Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 37 of 135
Found at i:14711470 original size:231 final size:230
Alignment explanation
Indices: 14711067--14711756 Score: 1101
Period size: 231 Copynumber: 3.0 Consensus size: 230
14711057 AAATTTGCTG
* * *
14711067 GGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCTTTTTTGGGTAAGGATGCACTAAACTCTGT
1 GGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGC-ATTTTGGGGAAGGATGCACTAAGCTCTGT
* *
14711132 ATGGGTGGAGATGCTGGAATAGGCGGCAACAACATGGCTCTTGGTGCTGGTAGTGTAGGAGGTAA
65 ATGGGTGGACATGCTGGAATAGGCGGCAACAGCATGGCTCTTGGTGCTGGTAGTGTAGGAGGTAA
* * *
14711197 AATTAAATTTGATGAATGTATCATTATCTGATCGCATGGTTTTGCAGTTTCATCGTTTTGATCAC
130 AATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGATCAC
*
14711262 TTTTGCGGATTACTTGTTGCTGCTCAATTGTTTCTA
195 TTTTGCGGTTTACTTGTTGCTGCTCAATTGTTTCTA
* * *
14711298 GGAGGGGAGTTGCATGTGGGGTGGTTGATGATGGCATTTTCGGGGAAGGATGCAATAAGCTCTCT
1 GGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTTT-GGGGAAGGATGCACTAAGCTCTGT
*
14711363 ATGGGTGGACATGCTGGAATAGGCGACAACAGCATGGCTCTTGGTGCTGGTAGTGTAGGAGGTAA
65 ATGGGTGGACATGCTGGAATAGGCGGCAACAGCATGGCTCTTGGTGCTGGTAGTGTAGGAGGTAA
* *
14711428 AATTAAATTTGATGAAGGTAGCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGATCAT
130 AATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGATCAC
* *
14711493 TTTTGCGGTTTACTTGTCGCTGCTCAATTGTTTCTG
195 TTTTGCGGTTTACTTGTTGCTGCTCAATTGTTTCTA
* * *
14711529 GGAGGAGAGTTGCATGTAGGGTGGTTGGTGATGGCATTATTGGGGAAGGGTGCACTAAGCTCTGT
1 GGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATT-TTGGGGAAGGATGCACTAAGCTCTGT
* * * *
14711594 ATGGGTGGACATTCTGAAATAGGCGGCAACAGCATGGCTCCTGGTGCTGGTAGTGTAGAAGGTAA
65 ATGGGTGGACATGCTGGAATAGGCGGCAACAGCATGGCTCTTGGTGCTGGTAGTGTAGGAGGTAA
* * * *
14711659 AATTAAATTTGATGAAGGTATTATTGACTTATCGCATGGTTCTGCAGTTTCATCGGTTTGATCAC
130 AATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGATCAC
14711724 TTTTGCGGTTTACTTGTTGCTGCTCAATTGTTT
195 TTTTGCGGTTTACTTGTTGCTGCTCAATTGTTT
14711757 TTGCTGCTTT
Statistics
Matches: 422, Mismatches: 35, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
230 4 0.01
231 416 0.99
232 2 0.00
ACGTcount: A:0.22, C:0.13, G:0.31, T:0.34
Consensus pattern (230 bp):
GGAGGGGAGTTGCATGTGGGGTGGTTGGTGATGGCATTTTGGGGAAGGATGCACTAAGCTCTGTA
TGGGTGGACATGCTGGAATAGGCGGCAACAGCATGGCTCTTGGTGCTGGTAGTGTAGGAGGTAAA
ATTAAATTTGATGAAGGTATCATTAACTTATCGCATGGTTTTGCAGTTTCATCGTTTTGATCACT
TTTGCGGTTTACTTGTTGCTGCTCAATTGTTTCTA
Found at i:14713805 original size:72 final size:73
Alignment explanation
Indices: 14713706--14713852 Score: 287
Period size: 72 Copynumber: 2.0 Consensus size: 73
14713696 ATAAGTAAAC
14713706 CATATATAATTTTAAAAAAATAGTTATATTAAATTTTTTTTTTTAATTCCGTCTCCCCCGCTCTC
1 CATATATAATTTTAAAAAAATAGTTATATTAAATTTTTTTTTTTAATTCCGTCTCCCCCGCTCTC
14713771 AGCTCCCT
66 AGCTCCCT
14713779 CATATATAA-TTTAAAAAAATAGTTATATTAAATTTTTTTTTTTAATTCCGTCTCCCCCGCTCTC
1 CATATATAATTTTAAAAAAATAGTTATATTAAATTTTTTTTTTTAATTCCGTCTCCCCCGCTCTC
14713843 AGCTCCCT
66 AGCTCCCT
14713851 CA
1 CA
14713853 ACTTGCACAG
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 65 0.88
73 9 0.12
ACGTcount: A:0.29, C:0.22, G:0.05, T:0.43
Consensus pattern (73 bp):
CATATATAATTTTAAAAAAATAGTTATATTAAATTTTTTTTTTTAATTCCGTCTCCCCCGCTCTC
AGCTCCCT
Found at i:14714543 original size:26 final size:26
Alignment explanation
Indices: 14714514--14714565 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
14714504 ATTATATTTT
14714514 AGTAAGAATATAAAAAATTATTATAA
1 AGTAAGAATATAAAAAATTATTATAA
14714540 AGTAAGAATATAAAAAATTATTATAA
1 AGTAAGAATATAAAAAATTATTATAA
14714566 CTTGTTGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (26 bp):
AGTAAGAATATAAAAAATTATTATAA
Found at i:14715453 original size:3 final size:3
Alignment explanation
Indices: 14715436--14715518 Score: 82
Period size: 3 Copynumber: 28.0 Consensus size: 3
14715426 TATACATAAA
* * * **
14715436 TAT TA- TAT ATAT TAT TAT TAT AAT TAT TAAC CAT TAT TAT GGT T-T
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
14715481 TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14715519 ATAAGATTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
2 6 0.09
3 56 0.85
4 4 0.06
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:14716826 original size:41 final size:41
Alignment explanation
