AGAAAAATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:11336399 original size:13 final size:13
Alignment explanation
Indices: 11336381--11336422 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
11336371 AATTTAGGAT
11336381 TATTTAGTGATAA
1 TATTTAGTGATAA
*
11336394 TATTTA--GA-AT
1 TATTTAGTGATAA
11336404 TATTTAGTGATAA
1 TATTTAGTGATAA
11336417 TATTTA
1 TATTTA
11336423 AGAAAAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 7 0.29
11 2 0.08
12 2 0.08
13 13 0.54
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:11338908 original size:24 final size:24
Alignment explanation
Indices: 11338881--11338931 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
11338871 AGCCTATAAT
11338881 GGGTAGCTCCAAAAAGCAATTAAC
1 GGGTAGCTCCAAAAAGCAATTAAC
* * *
11338905 GGGTAGTTCCGAAGAGCAATTAAC
1 GGGTAGCTCCAAAAAGCAATTAAC
11338929 GGG
1 GGG
11338932 AAGTTCAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (24 bp):
GGGTAGCTCCAAAAAGCAATTAAC
Found at i:11338946 original size:24 final size:25
Alignment explanation
Indices: 11338894--11338957 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
11338884 TAGCTCCAAA
*
11338894 AAGCAATTAACGGGTAGTTCCGAAG
1 AAGCAATTAACGGGAAGTTCCGAAG
11338919 -AGCAATTAACGGGAAGTT-C-AAG
1 AAGCAATTAACGGGAAGTTCCGAAG
*
11338941 CAAGC-ACTAACGGGAAG
1 -AAGCAATTAACGGGAAG
11338958 CTCACAAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 3 0.09
23 12 0.34
24 20 0.57
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.16
Consensus pattern (25 bp):
AAGCAATTAACGGGAAGTTCCGAAG
Found at i:11339006 original size:26 final size:25
Alignment explanation
Indices: 11338948--11339013 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
11338938 AAGCAAGCAC
* *
11338948 TAACGGGAAGCTCACAAAGAACCTT
1 TAACGGGAAGCTCACAAAGAACATA
* *
11338973 TAATCGGGAAGCTCACGAAGATTCATA
1 TAA-CGGGAAGCTCACAAAGA-ACATA
*
11339000 TAACGGGACGCTCA
1 TAACGGGAAGCTCA
11339014 TAAGAGCTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.09
26 26 0.76
27 5 0.15
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (25 bp):
TAACGGGAAGCTCACAAAGAACATA
Found at i:11342970 original size:20 final size:20
Alignment explanation
Indices: 11342945--11342989 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
11342935 TAAGTATTCA
11342945 TTTATATATATT-TATGTATT
1 TTTATA-ATATTATATGTATT
*
11342965 TTTATAATTTTATATGTATT
1 TTTATAATATTATATGTATT
11342985 TTTAT
1 TTTAT
11342990 CGAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTATAATATTATATGTATT
Found at i:11344096 original size:3 final size:3
Alignment explanation
Indices: 11344088--11344131 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
11344078 TGGGTAGTTA
*
11344088 AAG AAG AAG AAG AAG AAG AGG AAG AAG AAG AAG AAG AAG -AG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
11344132 GAAAGTAGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11354241 original size:2 final size:2
Alignment explanation
Indices: 11354234--11354262 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11354224 ATCCAAAACC
11354234 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
11354263 CTTAGGGTTT
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:11378958 original size:18 final size:18
Alignment explanation
Indices: 11378935--11378977 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
11378925 AAATAGATTT
11378935 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
11378953 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
11378971 TTAATTA
1 TTAATTA
11378978 CACCTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:11386351 original size:3 final size:3
Alignment explanation
Indices: 11386343--11386372 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
11386333 CACCCGTCTC
11386343 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
11386373 GTTGTCTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:11397736 original size:3 final size:3
Alignment explanation
Indices: 11397728--11397765 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
11397718 AATAGGAAGA
*
11397728 AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11397766 ATTTATTAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11399442 original size:44 final size:43
Alignment explanation
Indices: 11399340--11399460 Score: 136
Period size: 44 Copynumber: 2.8 Consensus size: 43
11399330 CCTTTATTTT
* * * * *
11399340 AATCCGCTCCACTGTAACTTCAGGGAGATAGGA-TAGTGTCTTC
1 AATCTGCTCCACTGTAAC-TCAGGGAGATAAGATTACTGGCCTC
* *
11399383 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCCTC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATTACTGGCCTC
*
11399427 GATCTGCTCCACTGTAACCTCAGGGAGATAAGAT
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGAT
11399461 CTGAATTTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
43 28 0.42
44 38 0.58
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (43 bp):
AATCTGCTCCACTGTAACTCAGGGAGATAAGATTACTGGCCTC
Found at i:11410308 original size:41 final size:41
Alignment explanation
Indices: 11410253--11410378 Score: 186
Period size: 41 Copynumber: 3.1 Consensus size: 41
11410243 AAATATTTTT
* *
11410253 ATTTTTTTATTTTTAAAATACTTTTAAAATACTTTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
*
11410294 ATTTTTTTAATTTTAAAATATTTTTAAAATAC-ATTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
*
11410334 A-TTTTTTAATTTTAAAATATTTTTAAAATAAATTTTTTT-A
1 ATTTTTTTAATTTTAAAATATTTTTAAAAT-ACTTTTTTTAA
11410374 ATTTT
1 ATTTT
11410379 AAAATAAATT
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
39 28 0.36
40 11 0.14
41 38 0.49
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (41 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
Found at i:11410331 original size:13 final size:11
Alignment explanation
Indices: 11410260--11410363 Score: 61
Period size: 11 Copynumber: 10.2 Consensus size: 11
11410250 TTTATTTTTT
11410260 TATTTTTAAAA
1 TATTTTTAAAA
*
11410271 TACTTTTAAAA
1 TATTTTTAAAA
*
11410282 TACTTTTTTTAAA
1 TA--TTTTTAAAA
11410295 T-TTTTT----
1 TATTTTTAAAA
*
11410301 TAATTTTAAAA
1 TATTTTTAAAA
11410312 TATTTTTAAAA
1 TATTTTTAAAA
11410323 TACATTTTT-AAA
1 T--ATTTTTAAAA