Indices: 14716780--14716884 Score: 105
Period size: 38 Copynumber: 2.6 Consensus size: 41
14716770 TCGACCTCGA
14716780 GTCGATGAGACACTGGGTGTCACTATA-TTTCTTCGGATAGTT
1 GTCGATGAGACACTGGGTGTCACTATACTTTCTTCGGAT--TT
** *
14716822 -TCGATGAGGTACT-GG-GT-ACTA-ACTTTCTTCGGCTTT
1 GTCGATGAGACACTGGGTGTCACTATACTTTCTTCGGATTT
*
14716858 GCCGATGAGACACTGGGTGTCAACTAT
1 GTCGATGAGACACTGGGTGTC-ACTAT
14716885 TGCTTCGAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
36 2 0.04
37 11 0.22
38 16 0.32
39 4 0.08
40 2 0.04
41 15 0.30
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (41 bp):
GTCGATGAGACACTGGGTGTCACTATACTTTCTTCGGATTT
Found at i:14717990 original size:217 final size:220
Alignment explanation
Indices: 14717570--14718011 Score: 728
Period size: 217 Copynumber: 2.0 Consensus size: 220
14717560 TGTGACATGA
14717570 ATTGGTTGATTTGATTATATTTGAAAATGATATGGTTTTTAATTGCAGGGGGTTTTATGTAAAAA
1 ATTGGTTGATTTGATTATATTTGAAAATGATATGGTTTTTAATTGCAGGGGGTTTTATGTAAAAA
** *
14717635 TAAGCAGAAATGTTGCCGAATTTTTTTTTTTTAAAAAAAACATGAATGAAGTCAATTAGTAAAAT
66 TAAGCAGAAATACTGCCGAA---TATTTTTTT--AAAAAACATGAATGAAGTCAATTAGTAAAAT
*
14717700 ATTATATAAATTTATGATTTTATCTTAATATGTTTGATATTTATTTAAGAATTATTGTAAATTAT
126 ATTATATAAATTTATGATTTTATCTTAATATGTTTGATATCTATTTAAGAATTATTGTAAATTAT
14717765 CTGATATGTCCGGTAATGCCTCGTAACCCT
191 CTGATATGTCCGGTAATGCCTCGTAACCCT
14717795 ATTGGTTGATTTGATTATATTTGAAAATGATATGGTTTTTAATTGCAGGGGGTTTTATGTAAAAA
1 ATTGGTTGATTTGATTATATTTGAAAATGATATGGTTTTTAATTGCAGGGGGTTTTATGTAAAAA
*
14717860 TAAGCAGAAGTACTGCCGAA-ATTTTTTT-AAAAA-ATGAATGAAGTCAATTAGTAAAATATTAT
66 TAAGCAGAAATACTGCCGAATATTTTTTTAAAAAACATGAATGAAGTCAATTAGTAAAATATTAT
* * * * *
14717922 ATGATTTTATGATTTTATTTTAATATGTTTGTTATCTATTTAAGAATTATTGTAAATTATTTGAT
131 ATAAATTTATGATTTTATCTTAATATGTTTGATATCTATTTAAGAATTATTGTAAATTATCTGAT
14717987 ATGTCCGGTAATGCCTCGTAACCCT
196 ATGTCCGGTAATGCCTCGTAACCCT
14718012 GTTTCGGCGA
Statistics
Matches: 207, Mismatches: 10, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
217 113 0.55
218 5 0.02
221 7 0.03
225 82 0.40
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (220 bp):
ATTGGTTGATTTGATTATATTTGAAAATGATATGGTTTTTAATTGCAGGGGGTTTTATGTAAAAA
TAAGCAGAAATACTGCCGAATATTTTTTTAAAAAACATGAATGAAGTCAATTAGTAAAATATTAT
ATAAATTTATGATTTTATCTTAATATGTTTGATATCTATTTAAGAATTATTGTAAATTATCTGAT
ATGTCCGGTAATGCCTCGTAACCCT
Found at i:14718445 original size:18 final size:18
Alignment explanation
Indices: 14718422--14718462 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
14718412 TTTTTAAAAT
14718422 ATTTTTTTGTAATTTTT-A
1 ATTTTTTT-TAATTTTTAA
*
14718440 ATTTTTTTTATTTTTTAA
1 ATTTTTTTTAATTTTTAA
14718458 ATTTT
1 ATTTT
14718463 GTTGCTGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (18 bp):
ATTTTTTTTAATTTTTAA
Found at i:14718446 original size:17 final size:18
Alignment explanation
Indices: 14718424--14718462 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
14718414 TTTAAAATAT
14718424 TTTTTTGTAATTTTT-AA
1 TTTTTTGTAATTTTTAAA
* *
14718441 TTTTTTTTATTTTTTAAA
1 TTTTTTGTAATTTTTAAA
14718459 TTTT
1 TTTT
14718463 GTTGCTGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTTTGTAATTTTTAAA
Found at i:14723653 original size:25 final size:25
Alignment explanation
Indices: 14723598--14723670 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 25
14723588 CTCTCAAGCA
* *
14723598 CTATAACGGAAAGCTCAT--TGAGC
1 CTATAACGGGAAGCTCATAAAGAGC
*
14723621 CTTGTAACGGGAAGCTCATAAAGAGC
1 C-TATAACGGGAAGCTCATAAAGAGC
* *
14723647 CTATAACGGGTAGCTC-CAAAGAGC
1 CTATAACGGGAAGCTCATAAAGAGC
14723671 AATTAATGGG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
23 1 0.02
24 22 0.54
25 13 0.32
26 5 0.12
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (25 bp):
CTATAACGGGAAGCTCATAAAGAGC
Found at i:14723681 original size:24 final size:24
Alignment explanation
Indices: 14723654--14723700 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
14723644 AGCCTATAAC
14723654 GGGTAGCTCCAAAGAGCAATTAAT
1 GGGTAGCTCCAAAGAGCAATTAAT
**
14723678 GGGTAGCTCTTAAGAGCAATTAA
1 GGGTAGCTCCAAAGAGCAATTAA
14723701 CGGGAAGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (24 bp):
GGGTAGCTCCAAAGAGCAATTAAT
Found at i:14723780 original size:24 final size:25
Alignment explanation
Indices: 14723753--14723809 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
14723743 CACTAACGAA
14723753 AAGCTCAC-AAAGCC-TATAATCGGG
1 AAGCTCACAAAAGCCATATAA-CGGG
14723777 AAGCTCACGAAAAGCCATATAACGGG
1 AAGCTCAC-AAAAGCCATATAACGGG
*
14723803 ACGCTCA
1 AAGCTCA
14723810 TAAGAGCTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 8 0.28
26 16 0.55
27 5 0.17
ACGTcount: A:0.39, C:0.26, G:0.21, T:0.14
Consensus pattern (25 bp):
AAGCTCACAAAAGCCATATAACGGG
Found at i:14726195 original size:21 final size:22
Alignment explanation
Indices: 14726145--14726195 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
14726135 TCAACTTTTA
* *
14726145 AATGATTTTTATAATTTTTATTT
1 AATG-TTTTTATAAATTTTATAT
14726168 AAT-TTTTTATAAATTTTA-AT
1 AATGTTTTTATAAATTTTATAT
14726188 AATGTTTT
1 AATGTTTT
14726196 AAAAAATTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 4 0.16
21 18 0.72
23 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (22 bp):
AATGTTTTTATAAATTTTATAT
Found at i:14726228 original size:16 final size:17
Alignment explanation
Indices: 14726184--14726232 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
14726174 TTATAAATTT
14726184 TAATAATGTTTTAAAAAA
1 TAATAA-GTTTTAAAAAA
* * *
14726202 TTACAATTTTTAAAAAA
1 TAATAAGTTTTAAAAAA
14726219 -AATAAGTTTTAAAA
1 TAATAAGTTTTAAAA
14726233 GTTTTAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 11 0.44
17 10 0.40
18 4 0.16
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (17 bp):
TAATAAGTTTTAAAAAA
Found at i:14736341 original size:24 final size:24
Alignment explanation
Indices: 14736305--14736399 Score: 108
Period size: 23 Copynumber: 4.0 Consensus size: 24
14736295 TCTACCATGT
*
14736305 TTGGACAGC-TTTTATACACCAAA
1 TTGGACAGCATTATATACACCAAA
*
14736328 TTGGACAGCATT-TTTACACCAAAA
1 TTGGACAGCATTATATACACC-AAA
*
14736352 TTGGACAGCA-TATAGACACCAAA
1 TTGGACAGCATTATATACACCAAA
*
14736375 TTGGGCAGCATATATATAC-CCAAA
1 TTGGACAGCAT-TATATACACCAAA
14736399 T
1 T
14736400 ATATATACCA
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
23 29 0.47
24 27 0.44
25 6 0.10
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
TTGGACAGCATTATATACACCAAA
Found at i:14736359 original size:47 final size:47
Alignment explanation
Indices: 14736305--14736534 Score: 196
Period size: 47 Copynumber: 5.1 Consensus size: 47
14736295 TCTACCATGT
* * * *
14736305 TTGGACAGCTTTTATACACCAAATTGGACAGCATTTTTACACCAAAA
1 TTGGACAGCATATATACACCAAATTGGACAGCATATATACACCAAAA
* * * *
14736352 TTGGACAGCATATAGACACCAAATTGGGCAGCATATATATACCCAAA
1 TTGGACAGCATATATACACCAAATTGGACAGCATATATACACCAAAA
* * *
14736399 -T-------ATATAT--ACCAAATTGGACAGCATTTTTACACTAAAA
1 TTGGACAGCATATATACACCAAATTGGACAGCATATATACACCAAAA
* * * *
14736436 TTGGATAGCATATAGACACCAAATTGGGCAGCATATATATACC-AAA
1 TTGGACAGCATATATACACCAAATTGGACAGCATATATACACCAAAA
* * * *
14736482 TTGGACAGCATTTTTACACCCAAATTGGACAGCATATAGACACC-GAA
1 TTGGACAGCATATATACA-CCAAATTGGACAGCATATATACACCAAAA
14736529 TTGGAC
1 TTGGAC
14736535 TTGAATCGAA
Statistics
Matches: 143, Mismatches: 29, Indels: 22
0.74 0.15 0.11
Matches are distributed among these distances:
37 24 0.17
38 1 0.01
39 5 0.03
45 5 0.03
46 18 0.13
47 90 0.63
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (47 bp):
TTGGACAGCATATATACACCAAATTGGACAGCATATATACACCAAAA
Found at i:14736416 original size:84 final size:83
Alignment explanation
Indices: 14736317--14736482 Score: 296
Period size: 84 Copynumber: 2.0 Consensus size: 83
14736307 GGACAGCTTT
14736317 TATACACCAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATATAGACACCAAATTGGGCA
1 TATACACCAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATATAGACACCAAATTGGGCA
14736382 GCATATATATACCCAAATA
66 GCATATATATA-CCAAATA
* * *
14736401 TATATACCAAATTGGACAGCATTTTTACACTAAAATTGGATAGCATATAGACACCAAATTGGGCA
1 TATACACCAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATATAGACACCAAATTGGGCA
14736466 GCATATATATACCAAAT
66 GCATATATATACCAAAT
14736483 TGGACAGCAT
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
83 6 0.08
84 73 0.92
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (83 bp):
TATACACCAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATATAGACACCAAATTGGGCA
GCATATATATACCAAATA
Found at i:14736468 original size:23 final size:23
Alignment explanation
Indices: 14736398--14736534 Score: 148
Period size: 23 Copynumber: 5.9 Consensus size: 23
14736388 ATATACCCAA