11410335 T-TTTTT---A
1 TATTTTTAAAA
11410342 -A-TTTTAAAA
1 TATTTTTAAAA
11410351 TATTTTTAAAA
1 TATTTTTAAAA
11410362 TA
1 TA
11410364 AATTTTTTTA
Statistics
Matches: 73, Mismatches: 5, Indels: 30
0.68 0.05 0.28
Matches are distributed among these distances:
6 5 0.07
7 5 0.07
9 6 0.08
10 6 0.08
11 33 0.45
12 4 0.05
13 14 0.19
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:11410348 original size:15 final size:15
Alignment explanation
Indices: 11410328--11410381 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
11410318 TAAAATACAT
11410328 TTTTAAATTTTTTAA
1 TTTTAAATTTTTTAA
11410343 TTTTAAAATATTTTTAA
1 TTTT-AAAT-TTTTTAA
**
11410360 -AATAAATTTTTTTAA
1 TTTTAAA-TTTTTTAA
11410375 TTTTAAA
1 TTTTAAA
11410382 ATAAATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
15 14 0.45
16 10 0.32
17 7 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTAAATTTTTTAA
Found at i:11413276 original size:12 final size:12
Alignment explanation
Indices: 11413254--11413297 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
11413244 ATCTCTCTCA
*
11413254 AGAAGCAGAAGC
1 AGAAGCCGAAGC
* *
11413266 CGAAGCCGAAGT
1 AGAAGCCGAAGC
11413278 AGAAGCCGAAGC
1 AGAAGCCGAAGC
11413290 AGAAGCCG
1 AGAAGCCG
11413298 TGGTCGGAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.41, C:0.23, G:0.34, T:0.02
Consensus pattern (12 bp):
AGAAGCCGAAGC
Found at i:11413281 original size:18 final size:18
Alignment explanation
Indices: 11413254--11413295 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
11413244 ATCTCTCTCA
11413254 AGAAGCAGAAGCCGAAGC
1 AGAAGCAGAAGCCGAAGC
* *
11413272 CGAAGTAGAAGCCGAAGC
1 AGAAGCAGAAGCCGAAGC
11413290 AGAAGC
1 AGAAGC
11413296 CGTGGTCGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.33, T:0.02
Consensus pattern (18 bp):
AGAAGCAGAAGCCGAAGC
Found at i:11415254 original size:6 final size:6
Alignment explanation
Indices: 11415243--11415272 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
11415233 AGTCCAAGTG
11415243 GGAGCA GGAGCA GGAGCA GGAGCA GGAGCA
1 GGAGCA GGAGCA GGAGCA GGAGCA GGAGCA
11415273 AGAGTGTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.50, T:0.00
Consensus pattern (6 bp):
GGAGCA
Found at i:11417333 original size:27 final size:28
Alignment explanation
Indices: 11417278--11417333 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
11417268 CAAGATATAT
***
11417278 TGGTAACTTCTATCACTTGCTTGTGTCA
1 TGGTAACTTCTATCACTTGCTTACATCA
*
11417306 TGGTAGCTTCTATCA-TTGCTTACATCA
1 TGGTAACTTCTATCACTTGCTTACATCA
11417333 T
1 T
11417334 AATTGGTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (28 bp):
TGGTAACTTCTATCACTTGCTTACATCA
Found at i:11425271 original size:89 final size:89
Alignment explanation
Indices: 11424952--11425300 Score: 288
Period size: 89 Copynumber: 3.9 Consensus size: 89
11424942 ACTGGAGCTG
*** * *
11424952 AAAT-AATTTTTTTATTTTACGGAATAATTATAATAATTATAATTTTTTTCATTTCA-TTTTGGG
1 AAATAAATTTTTTTATTTTATAAAATAATTATAATAATTACAATTTATTTCATTTCATTTTTGGG
*
11425015 CACTTAAGCTT-AAGTTT-GATGCTGC
66 CACTTAAGCTTGAA-TTTAG-TGC-AC
* * * ** **
11425040 -AATAAATTTTTCTATTTT-TCAATATAATCATAATAATTACTCTTTATTTCTATTT-ATTATCG
1 AAATAAATTTTTTTATTTTAT-AAAATAATTATAATAATTACAATTTATTTC-ATTTCATT-TTT
* * * *
11425102 GGGTATTTGGAA--TTGAGTCTAGTGCA-
63 GGGCACTT--AAGCTTGAATTTAGTGCAC
** * *
11425128 ATAATAATATATATATTTTATTTTATTGAATAATTATAATAATTACTATGTATTTCATTTCATTT
1 A-AATAA-AT-T-T-TTTTATTTTATAAAATAATTATAATAATTACAATTTATTTCATTTCATTT
*
11425193 TTGAGGCACTTGAGCTTGAATTTAGTGCAC
61 TTG-GGCACTTAAGCTTGAATTTAGTGCAC
11425223 AAAT-AATTTTTTTATTTTATAAAATAATTATAATAATTACAATTTATTTCATTTCATTTTTGGA
1 AAATAAATTTTTTTATTTTATAAAATAATTATAATAATTACAATTTATTTCATTTCATTTTTGG-
11425287 GCACTTAAGCTTGA
65 GCACTTAAGCTTGA
11425301 GGTTTGTACT
Statistics
Matches: 203, Mismatches: 36, Indels: 43
0.72 0.13 0.15
Matches are distributed among these distances:
87 3 0.01
88 37 0.18
89 67 0.33
90 20 0.10
91 5 0.02
92 6 0.03
93 8 0.04
94 55 0.27
95 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.48
Consensus pattern (89 bp):
AAATAAATTTTTTTATTTTATAAAATAATTATAATAATTACAATTTATTTCATTTCATTTTTGGG
CACTTAAGCTTGAATTTAGTGCAC
Found at i:11425501 original size:91 final size:89
Alignment explanation
Indices: 11425328--11425655 Score: 225
Period size: 91 Copynumber: 3.5 Consensus size: 89
11425318 TATTTTTAAA
* * * * * * * *
11425328 AATTTTCTAGATTAATTATAA-GAATCATTATTAATTTAATTTCATTTTCGAGGCACTTGAACTT
1 AATTTTTTAGAATAATTATAATCAA-CACTATTTATTTTATTTCATTTT-AAGGCACTTGGACTT
* * *
11425392 GAGTATGGTTTCGCAATAATATTTTTT
64 GAGTCTGGGTT-GAAATAATATTTTTT
* *
11425419 AATTTTACT-GAATAATTATAATCAACACTATTTATTATATTTCATTTTAAGGCCACTTGGACTT
1 AATTTT-TTAGAATAATTATAATCAACACTATTTATTTTATTTCATTTTAAGG-CACTTGGACTT
11425483 GAGTCTGGGGTTGAAATAACATATATATTTTT
64 GAGTCT-GGGTTGAAAT---A-ATAT-TTTTT
* * ** * **
11425515 AATTTTTTTAGAATTATTATAA-CAATCATTATTTATTTTATTTCATTTTTGGGGCATTTGGGTT
1 AA-TTTTTTAGAATAATTATAATCAA-CACTATTTATTTTATTTCA-TTTTAAGGCACTTGGACT
* * *
11425579 TGAGTCTTGTGCT-ACAAT-ATTTTTTTT
63 TGAGTC-TGGGTTGA-AATAATATTTTTT
* * *
11425606 AAAATTTTTTGGAATAATTATAATCAGCACTATTTATTTTGTTTCATTTT
1 --AATTTTTTAGAATAATTATAATCAACACTATTTATTTTATTTCATTTT
11425656 TGGGAACTTG
Statistics
Matches: 191, Mismatches: 28, Indels: 36
0.75 0.11 0.14
Matches are distributed among these distances:
90 3 0.02
91 64 0.34
92 45 0.24
93 4 0.02
94 1 0.01
95 4 0.02
96 12 0.06
97 51 0.27
98 7 0.04
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.48
Consensus pattern (89 bp):
AATTTTTTAGAATAATTATAATCAACACTATTTATTTTATTTCATTTTAAGGCACTTGGACTTGA
GTCTGGGTTGAAATAATATTTTTT
Found at i:11425986 original size:89 final size:87
Alignment explanation
Indices: 11425767--11426534 Score: 369
Period size: 89 Copynumber: 8.6 Consensus size: 87
11425757 CAATAATAAA
* * **
11425767 TTTTATTTTCTGAAATAATTAAAATAATTACCATGTATTTTTATTTTCATTTTATTTTTTAGGCA
1 TTTTA-TTTCTGAAATAATTATAATAATTA-CA---A--TTTA-TTTCATTTCATTTTCGAGGCA
* * *
11425832 CTTGGGTTTG-ATCTGGTGTTGCAATAATTTT
58 CTAGGGCTTGAAT-TGATGTTGCAATAA-TTT
* * * * *
11425863 TTTTAATTTTTCGGAATAATTATAAAAATTACAATTTATATCATTTCATTTTC-ATGGCACTTGG
1 TTTT-ATTTCT-GAAATAATTATAATAATTACAATTTATTTCATTTCATTTTCGA-GGCACTAGG