*
14736398 ATATATATACCAAATTGGACAGC
1 ATATATACACCAAATTGGACAGC
* * * *
14736421 ATTTTTACACTAAAATTGGATAGC
1 ATATATACAC-CAAATTGGACAGC
* *
14736445 ATATAGACACCAAATTGGGCAGC
1 ATATATACACCAAATTGGACAGC
*
14736468 ATATATATACCAAATTGGACAGC
1 ATATATACACCAAATTGGACAGC
* *
14736491 ATTTTTACACCCAAATTGGACAGC
1 ATATATACA-CCAAATTGGACAGC
* *
14736515 ATATAGACACCGAATTGGAC
1 ATATATACACCAAATTGGAC
14736535 TTGAATCGAA
Statistics
Matches: 91, Mismatches: 21, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
23 53 0.58
24 38 0.42
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.26
Consensus pattern (23 bp):
ATATATACACCAAATTGGACAGC
Found at i:14736516 original size:70 final size:70
Alignment explanation
Indices: 14736398--14736532 Score: 234
Period size: 70 Copynumber: 1.9 Consensus size: 70
14736388 ATATACCCAA
* *
14736398 ATATATATACCAAATTGGACAGCATTTTTACACTAAAATTGGATAGCATATAGACACCAAATTGG
1 ATATATATACCAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATATAGACACCAAATTGG
14736463 GCAGC
66 GCAGC
* *
14736468 ATATATATACCAAATTGGACAGCATTTTTACACCCAAATTGGACAGCATATAGACACCGAATTGG
1 ATATATATACCAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATATAGACACCAAATTGG
14736533 ACTTGAATCG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (70 bp):
ATATATATACCAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATATAGACACCAAATTGG
GCAGC
Found at i:14737352 original size:41 final size:40
Alignment explanation
Indices: 14737294--14737392 Score: 126
Period size: 41 Copynumber: 2.5 Consensus size: 40
14737284 ATTGATCTTA
* * *
14737294 ATTTCGCACACTTAGTGCCCGTTATTTAACATCATTATTT
1 ATTTCGCACACTTAGTGCCCATTATTCAACATCATCATTT
* *
14737334 AGTTTCGCACACTTAGTGCTCATTATTCAACCTCATCATTT
1 A-TTTCGCACACTTAGTGCCCATTATTCAACATCATCATTT
* *
14737375 AATTCGTACACTTAGTGC
1 ATTTCGCACACTTAGTGC
14737393 TAATCATTTA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 16 0.31
41 35 0.69
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.39
Consensus pattern (40 bp):
ATTTCGCACACTTAGTGCCCATTATTCAACATCATCATTT
Found at i:14739784 original size:25 final size:25
Alignment explanation
Indices: 14739750--14739798 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
14739740 AATGACTTGA
14739750 CCGGCTAAGCTTCAGCTTTCTTTTT
1 CCGGCTAAGCTTCAGCTTTCTTTTT
14739775 CCGGCTAAGCTTCAGCTTTCTTTT
1 CCGGCTAAGCTTCAGCTTTCTTTT
14739799 AAAAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.12, C:0.29, G:0.16, T:0.43
Consensus pattern (25 bp):
CCGGCTAAGCTTCAGCTTTCTTTTT
Found at i:14750179 original size:12 final size:12
Alignment explanation
Indices: 14750162--14750186 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14750152 CTTTAAGTAA
14750162 CGATTCGACTAT
1 CGATTCGACTAT
14750174 CGATTCGACTAT
1 CGATTCGACTAT
14750186 C
1 C
14750187 ATTGAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (12 bp):
CGATTCGACTAT
Found at i:14759370 original size:38 final size:40
Alignment explanation
Indices: 14759282--14759390 Score: 188
Period size: 38 Copynumber: 2.8 Consensus size: 40
14759272 AAATTATCCA
14759282 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAAATT
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAAATT
14759322 ACCCAA-CCAATAAAACTAAAACTAAAGTCTACCC-AATT
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAAATT
*
14759360 A-CCAACCCAATAAAAATAAAACTAAAGTCTA
1 ACCCAACCCAATAAAACTAAAACTAAAGTCTA
14759391 ACTCTTAAGT
Statistics
Matches: 67, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
37 4 0.06
38 29 0.43
39 28 0.42
40 6 0.09
ACGTcount: A:0.52, C:0.28, G:0.03, T:0.17
Consensus pattern (40 bp):
ACCCAACCCAATAAAACTAAAACTAAAGTCTACCCAAATT
Found at i:14759564 original size:37 final size:37
Alignment explanation
Indices: 14759518--14759592 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
14759508 TGTTAATTTC
*
14759518 AAGAATTATGCAAT-GCTTTTGATTATATAGTGATTCA
1 AAGAATTATGCAATAG-TTTTAATTATATAGTGATTCA
* * *
14759555 AAGACTTATGTAATAGTTTTAATTATGTAGTGATTCA
1 AAGAATTATGCAATAGTTTTAATTATATAGTGATTCA
14759592 A
1 A
14759593 TTCGGGTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 32 0.97
38 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (37 bp):
AAGAATTATGCAATAGTTTTAATTATATAGTGATTCA
Found at i:14759626 original size:9 final size:9
Alignment explanation