* *
11425927 ACTTGAATATGTTGTTGCAATAATTT
63 GCTTGAAT-TGATGTTGCAATAATTT
** **
11425953 TTCTTATTTCTGAAATAATTATAATAATTACAATTTCCTTCATTTCATTTTCG-GG-ACATTTGG
1 TT-TTATTTCTGAAATAATTATAATAATTACAATTTATTTCATTTCATTTTCGAGGCAC-TAGGG
* *
11426016 CTTGAGTCTGATGTCGCAATAAGTTT
64 CTTGAAT-TGATGTTGCAATAA-TTT
* *
11426042 TTATT-TTTC-GGAATAGTTATAATAATTACAATTTATTTCATTAT-ATTTTCGAGGCACTAGGG
1 TT-TTATTTCTGAAATAATTATAATAATTACAATTTATTTCATT-TCATTTTCGAGGCACTAGGG
* * * *
11426104 CTTGAGCTTGGTGCTACAAT-ATATT
64 CTTGA-ATTGATGTTGCAATAAT-TT
* * *
11426129 TTTTATTTTCCGAAATAATTATAACAATTACTATTTATTTCATTTCATTTTCGAGGCACTAGGGC
1 TTTTA-TTTCTGAAATAATTATAATAATTACAATTTATTTCATTTCATTTTCGAGGCACTAGGGC
* * * * * *
11426194 TTGAGTTTGGTGCTACAAGATTTT
65 TTGA-ATTGATGTTGCAATAATTT
* * * * * * *
11426218 TTTTAATTTTTGGAATAATTATAAT-ATT-TAA--TA-TTCATTTCATTTTCG-GGGAATATAGA
1 TTTT-ATTTCTGAAATAATTATAATAATTACAATTTATTTCATTTCATTTTCGAGGCACTA-GGG
* *
11426277 CTTGAGTCTGGTGTTGCAATAA---
64 CTTGAAT-TGATGTTGCAATAATTT
* * * ** * * *
11426299 ATTT-TTT-TGGAATAATTTTAATAGCTACTATTTATTTCATTTCATTTTTG-GGCACTTGGGCT
1 TTTTATTTCTGAAATAATTATAATAATTACAATTTATTTCATTTCATTTTCGAGGCACTAGGGCT
* * * *
11426361 TGATTCTGAAGCTACAATAA-TT
66 TGAAT-TGATGTTGCAATAATTT
* * * * * * * * *
11426383 TTTTATTTTTTGGAATAGTTATAGTAGTTACTATTTGTTTCATTTCATTTTC-AGAGCACTTGGT
1 TTTTA-TTTCTGAAATAATTATAATAATTACAATTTATTTCATTTCATTTTCGAG-GCACTAGGG
11426447 CTTTATTCTAGAGCTAGCTT-AGTGTTGCAATAA-TT
64 C-----T-T-GA---A--TTGA-TGTTGCAATAATTT
* *
11426482 TTTTATTTTTTGAAATAATTATAATAATTACTATTTATTTCATTTCATTTTCG
1 TTTTA-TTTCTGAAATAATTATAATAATTACAATTTATTTCATTTCATTTTCG
11426535 GGTCACTTGA
Statistics
Matches: 534, Mismatches: 91, Indels: 90
0.75 0.13 0.13
Matches are distributed among these distances:
78 14 0.03
79 4 0.01
80 1 0.00
81 3 0.01
82 20 0.04
83 24 0.04
84 34 0.06
85 2 0.00
86 6 0.01
87 81 0.15
88 63 0.12
89 133 0.25
90 36 0.07
91 21 0.04
93 2 0.00
94 1 0.00
95 2 0.00
96 10 0.02
97 17 0.03
98 1 0.00
99 58 0.11
100 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.48
Consensus pattern (87 bp):
TTTTATTTCTGAAATAATTATAATAATTACAATTTATTTCATTTCATTTTCGAGGCACTAGGGCT
TGAATTGATGTTGCAATAATTT
Found at i:11426146 original size:176 final size:177
Alignment explanation
Indices: 11425862--11426181 Score: 427
Period size: 176 Copynumber: 1.8 Consensus size: 177
11425852 GCAATAATTT
*
11425862 TTTTTAATTTTTCGGAATAATTATAAAAATTACAATTTATATCATTTCATTTTCATGGCACTTGG
1 TTTTTAATTTTTCGGAATAATTATAAAAATTACAATTTATATCATTTCATTTTCATGGCACTAGG
* * * * * *
11425927 ACTTGAATATGTTGTTGCAATAATTTTTCTTATTTCTGAAATAATTATAATAATTACAATTTCCT
66 ACTTGAATATGGTGCTACAATAATTTTTCTTATTTCCGAAATAATTATAACAATTACAATTTACT
11425992 TCATTTCATTTTCGGGACATTTGGCTTGAGTCTGATGTCGCAATAAG
131 TCATTTCATTTTCGGGACATTTGGCTTGAGTCTGATGTCGCAATAAG
* * *
11426039 TTTTT-ATTTTTCGGAATAGTTATAATAATTACAATTTATTTCATTAT-ATTTTCGA-GGCACTA
1 TTTTTAATTTTTCGGAATAATTATAAAAATTACAATTTATATCATT-TCATTTTC-ATGGCACTA
* * *
11426101 GGGCTTGAGCT-TGGTGCTACAAT-ATATTTT-TTATTTTCCGAAATAATTATAACAATTACTAT
64 GGACTTGA-ATATGGTGCTACAATAAT-TTTTCTTA-TTTCCGAAATAATTATAACAATTACAAT
*
11426163 TTATTTCATTTCATTTTCG
126 TTACTTCATTTCATTTTCG
11426182 AGGCACTAGG
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
175 5 0.04
176 111 0.90
177 8 0.06
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (177 bp):
TTTTTAATTTTTCGGAATAATTATAAAAATTACAATTTATATCATTTCATTTTCATGGCACTAGG
ACTTGAATATGGTGCTACAATAATTTTTCTTATTTCCGAAATAATTATAACAATTACAATTTACT
TCATTTCATTTTCGGGACATTTGGCTTGAGTCTGATGTCGCAATAAG
Found at i:11427549 original size:21 final size:21
Alignment explanation
Indices: 11427525--11427565 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11427515 AAAATCGATA
*
11427525 TAATTTTA-TTAATTATTAATT
1 TAATATTACTTAA-TATTAATT
11427546 TAATATTACTTAATATTAAT
1 TAATATTACTTAATATTAAT
11427566 ACGTTAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATATTACTTAATATTAATT
Found at i:11428379 original size:16 final size:16
Alignment explanation
Indices: 11428358--11428389 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11428348 CAATGGTGGG
11428358 TTCCTTTTTTTTTTCT
1 TTCCTTTTTTTTTTCT
11428374 TTCCTTTTTTTTTTCT
1 TTCCTTTTTTTTTTCT
11428390 GTGGTACAAA
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:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTCCTTTTTTTTTTCT
Found at i:11431196 original size:75 final size:75
Alignment explanation
Indices: 11431068--11431220 Score: 270
Period size: 75 Copynumber: 2.0 Consensus size: 75
11431058 TCACCAGAAT
* *
11431068 AAGAGGGAACACTATGAGAACTAGTATTTGTTGGACTAATATCTACTCTATTCTGAGGAATCGAA
1 AAGAGGGAACACTATGAGAACTAGTATTTGTTGGACTAATATCTACTCCATTCTAAGGAATCGAA
11431133 GACCCATTCA
66 GACCCATTCA
* *
11431143 AAGAGGGAATACTATGAGAATTAGTATTTGTTGGACTAATATCTACTCCATTCTAAGGAATCGAA
1 AAGAGGGAACACTATGAGAACTAGTATTTGTTGGACTAATATCTACTCCATTCTAAGGAATCGAA
11431208 GACCCATTCA
66 GACCCATTCA
11431218 AAG
1 AAG
11431221 TACTCGGGAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (75 bp):
AAGAGGGAACACTATGAGAACTAGTATTTGTTGGACTAATATCTACTCCATTCTAAGGAATCGAA
GACCCATTCA
Found at i:11438815 original size:26 final size:26
Alignment explanation
Indices: 11438786--11438838 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
11438776 CACCAATGAT
*
11438786 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
11438812 TCGGGGAATCAACACTTAGCAACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
11438838 T
1 T
11438839 TCACATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.34, G:0.21, T:0.17
Consensus pattern (26 bp):
TCGGGGAATCAACACTTAGCAACCCC
Found at i:11438856 original size:100 final size:101
Alignment explanation
Indices: 11438711--11438911 Score: 341
Period size: 100 Copynumber: 2.0 Consensus size: 101
11438701 CACCAATGAG
* * **
11438711 TCGGGGAATCAGCACTTAGCAACCCTTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAAC
1 TCGGGGAATCAACACTTAGCAACCCTCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAAC
*
11438776 CACCAATGATTCGGGGAATCAGCACTTAGCAACCCC
66 CACCAATGAGTCGGGGAATCAGCACTTAGCAACCCC
11438812 TCGGGGAATCAACACTTAGCAACCC-CTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAAC
1 TCGGGGAATCAACACTTAGCAACCCTCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAAC
*
11438876 CACCAATGAGTCGGGGAATTAGCACTTAGCAACCCC
66 CACCAATGAGTCGGGGAATCAGCACTTAGCAACCCC
11438912 CTTCACATTT
Statistics
Matches: 94, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
100 70 0.74
101 24 0.26
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (101 bp):
TCGGGGAATCAACACTTAGCAACCCTCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAAC
CACCAATGAGTCGGGGAATCAGCACTTAGCAACCCC
Found at i:11438873 original size:41 final size:41
Alignment explanation
Indices: 11438816--11438951 Score: 162
Period size: 41 Copynumber: 3.5 Consensus size: 41
11438806 AACCCCTCGG
*
11438816 GGAATCAACACTTAGCAACCCCTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCTTCACATTTAAGATACGGT
* *
11438857 GGAATCAGCACTTAGCAACCAC--CA-A--TGAG-T-CGG-
1 GGAATCAGCACTTAGCAACCCCTTCACATTTAAGATACGGT
* *
11438890 GGAATTAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAA-CCCCTTCACATTTAAGATACGGT
11438932 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
11438952 ACCAATGATT
Statistics
Matches: 78, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
33 17 0.22
34 6 0.08
35 1 0.01
36 5 0.06
37 1 0.01
38 1 0.01
39 4 0.05
40 1 0.01
41 25 0.32
42 17 0.22
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCCCTTCACATTTAAGATACGGT
Found at i:11438934 original size:75 final size:75
Alignment explanation
Indices: 11438812--11438986 Score: 298
Period size: 75 Copynumber: 2.3 Consensus size: 75
11438802 TAGCAACCCC
* *
11438812 TCGGGGAATCAACACTTAGCAA-CCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAAC
1 TCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAAC
11438876 CACCAATGAG
66 CACCAATGAG
*
11438886 TCGGGGAATTAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAAC
1 TCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAAC
*
11438951 CACCAATGAT
66 CACCAATGAG
*
11438961 TCGAGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACTTAGCAACCCC
11438987 TCGGGGGAAT
Statistics
Matches: 94, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
74 20 0.21
75 74 0.79
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (75 bp):
TCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAAC
CACCAATGAG
Found at i:11438971 original size:175 final size:177
Alignment explanation
Indices: 11438678--11439016 Score: 574
Period size: 175 Copynumber: 1.9 Consensus size: 177
11438668 TAACCGTTAT
* * **
11438678 CGGTGGATTCAGCATTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCTTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCCTTCAC
* ** *
11438743 ATTTAAGATACGGTGGGTTCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAA
66 ATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGATTCGAGGAATCAGCACTTAGCAA
11438808 CCCCTC-GGGGAATCAACACTTAGCAACC-CCTTCACATTTAAGATA
131 CCCCTCGGGGGAATCAACACTTAGCAACCACCTTCACATTTAAGATA
*
11438853 CGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATTAGCACTTAGCAACCCCCTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCCTTCAC
11438918 ATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGATTCGAGGAATCAGCACTTAGCAA
66 ATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGATTCGAGGAATCAGCACTTAGCAA
*
11438983 CCCCTCGGGGGAATCAGCACTTAGCAACCACCTT
131 CCCCTCGGGGGAATCAACACTTAGCAACCACCTT
11439017 TTTATTCAAT
Statistics
Matches: 152, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
175 127 0.84
176 21 0.14
177 4 0.03
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (177 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCCTTCAC
ATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGATTCGAGGAATCAGCACTTAGCAA
CCCCTCGGGGGAATCAACACTTAGCAACCACCTTCACATTTAAGATA
Found at i:11439376 original size:30 final size:30
Alignment explanation
Indices: 11439342--11439409 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
11439332 TAATCCACCA
*
11439342 CCCAAGTTTTTGAAAAATTACAATTTTGCC
1 CCCAAGCTTTTGAAAAATTACAATTTTGCC
* * * * *
11439372 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCCAAGCTTTTGAAAAATTACAATTTTGCC
11439402 CCCAAGCT
1 CCCAAGCT
11439410 CGAAAATTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (30 bp):
CCCAAGCTTTTGAAAAATTACAATTTTGCC
Found at i:11446165 original size:102 final size:102
Alignment explanation
Indices: 11446042--11446342 Score: 521
Period size: 102 Copynumber: 3.0 Consensus size: 102
11446032 CCAATGAGTC
** **
11446042 GGGGAATCAGCACTTAGCAACCCTTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
11446107 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
*
11446144 GGGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
* * *
11446209 CCAATGAGTCGGGGAATCAGCACTTAGCAATCCCTTG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
*
11446246 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
11446311 CCAATGATTCGGGGAATCAGCACTTAGCAACC
66 CCAATGATTCGGGGAATCAGCACTTAGCAACC
11446343 ACCTTTTTAT
Statistics
Matches: 187, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 187 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTCG
Found at i:11446697 original size:30 final size:30
Alignment explanation
Indices: 11446663--11446728 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
11446653 TAATCCACCA
11446663 CCCAAGTTTTTGAAAAATTACAATTTTGCC
1 CCCAAGTTTTTGAAAAATTACAATTTTGCC
* * * * *
11446693 CCCAAATTTTTGCATAATTACACTTTTGTC
1 CCCAAGTTTTTGAAAAATTACAATTTTGCC
11446723 CCCAAG
1 CCCAAG
11446729 CTCGGAAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.36
Consensus pattern (30 bp):
CCCAAGTTTTTGAAAAATTACAATTTTGCC
Found at i:11447424 original size:11 final size:12
Alignment explanation
Indices: 11447396--11447429 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
11447386 GTCCAAACGT
11447396 CGAAATTTTTGGA
1 CGAAATTTTT-GA
11447409 CGAAATTTTT-A
1 CGAAATTTTTGA
11447420 CGAAATTTTT
1 CGAAATTTTT
11447430 CCGTAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (12 bp):
CGAAATTTTTGA
Found at i:11450126 original size:24 final size:24
Alignment explanation
Indices: 11450076--11450127 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
11450066 AATTAAAGTC
* **
11450076 AAATATATTATGTTAATAAATGTT
1 AAATATATTATCTTAATAAATACT
11450100 AAATATATTATACTT-ATAAATACT
1 AAATATATTAT-CTTAATAAATACT
11450124 AAAT
1 AAAT
11450128 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (24 bp):
AAATATATTATCTTAATAAATACT
Found at i:11465000 original size:23 final size:23
Alignment explanation
Indices: 11464966--11465032 Score: 100
Period size: 23 Copynumber: 2.9 Consensus size: 23
11464956 GTGTTATTGA
*
11464966 TCAATGGTAGCTACGGCTACATAT
1 TCAATGGTAGCTTCGGCTACAT-T
*
11464990 T-AGTGGTAGCTTCGGCTACATT
1 TCAATGGTAGCTTCGGCTACATT
11465012 TCAATGGTAGCTTCGGCTACA
1 TCAATGGTAGCTTCGGCTACA
11465033 AATCAGTGTG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
22 2 0.05
23 36 0.92
24 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (23 bp):
TCAATGGTAGCTTCGGCTACATT
Found at i:11465529 original size:16 final size:16
Alignment explanation
Indices: 11465508--11465565 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
11465498 CATTTGGTTC
11465508 GCTGTAATAGAATAGA
1 GCTGTAATAGAATAGA
* *
11465524 GCTGTAGTTGAATAGA
1 GCTGTAATAGAATAGA
*
11465540 GCTGTAATGGAATAGA
1 GCTGTAATAGAATAGA
*
11465556 ACTGTAATAG
1 GCTGTAATAG
11465566 TAATTCAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (16 bp):
GCTGTAATAGAATAGA
Found at i:11465598 original size:45 final size:44
Alignment explanation
Indices: 11465545--11465637 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
11465535 ATAGAGCTGT
11465545 AATGGAATAGAACTGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGT-ATTC-ATGTGTTTGGTTGAATGG
*
11465590 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
11465634 AATG
1 AATG
11465638 ATGTTGTAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.50
45 22 0.48
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:11465831 original size:19 final size:19
Alignment explanation
Indices: 11465795--11465847 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
11465785 TTATTATTAA
11465795 ATATAATTTAAT-AAAAAT
1 ATATAATTTAATAAAAAAT
11465813 ATATAATTTAATAAAAAAT
1 ATATAATTTAATAAAAAAT
11465832 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
11465848 TTCTTAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 12 0.35
19 22 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATAATTTAATAAAAAAT
Found at i:11465877 original size:74 final size:75
Alignment explanation
Indices: 11465744--11465884 Score: 171
Period size: 74 Copynumber: 1.9 Consensus size: 75
11465734 AATAAGATTA
***
11465744 TTAATATAAATAATAAATAATTTAATCTTATTTTAACATAATTATTATTAAATATAATTTAATAA
1 TTAATATAAATAATAAATAATTTAATAAAATTTTAACATAATTATTATT-AATATAATTTAATAA
11465809 AAATATATAAT
65 AAATATATAAT
* * * *
11465820 TTAATA-AAA-AATATATAATTTAATAAAATTCTTAATATAATTATTCTT-ATATGAATTTACTA
1 TTAATATAAATAATAAATAATTTAATAAAATT-TTAACATAATTATTATTAATAT-AATTTAATA
11465882 AAA
64 AAA
11465885 TCATAATATA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
73 4 0.07
74 28 0.50
75 18 0.32
76 6 0.11
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (75 bp):
TTAATATAAATAATAAATAATTTAATAAAATTTTAACATAATTATTATTAATATAATTTAATAAA
AATATATAAT
Found at i:11467140 original size:37 final size:38
Alignment explanation
Indices: 11467097--11467172 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
11467087 GGTTGAGGAA
* *
11467097 AGGGAAAAAA-AACAATTACTTTACCAAAATGGATCCC
1 AGGGAAAAAAGAACAACTACGTTACCAAAATGGATCCC
*
11467134 AGGGAAAAAAGAGCAACTACGTTACCAAAATGGATCCC
1 AGGGAAAAAAGAACAACTACGTTACCAAAATGGATCCC
11467172 A
1 A
11467173 ATACAAGAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
37 10 0.29
38 25 0.71
ACGTcount: A:0.47, C:0.20, G:0.17, T:0.16
Consensus pattern (38 bp):
AGGGAAAAAAGAACAACTACGTTACCAAAATGGATCCC
Found at i:11469949 original size:49 final size:49
Alignment explanation
Indices: 11469890--11470025 Score: 211
Period size: 49 Copynumber: 2.8 Consensus size: 49
11469880 AAGTGATATG
*
11469890 TGATTCCGTGTAAGACCATAGTTGGGCTATGGCATC-AGTATATGTTATA
1 TGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGA-TATATGTTATA
* * *
11469939 TGATTACGTGTAAGACTATAGCTGGGCTATGGCATCGATATATGTTATG
1 TGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGTTATA
*
11469988 TGATTACGTGTAAGACCATAGTTGGACTATGGCATCGA
1 TGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGA
11470026 GAAAAGTACT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
49 78 0.99
50 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (49 bp):
TGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGTTATA
Found at i:11473807 original size:41 final size:41
Alignment explanation
Indices: 11473745--11473875 Score: 145
Period size: 41 Copynumber: 3.2 Consensus size: 41
11473735 TCAGATTTAT
* * * *
11473745 TGCCAGTGAAATAATTCAGACTTTAGGTCTAGCAGGCTTGA
1 TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCTTAA
*
11473786 TGCCGGTGAAATTATTCAGACTATACGTCTAGCAGGCTTAA
1 TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCTTAA
* *** * * *
11473827 TGCCGGTGATACGTTTCAAACTATAAGTCTAGCAGGCTAAA
1 TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCTTAA
*
11473868 AGCCGGTG
1 TGCCGGTG
11473876 TGCCAAATCA
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 77 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (41 bp):
TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGCTTAA
Found at i:11476584 original size:24 final size:25
Alignment explanation
Indices: 11476535--11476582 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
11476525 GAAAAATATT
11476535 AAATATATATATATTTTTATTTTTA
1 AAATATATATATATTTTTATTTTTA
*
11476560 AAATATA-ATAGTTTTTTTATTTT
1 AAATATATATA-TATTTTTATTTT
11476583 AAGTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
AAATATATATATATTTTTATTTTTA
Found at i:11476693 original size:9 final size:9
Alignment explanation
Indices: 11476679--11476706 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
11476669 TTTTGTTACA
11476679 ACAATTAAT
1 ACAATTAAT
11476688 ACAATTAAT
1 ACAATTAAT
11476697 ACAATTAAT
1 ACAATTAAT
11476706 A
1 A
11476707 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:11476728 original size:68 final size:68
Alignment explanation
Indices: 11476649--11476858 Score: 379