Indices: 14759591--14759624 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
14759581 GTAGTGATTC
14759591 AATTCGGGT
1 AATTCGGGT
*
14759600 AATTTGGGT
1 AATTCGGGT
*
14759609 AATTCGGTT
1 AATTCGGGT
14759618 AATTCGG
1 AATTCGG
14759625 TTCATTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.38
Consensus pattern (9 bp):
AATTCGGGT
Found at i:14760852 original size:22 final size:23
Alignment explanation
Indices: 14760796--14760853 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
14760786 CGGCCCGTTT
* * *
14760796 TTAATTAAAATTAAAATTATTTTT
1 TTAA-TAAAATTAAAACTATATTG
14760820 TTAATAAAATTAAAACTA-ATTG
1 TTAATAAAATTAAAACTATATTG
*
14760842 TTAGTAAAATTA
1 TTAATAAAATTA
14760854 TCAAATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 13 0.43
23 13 0.43
24 4 0.13
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (23 bp):
TTAATAAAATTAAAACTATATTG
Found at i:14760912 original size:66 final size:67
Alignment explanation
Indices: 14760821--14760984 Score: 244
Period size: 68 Copynumber: 2.4 Consensus size: 67
14760811 ATTATTTTTT
14760821 TAATAAAAT-TAAAACTAATTG-TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTATTAAT
1 TAATAAAATCTAAAA-T--TTGATTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAAT
14760883 TGTTG
63 TGTTG
*
14760888 TAATAAAATCTAAAATTTGATTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTG
1 TAATAAAATCTAAAATTTGATTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTATTAATTG
14760953 TTG
65 TTG
* *
14760956 TAACAAAATCTAACATTTGATTAGTAAAA
1 TAATAAAATCTAAAATTTGATTAGTAAAA
14760985 CAAACTTGAT
Statistics
Matches: 89, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
65 3 0.03
66 26 0.29
67 10 0.11
68 50 0.56
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (67 bp):
TAATAAAATCTAAAATTTGATTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGT
TG
Found at i:14760938 original size:9 final size:9
Alignment explanation
Indices: 14760926--14760953 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
14760916 TTTATCAAAT
14760926 TATTAATTG
1 TATTAATTG
14760935 TATTAATTG
1 TATTAATTG
14760944 TATTAATTG
1 TATTAATTG
14760953 T
1 T
14760954 TGTAACAAAA
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:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:14762584 original size:83 final size:85
Alignment explanation
Indices: 14762445--14762642 Score: 328
Period size: 83 Copynumber: 2.3 Consensus size: 85
14762435 TTGTGGCTTT
* *
14762445 GAACTTGTAATATTGTGTTTCTCATCCTTCCTTGTTTGGTTGCTCATAAAATTGAGGG-A-AAAT
1 GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAATAAAT
*
14762508 GGGTATTTAACTACTTGATA
66 GAGTATTTAACTACTTGATA
14762528 GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAAATTAA
1 GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGG-AA-TAA
*
14762593 ATGAGTATTTAACTACTTGATG
64 ATGAGTATTTAACTACTTGATA
14762615 GAACTTGTAACATTGTGTTTCTCATTCT
1 GAACTTGTAACATTGTGTTTCTCATTCT
14762643 AGTCTAGTCA
Statistics
Matches: 107, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
83 56 0.52
85 1 0.01
87 50 0.47
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (85 bp):
GAACTTGTAACATTGTGTTTCTCATTCTTCCTTGTTTGGTTGCTCATAAAATTGAGGGAATAAAT
GAGTATTTAACTACTTGATA
Found at i:14763060 original size:18 final size:17
Alignment explanation
Indices: 14763034--14763069 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14763024 TTTGGTTATA
14763034 TTTAATTTTCGATATGTT
1 TTTAATTTT-GATATGTT
*
14763052 TTTATTTTTGATATGTT
1 TTTAATTTTGATATGTT
14763069 T
1 T
14763070 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTAATTTTGATATGTT
Found at i:14763772 original size:14 final size:14
Alignment explanation
Indices: 14763753--14763786 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
14763743 CAAAAACACA
14763753 TTCTTTTCTTTTCT
1 TTCTTTTCTTTTCT
*
14763767 TTCTTTTTTTTTCT
1 TTCTTTTCTTTTCT
14763781 TT-TTTT
1 TTCTTTT
14763787 GGGTGATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (14 bp):
TTCTTTTCTTTTCT
Found at i:14766283 original size:5 final size:5
Alignment explanation
Indices: 14766256--14766320 Score: 82
Period size: 5 Copynumber: 13.2 Consensus size: 5
14766246 TTTTTATGTT
14766256 TTATA -TATA TTAT- TT-TA TTATA TAATATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA T--TATA TTATA TTATA TTATA TTATA
*
14766305 TTGTA TTATA TTATA T
1 TTATA TTATA TTATA T
14766321 AAGTAAAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
3 1 0.02
4 8 0.15
5 39 0.74
7 5 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:14770079 original size:16 final size:16
Alignment explanation
Indices: 14770058--14770093 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
14770048 TGAATTACTG
* *
14770058 ATTACAGTTTTATTCC
1 ATTACAGTTCTATTCA
14770074 ATTACAGTTCTATTCA
1 ATTACAGTTCTATTCA
14770090 ATTA
1 ATTA
14770094 TAGTGAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.47
Consensus pattern (16 bp):
ATTACAGTTCTATTCA
Found at i:14778533 original size:27 final size:27
Alignment explanation
Indices: 14778495--14778570 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
14778485 TTTGGTTAAA
*
14778495 AATTAACCGAATTAACCAAATTACCCG
1 AATTACCCGAATTAACCAAATTACCCG
*
14778522 AATTACCCGAATTAACCAAATTATCCG
1 AATTACCCGAATTAACCAAATTACCCG
* *
14778549 AATTACTCGAATTACCCAAATT
1 AATTACCCGAATTAACCAAATT
14778571 GAATCCCTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (27 bp):
AATTACCCGAATTAACCAAATTACCCG
Found at i:14778563 original size:9 final size:9
Alignment explanation
Indices: 14778495--14778570 Score: 80
Period size: 9 Copynumber: 8.4 Consensus size: 9
14778485 TTTGGTTAAA
*
14778495 AATTAACCG
1 AATTACCCG
* *
14778504 AATTAACCA
1 AATTACCCG
14778513 AATTACCCG
1 AATTACCCG
14778522 AATTACCCG
1 AATTACCCG
* *
14778531 AATTAACCA
1 AATTACCCG
*
14778540 AATTATCCG
1 AATTACCCG
*
14778549 AATTACTCG
1 AATTACCCG
*
14778558 AATTACCCA
1 AATTACCCG
14778567 AATT
1 AATT
14778571 GAATCCCTAC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (9 bp):
AATTACCCG
Found at i:14779196 original size:29 final size:29
Alignment explanation
Indices: 14779157--14779212 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
14779147 ATTGAATTAA
14779157 TTTTAAATTTTGGGTTTATA-TAATTTTT
1 TTTTAAATTTTGGGTTTATATTAATTTTT
14779185 TTTTAAAGTTTTGGGTTTATATTAATTT
1 TTTTAAA-TTTTGGGTTTATATTAATTT
14779213 GTATTTGCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 7 0.27
29 13 0.50
30 6 0.23
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (29 bp):
TTTTAAATTTTGGGTTTATATTAATTTTT
Found at i:14781958 original size:535 final size:535
Alignment explanation
Indices: 14780949--14781997 Score: 2098
Period size: 535 Copynumber: 2.0 Consensus size: 535
14780939 GCTCGGTTCT
14780949 CAGCCACAGCATCGTTTCCATCATCTCTACCATAGCCCCCAGCAGCGATGAAACTGCCATTAAAT
1 CAGCCACAGCATCGTTTCCATCATCTCTACCATAGCCCCCAGCAGCGATGAAACTGCCATTAAAT
14781014 GCCTTTCTCATTGGCACAAGACTTTGAGGACTTTCACACACCTCCATCCCTATTTTAATTCTTGG
66 GCCTTTCTCATTGGCACAAGACTTTGAGGACTTTCACACACCTCCATCCCTATTTTAATTCTTGG
14781079 CTCCACCATATGGCAGTAGAGAATTCCGTATTTGTTCAAGGCCTCAACCATGTAGAGGCCTAATG
131 CTCCACCATATGGCAGTAGAGAATTCCGTATTTGTTCAAGGCCTCAACCATGTAGAGGCCTAATG
14781144 CTTGTGGATCAGAGTCCACCGACTCCATGAATTCTGTGTAGGGAGATAGCCTTATTCCGACTTTA
196 CTTGTGGATCAGAGTCCACCGACTCCATGAATTCTGTGTAGGGAGATAGCCTTATTCCGACTTTA
14781209 TCTGCTCCTATTTCTTTGGCAACAGCTTCGACTATCTCTAAGGCAAACCGGCACCGGTTTTCTAA
261 TCTGCTCCTATTTCTTTGGCAACAGCTTCGACTATCTCTAAGGCAAACCGGCACCGGTTTTCTAA
14781274 TGATCCCCCATATTGATCTGTTCGATCATTTACTTGATCTTTCAAAAACTGTTCTATTAGGTAGC
326 TGATCCCCCATATTGATCTGTTCGATCATTTACTTGATCTTTCAAAAACTGTTCTATTAGGTAGC
14781339 CATGAGCTCCATGAATCTCAACTCCATCAAAACCTATAAATCAGCCACCAAAATTAGCACCCATT
391 CATGAGCTCCATGAATCTCAACTCCATCAAAACCTATAAATCAGCCACCAAAATTAGCACCCATT
14781404 TTATAATTTTAGCGAATCCGAGACATCCTCTAAGGTTTTTTATTCAGAATCTAGGAAAACAAAAA
456 TTATAATTTTAGCGAATCCGAGACATCCTCTAAGGTTTTTTATTCAGAATCTAGGAAAACAAAAA
14781469 AAACAGCTGGGTCCC
521 AAACAGCTGGGTCCC
14781484 CAGCCACAGCATCGTTTCCATCATCTCTACCATAGCCCCCAGCAGCGATGAAACTGCCATTAAAT
1 CAGCCACAGCATCGTTTCCATCATCTCTACCATAGCCCCCAGCAGCGATGAAACTGCCATTAAAT
14781549 GCCTTTCTCATTGGCACAAGACTTTGAGGACTTTCACACACCTCCATCCCTATTTTAATTCTTGG
66 GCCTTTCTCATTGGCACAAGACTTTGAGGACTTTCACACACCTCCATCCCTATTTTAATTCTTGG
14781614 CTCCACCATATGGCAGTAGAGAATTCCGTATTTGTTCAAGGCCTCAACCATGTAGAGGCCTAATG
131 CTCCACCATATGGCAGTAGAGAATTCCGTATTTGTTCAAGGCCTCAACCATGTAGAGGCCTAATG
14781679 CTTGTGGATCAGAGTCCACCGACTCCATGAATTCTGTGTAGGGAGATAGCCTTATTCCGACTTTA
196 CTTGTGGATCAGAGTCCACCGACTCCATGAATTCTGTGTAGGGAGATAGCCTTATTCCGACTTTA
14781744 TCTGCTCCTATTTCTTTGGCAACAGCTTCGACTATCTCTAAGGCAAACCGGCACCGGTTTTCTAA