Period size: 68 Copynumber: 3.1 Consensus size: 68
11476639 TCAAGTTTGT
*
11476649 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
11476714 AAA
66 AAA
*
11476717 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATCAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
11476782 AAA
66 AAA
11476785 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAAT--AATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
11476848 AAT
66 AAA
11476851 TTTACTAA
1 TTTACTAA
11476859 CAATTAGTTT
Statistics
Matches: 138, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
66 25 0.18
68 113 0.82
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:11480963 original size:9 final size:9
Alignment explanation
Indices: 11480949--11480979 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
11480939 TTTATACCTA
11480949 TTTTTTCTT
1 TTTTTTCTT
11480958 TTTTTTCTCT
1 TTTTTTCT-T
11480968 TTTTTTCTT
1 TTTTTTCTT
11480977 TTT
1 TTT
11480980 CTTTTCTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:11505374 original size:68 final size:69
Alignment explanation
Indices: 11505243--11505381 Score: 217
Period size: 68 Copynumber: 2.0 Consensus size: 69
11505233 GACTTGCAAA
* * *
11505243 ATTGTGAAAAACTAGATAGGCAAAATAAGTACAAGCAATAATGCAAATTAGGTTTCCCAAGATAT
1 ATTGTGAAAAACTAGATAGGAAAAATAAGTAAAAGCAATAATACAAATTAGGTTTCCCAAGATAT
11505308 AGAC
66 AGAC
* **
11505312 ATTGTGAAAAACTAGATAGGAAAAAT-AGTAAAAGCAATGATACAAATTAGGTTTCCTGAGATAT
1 ATTGTGAAAAACTAGATAGGAAAAATAAGTAAAAGCAATAATACAAATTAGGTTTCCCAAGATAT
11505376 AGAC
66 AGAC
11505380 AT
1 AT
11505382 GAAGAAGGGA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
68 39 0.61
69 25 0.39
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (69 bp):
ATTGTGAAAAACTAGATAGGAAAAATAAGTAAAAGCAATAATACAAATTAGGTTTCCCAAGATAT
AGAC
Found at i:11507551 original size:15 final size:15
Alignment explanation
Indices: 11507531--11507559 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11507521 TGGAACCAAA
11507531 TAATCATAAATTATG
1 TAATCATAAATTATG
11507546 TAATCATAAATTAT
1 TAATCATAAATTAT
11507560 CTAAAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.41
Consensus pattern (15 bp):
TAATCATAAATTATG
Found at i:11534461 original size:46 final size:45
Alignment explanation
Indices: 11534394--11534737 Score: 364
Period size: 46 Copynumber: 8.1 Consensus size: 45
11534384 TGAGTACATT
* *
11534394 TGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTATC
11534440 TGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATC
* *
11534476 TGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTATC
11534522 TGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATC
11534558 TGATCAAGTGAAAAAAGTGATAA---GT-GC-TA--T--ACTTATC
1 TGATCAAGTG-AAAAAGTGATAAGTGGTAGCTTAGCTACACTTATC
* *
11534595 TGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTATC
*
11534641 TGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTATC
* * *
11534687 TGATCAAGTGACAAAGGGATAAGTGGTAGCCTAGCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATC
11534732 TGATCA
1 TGATCA
11534738 GGGACAAGCG
Statistics
Matches: 264, Mismatches: 13, Indels: 43
0.82 0.04 0.13
Matches are distributed among these distances:
36 58 0.22
37 38 0.14
38 1 0.00
39 1 0.00
40 5 0.02
41 1 0.00
42 6 0.02
43 2 0.01
44 1 0.00
45 23 0.09
46 128 0.48
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (45 bp):
TGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATC
Found at i:11534469 original size:36 final size:36
Alignment explanation
Indices: 11534428--11534619 Score: 240
Period size: 36 Copynumber: 5.0 Consensus size: 36
11534418 GGTAGCTTTA
11534428 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
11534464 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
11534509 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
11534546 GCTATACTTATCTGATCAAGTGAAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTG-AAAAAGTGATAAGT
* *
11534583 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
11534619 G
1 G
11534620 TTAGCCTTAG
Statistics
Matches: 139, Mismatches: 6, Indels: 22
0.83 0.04 0.13
Matches are distributed among these distances:
36 65 0.47
37 38 0.27
40 2 0.01
42 2 0.01
45 2 0.01
46 30 0.22
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:11534531 original size:82 final size:82
Alignment explanation
Indices: 11534394--11534711 Score: 377
Period size: 82 Copynumber: 3.9 Consensus size: 82
11534384 TGAGTACATT
*
11534394 TGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
1 TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
11534459 TAAGTGCTACACTTATC
66 TAAGTGCTACACTTATC
*
11534476 TGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
1 TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
*
11534541 TAAGTGCTATACTTATC
66 TAAGTGCTACACTTATC
* *
11534558 TGATCAAGTGAAAAAAGTGATAA---GT-GC--TA--T--ACTTATCTGATCAAGTGACAAAGTG
1 TGATCAAGAG-AAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
11534613 ATAAGTGTTAGCCTTAGCTACACTTATC
65 AT-A-----AG---T-GCTACACTTATC
* * * * *
11534641 TGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGGGA
1 TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
11534706 TAAGTG
66 TAAGTG
11534712 GTAGCCTAGC
Statistics
Matches: 207, Mismatches: 8, Indels: 42
0.81 0.03 0.16
Matches are distributed among these distances:
73 26 0.13
74 1 0.00
75 1 0.00
77 2 0.01
79 4 0.02
80 2 0.01
82 102 0.49
83 33 0.16
85 2 0.01
86 4 0.02
88 2 0.01
90 1 0.00
91 1 0.00
92 26 0.13
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (82 bp):
TGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
TAAGTGCTACACTTATC
Found at i:11534582 original size:37 final size:36
Alignment explanation
Indices: 11534510--11534619 Score: 193
Period size: 37 Copynumber: 3.0 Consensus size: 36
11534500 GGTAGCTTTA
*
11534510 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
11534546 GCTATACTTATCTGATCAAGTGAAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTG-AAAAAGTGATAAGT
*
11534583 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
11534619 G
1 G
11534620 TTAGCCTTAG
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