261 TCTGCTCCTATTTCTTTGGCAACAGCTTCGACTATCTCTAAGGCAAACCGGCACCGGTTTTCTAA
14781809 TGATCCCCCATATTGATCTGTTCGATCATTTACTTGATCTTTCAAAAACTGTTCTATTAGGTAGC
326 TGATCCCCCATATTGATCTGTTCGATCATTTACTTGATCTTTCAAAAACTGTTCTATTAGGTAGC
14781874 CATGAGCTCCATGAATCTCAACTCCATCAAAACCTATAAATCAGCCACCAAAATTAGCACCCATT
391 CATGAGCTCCATGAATCTCAACTCCATCAAAACCTATAAATCAGCCACCAAAATTAGCACCCATT
14781939 TTATAATTTTAGCGAATCCGAGACATCCTCTAAGGTTTTTTATTCAGAATCTAGGAAAA
456 TTATAATTTTAGCGAATCCGAGACATCCTCTAAGGTTTTTTATTCAGAATCTAGGAAAA
14781998 AGAACATACC
Statistics
Matches: 514, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
535 514 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (535 bp):
CAGCCACAGCATCGTTTCCATCATCTCTACCATAGCCCCCAGCAGCGATGAAACTGCCATTAAAT
GCCTTTCTCATTGGCACAAGACTTTGAGGACTTTCACACACCTCCATCCCTATTTTAATTCTTGG
CTCCACCATATGGCAGTAGAGAATTCCGTATTTGTTCAAGGCCTCAACCATGTAGAGGCCTAATG
CTTGTGGATCAGAGTCCACCGACTCCATGAATTCTGTGTAGGGAGATAGCCTTATTCCGACTTTA
TCTGCTCCTATTTCTTTGGCAACAGCTTCGACTATCTCTAAGGCAAACCGGCACCGGTTTTCTAA
TGATCCCCCATATTGATCTGTTCGATCATTTACTTGATCTTTCAAAAACTGTTCTATTAGGTAGC
CATGAGCTCCATGAATCTCAACTCCATCAAAACCTATAAATCAGCCACCAAAATTAGCACCCATT
TTATAATTTTAGCGAATCCGAGACATCCTCTAAGGTTTTTTATTCAGAATCTAGGAAAACAAAAA
AAACAGCTGGGTCCC
Found at i:14786676 original size:21 final size:20
Alignment explanation
Indices: 14786652--14786698 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
14786642 AAATTAAATT
14786652 TTAAAATTTGAAATATAAAAA
1 TTAAAATTTGAAA-ATAAAAA
*
14786673 TTAAAAATTTTAAAATAAAAA
1 TT-AAAATTTGAAAATAAAAA
14786694 -TAAAA
1 TTAAAA
14786699 AAGAGGGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 4 0.17
20 1 0.04
21 9 0.38
22 10 0.42
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
TTAAAATTTGAAAATAAAAA
Found at i:14786699 original size:21 final size:22
Alignment explanation
Indices: 14786654--14786700 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
14786644 ATTAAATTTT
*
14786654 AAAATTTGAAATATAAAAATTA
1 AAAATTTGAAATATAAAAATAA
*
14786676 AAAATTTTAAA-ATAAAAATAA
1 AAAATTTGAAATATAAAAATAA
14786697 AAAA
1 AAAA
14786701 GAGGGAAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (22 bp):
AAAATTTGAAATATAAAAATAA
Found at i:14793130 original size:24 final size:24
Alignment explanation
Indices: 14793092--14793162 Score: 124
Period size: 24 Copynumber: 2.9 Consensus size: 24
14793082 CCGGTGCTCT
14793092 CTGTTAAAGTGCTATTCGGAGCTTC
1 CTGTT-AAGTGCTATTCGGAGCTTC
14793117 CTGTTAAGTGCTATTCGGAGCTTC
1 CTGTTAAGTGCTATTCGGAGCTTC
*
14793141 CTGTTAAGTGCTCTTCGGAGCT
1 CTGTTAAGTGCTATTCGGAGCT
14793163 ACCCAATATA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
24 40 0.89
25 5 0.11
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (24 bp):
CTGTTAAGTGCTATTCGGAGCTTC
Found at i:14801942 original size:25 final size:25
Alignment explanation
Indices: 14801893--14801943 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
14801883 TCTTCCAAGT
* **
14801893 TGAATAATGAGAAGCTCATGCGAGC
1 TGAATAACGAGAAGCTCATAAGAGC
*
14801918 TGAATAACGGGAAGCTCATAAGAGC
1 TGAATAACGAGAAGCTCATAAGAGC
14801943 T
1 T
14801944 ATGGTGTGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (25 bp):
TGAATAACGAGAAGCTCATAAGAGC
Found at i:14814359 original size:10 final size:10
Alignment explanation
Indices: 14814344--14814368 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14814334 AATGTTACAA
14814344 ATATAAATAT
1 ATATAAATAT
14814354 ATATAAATAT
1 ATATAAATAT
14814364 ATATA
1 ATATA
14814369 TTTACCGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATAAATAT
Found at i:14830124 original size:47 final size:47
Alignment explanation
Indices: 14830055--14830148 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
14830045 GCCCTCCTAA
14830055 TTTCTGAGAATACCAAGCTGAAATGTTATCGTATGGCCAGAACATGT
1 TTTCTGAGAATACCAAGCTGAAATGTTATCGTATGGCCAGAACATGT
14830102 TTTCTGAGAATACCAAGCTGAAATGTTATCGTATGGCCAGAACATGT
1 TTTCTGAGAATACCAAGCTGAAATGTTATCGTATGGCCAGAACATGT
14830149 AAAACCGGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (47 bp):
TTTCTGAGAATACCAAGCTGAAATGTTATCGTATGGCCAGAACATGT
Found at i:14862103 original size:3 final size:3
Alignment explanation
Indices: 14862095--14862152 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
14862085 NNNNNNNAAC
14862095 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14862143 ATA ATA ATA A