36 35 0.49
37 36 0.51
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:11534583 original size:119 final size:118
Alignment explanation
Indices: 11534428--11534665 Score: 413
Period size: 119 Copynumber: 2.0 Consensus size: 118
11534418 GGTAGCTTTA
11534428 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
*
11534493 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
11534546 GCTATACTTATCTGATCAAGTGAAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAAG
1 GCTACACTTATCTGATCAAGTG-AAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAG
* *
11534611 TGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT
65 TGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
11534665 G
1 G
11534666 GTAGCCTTAG
Statistics
Matches: 113, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
118 21 0.19
119 92 0.81
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (118 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:11541531 original size:46 final size:46
Alignment explanation
Indices: 11541465--11541764 Score: 498
Period size: 46 Copynumber: 6.6 Consensus size: 46
11541455 TTTGAGTACT
* *
11541465 TCTGATC-AGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACGTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
11541510 TCTGATCAAGTGACAAAGTGATAAGTGGTAACTTTACCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
11541556 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
11541602 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTGCACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
11541648 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
11541694 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
11541740 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
11541765 ATCATACGTA
Statistics
Matches: 240, Mismatches: 14, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
44 12 0.05
45 12 0.05
46 216 0.90
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:11543034 original size:46 final size:45
Alignment explanation
Indices: 11542928--11543253 Score: 404
Period size: 46 Copynumber: 7.6 Consensus size: 45
11542918 TACGTATGAT
* *
11542928 CACTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGTCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
11542971 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
11543017 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
*
11543063 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
*
11543109 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--TA----A-
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
11543145 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--TA-G----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
* *
11543181 CACTTATCAATTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* *
11543227 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
11543254 AGTACTCAAA
Statistics
Matches: 260, Mismatches: 9, Indels: 25
0.88 0.03 0.09
Matches are distributed among these distances:
36 63 0.24
37 1 0.00
38 3 0.01
40 1 0.00
41 2 0.01
42 2 0.01
43 10 0.04
44 7 0.03
45 21 0.08
46 150 0.58
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (45 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
Found at i:11543150 original size:36 final size:36
Alignment explanation
Indices: 11543109--11543212 Score: 181
Period size: 36 Copynumber: 2.9 Consensus size: 36
11543099 CTGAGGCTAC
*
11543109 CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
*
11543145 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
*
11543181 CACTTATCAATTTTTCACTTGATCAGATAAGT
1 CACTTATCACTTTTTCACTTGATCAGATAAGT
11543213 GTAGCTAAAG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
Found at i:11551222 original size:5 final size:5
Alignment explanation
Indices: 11551212--11551237 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11551202 AATTTTTAAG
11551212 AATAT AATAT AATAT AATAT AATAT A
1 AATAT AATAT AATAT AATAT AATAT A
11551238 TTTTAATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:11563418 original size:39 final size:40
Alignment explanation
Indices: 11563369--11563447 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 40
11563359 CTAAGTTGCA
11563369 TTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTAAT
1 TTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTAAT
*
11563409 TTTAT-TTAGTATTATTTAGGTGAAATTATTTATTTTAAT
1 TTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTAAT
11563448 ATTTTTGATG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 33 0.87
40 5 0.13
ACGTcount: A:0.32, C:0.01, G:0.10, T:0.57
Consensus pattern (40 bp):
TTTATCTTAGTATTATTTAGGTGAAAATATTTATTTTAAT
Found at i:11571863 original size:47 final size:47
Alignment explanation
Indices: 11571794--11571890 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
11571784 TTTGCAAAGG
11571794 AGTACGTATGGTACTGGATAACTAGGAATAGGAAAGCTGCTTTCTAC
1 AGTACGTATGGTACTGGATAACTAGGAATAGGAAAGCTGCTTTCTAC
11571841 AGTACGTATGGTACTGGATAACTAGGAATAGGAAAGCTGCTTTCTAC
1 AGTACGTATGGTACTGGATAACTAGGAATAGGAAAGCTGCTTTCTAC
11571888 AGT
1 AGT
11571891 TATTCTTCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (47 bp):
AGTACGTATGGTACTGGATAACTAGGAATAGGAAAGCTGCTTTCTAC
Found at i:11580901 original size:16 final size:16
Alignment explanation
Indices: 11580880--11580916 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
11580870 TTGGCTCGCT
11580880 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
11580896 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
11580912 GTAAT
1 GTAAT
11580917 AGGTAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:11580985 original size:44 final size:46
Alignment explanation
Indices: 11580896--11580986 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
11580886 GAATAGAGGC
*
11580896 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
11580942 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
11580986 G
1 G
11580987 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:11580987 original size:39 final size:44
Alignment explanation
Indices: 11580896--11581003 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 44
11580886 GAATAGAGGC
*
11580896 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
11580942 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
11580982 G-AATGGAATAGAGGTGTAATAG
1 GTAATGGAATAGAGGCGTAATAG
11581004 CATAAGGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
39 18 0.31
40 3 0.05
43 1 0.02
44 13 0.22
45 3 0.05
46 21 0.36
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:11581164 original size:15 final size:15
Alignment explanation
Indices: 11581144--11581182 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
11581134 CATAATTGTT
11581144 ATAAAATATAATTTA
1 ATAAAATATAATTTA
11581159 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
11581176 ATAAAAT
1 ATAAAAT
11581183 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:11581189 original size:17 final size:17
Alignment explanation
Indices: 11581149--11581182 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11581139 TTGTTATAAA
11581149 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11581166 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11581183 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11581254 original size:20 final size:21
Alignment explanation
Indices: 11581215--11581254 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
11581205 AATTTACTAA
*
11581215 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
11581236 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
11581255 ATAATTATTA
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:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:11581258 original size:26 final size:27
Alignment explanation
Indices: 11581222--11581285 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
11581212 TAATAAAATC
11581222 ATAATATATAA-TACTAAAATATAATTTA
1 ATAATA-ATAATTA-TAAAATATAATTTA
*
11581250 A-AATAATAATTATTAAATATAATTTA
1 ATAATAATAATTATAAAATATAATTTA
11581276 ATAATAATAA
1 ATAATAATAA
11581286 ATAATTAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
26 18 0.55
27 14 0.42
28 1 0.03
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (27 bp):
ATAATAATAATTATAAAATATAATTTA
Found at i:11581380 original size:32 final size:32
Alignment explanation
Indices: 11581344--11581407 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
11581334 TATATAATAC
*
11581344 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATATAAATAATTATTATTAAA
** ** *
11581376 TATAATTTATAATATACTTTATTATTATTAAA
1 TATAAAATATAATATAAATAATTATTATTAAA
11581408 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATATAAATAATTATTATTAAA
Found at i:11582818 original size:49 final size:49
Alignment explanation
Indices: 11582746--11582849 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
11582736 GAAAAAAAAC
* * ** * *
11582746 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
*
11582795 AAATTAAAATTGAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
11582844 AAATTA
1 AAATTA
11582850 TAACACATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
Found at i:11585011 original size:12 final size:12
Alignment explanation
Indices: 11584987--11585020 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11584977 CCGCATTTTA
11584987 AGCAAAAGAACG
1 AGCAAAAGAACG
* *
11584999 AGCCAAAGCACG
1 AGCAAAAGAACG
11585011 AGCAAAAGAA
1 AGCAAAAGAA
11585021 AATAAATAAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.56, C:0.21, G:0.24, T:0.00
Consensus pattern (12 bp):
AGCAAAAGAACG
Found at i:11586131 original size:23 final size:22
Alignment explanation
Indices: 11586087--11586131 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
11586077 ATAAAAAATC
*
11586087 TATTTAAAAAAAGGTCAAATTT
1 TATTTAAAAAAAGGTAAAATTT
11586109 TATTTAAAATAAAGG-AAATATTT
1 TATTTAAAA-AAAGGTAAA-ATTT
11586132 CCACTTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (22 bp):
TATTTAAAAAAAGGTAAAATTT
Found at i:11586964 original size:13 final size:13
Alignment explanation
Indices: 11586946--11586970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11586936 AACATTCGGC
11586946 CGGTGGGAATAAT
1 CGGTGGGAATAAT
11586959 CGGTGGGAATAA
1 CGGTGGGAATAA
11586971 ACAAATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.40, T:0.20
Consensus pattern (13 bp):
CGGTGGGAATAAT
Found at i:11588921 original size:22 final size:21
Alignment explanation
Indices: 11588896--11588948 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
11588886 ATGTAGAATT
11588896 TTTAATTAAATAAAAAAATAAA
1 TTTAATTAAAT-AAAAAATAAA
*
11588918 TTTAATATTAAATAAAAATTAAA
1 TTT-A-ATTAAATAAAAAATAAA
*
11588941 TTAAATTA
1 TTTAATTA
11588949 TCATTTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 4 0.15
22 4 0.15
23 12 0.44
24 7 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTAATTAAATAAAAAATAAA
Found at i:11588932 original size:16 final size:16
Alignment explanation
Indices: 11588899--11588946 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
11588889 TAGAATTTTT
* *
11588899 AATTAAATAAAAAAATA
1 AATTAAATTAAATAA-A
11588916 AATTTAATATTAAATAAA
1 AA-TTAA-ATTAAATAAA
11588934 AATTAAATTAAAT
1 AATTAAATTAAAT
11588947 TATCATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 7 0.26
17 6 0.22
18 7 0.26
19 7 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTAAATTAAATAAA
Found at i:11589789 original size:29 final size:28
Alignment explanation
Indices: 11589743--11589804 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 28
11589733 TTAAATTTAT
11589743 TTAATTTTCTAATAATATAAAGGCTAAA
1 TTAATTTTCTAATAATATAAAGGCTAAA
* * *
11589771 TTAATTTATTTAATAATATAGAGGCTAAT
1 TTAATTT-TCTAATAATATAAAGGCTAAA
11589800 TTAAT
1 TTAAT
11589805 CTAGTCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (28 bp):
TTAATTTTCTAATAATATAAAGGCTAAA
Found at i:11592491 original size:18 final size:18
Alignment explanation
Indices: 11592470--11592511 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
11592460 AATATTACAA
11592470 AAAAAATTTAATAAAT-AT
1 AAAAAATTTAA-AAATCAT
* *
11592488 AAAAAGTTTCAAAATCAT
1 AAAAAATTTAAAAATCAT
11592506 AAAAAA
1 AAAAAA
11592512 AATATAATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAAAATTTAAAAATCAT
Done.