1 ATA ATA ATA A
14862153 AGAAAAGGGG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14870900 original size:9 final size:9
Alignment explanation
Indices: 14870886--14870911 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
14870876 GCTCAAGCAA
14870886 GCTTAATTG
1 GCTTAATTG
14870895 GCTTAATTG
1 GCTTAATTG
14870904 GCTTAATT
1 GCTTAATT
14870912 AGGTATGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (9 bp):
GCTTAATTG
Found at i:14871756 original size:24 final size:25
Alignment explanation
Indices: 14871705--14871762 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
14871695 TAGACATCTC
* * *
14871705 GAGCTTCCTGTTATATGGTTCTTGT
1 GAGCTTCCCGTTATATGGCTCTTCT
*
14871730 GAGCTTCCCGTTA-ATTGCTCTTCT
1 GAGCTTCCCGTTATATGGCTCTTCT
14871754 GAGCATTCC
1 GAGC-TTCC
14871763 GATTGGTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.41
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCTTCT
Found at i:14871859 original size:26 final size:26
Alignment explanation
Indices: 14871830--14871903 Score: 112
Period size: 26 Copynumber: 2.8 Consensus size: 26
14871820 ATGGCTCTTC
* *
14871830 GTGATCTTCCCGATTAAAGGCTATTT
1 GTGAGCTTCCTGATTAAAGGCTATTT
*
14871856 GTGAGCTTCCTGATTAAAGGCTCTTT
1 GTGAGCTTCCTGATTAAAGGCTATTT
*
14871882 GTGAGCTTCCTGATTAATGGCT
1 GTGAGCTTCCTGATTAAAGGCT
14871904 TTCCGGAGCT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (26 bp):
GTGAGCTTCCTGATTAAAGGCTATTT
Found at i:14871986 original size:25 final size:25
Alignment explanation
Indices: 14871820--14871986 Score: 80
Period size: 26 Copynumber: 6.6 Consensus size: 25
14871810 GAGCTGTTAT
* * *
14871820 ATGGCTCTTCGTGATCTTCCCGATTA
1 ATGGCTTTTCG-GAGCTTCCTGATTA
*
14871846 AAGGCTATTT-GTGAGCTTCCTGATTA
1 ATGGCT-TTTCG-GAGCTTCCTGATTA
*
14871872 AAGGCTCTTT-GTGAGCTTCCTGATTA
1 ATGGCT-TTTCG-GAGCTTCCTGATTA
*
14871898 ATGGCTTTCCGGAGCTT-CTCGA-T-
1 ATGGCTTTTCGGAGCTTCCT-GATTA
* * *
14871921 ATGGCTCACTT--GAACTTCCCGA-TA
1 ATGGCT--TTTCGGAGCTTCCTGATTA
* * **
14871945 TATGGCTATCCCAAGCTTCCTGATTA
1 -ATGGCTTTTCGGAGCTTCCTGATTA
14871971 ATGGCTTTTCGGAGCT
1 ATGGCTTTTCGGAGCT
14871987 ACCCGTTATT
Statistics
Matches: 110, Mismatches: 20, Indels: 23
0.72 0.13 0.15
Matches are distributed among these distances:
23 15 0.14
24 4 0.04
25 37 0.34
26 52 0.47
27 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (25 bp):
ATGGCTTTTCGGAGCTTCCTGATTA
Found at i:14879723 original size:15 final size:16
Alignment explanation
Indices: 14879690--14879723 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
14879680 TACTATAGGG
*
14879690 TATTAAAATAAATAAA
1 TATTAAAATAAACAAA
14879706 TATTAAAA-AAACAAA
1 TATTAAAATAAACAAA
14879721 TAT
1 TAT
14879724 CAATTTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
TATTAAAATAAACAAA
Found at i:14894902 original size:31 final size:30
Alignment explanation
Indices: 14894851--14894914 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
14894841 ACTGAGTTTA
* * *
14894851 TATTATTTTTGTTTATAAAAATATAGTTAT
1 TATTATTTTTGTATATAAAAATAAAATTAT
*
14894881 TATTTTTTATTGTATATAAAAATAAAATTAT
1 TATTATTT-TTGTATATAAAAATAAAATTAT
14894912 TAT
1 TAT
14894915 AAGCGATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (30 bp):
TATTATTTTTGTATATAAAAATAAAATTAT
Found at i:14896511 original size:17 final size:17
Alignment explanation
Indices: 14896485--14896523 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
14896475 TGTTTGATTA
* *
14896485 TATTTCTGTTTTTTATT
1 TATTTATGTTTTGTATT
14896502 TATTTATGTTTTGTATT
1 TATTTATGTTTTGTATT
*
14896519 GATTT
1 TATTT
14896524 GATTTTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.15, C:0.03, G:0.10, T:0.72
Consensus pattern (17 bp):
TATTTATGTTTTGTATT
Found at i:14899096 original size:3 final size:3
Alignment explanation
Indices: 14899088--14899115 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
14899078 GACCCTTTCG
14899088 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14899116 TTGATTATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:14900546 original size:15 final size:16
Alignment explanation
Indices: 14900501--14900548 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 16
14900491 ATTTTATCTA
14900501 ATAATAATTAAAATATT
1 ATAATAA-TAAAATATT
14900518 ATAAATAA-ATAAATATT
1 AT-AATAATA-AAATATT
14900535 -TAATAATAAAATAT
1 ATAATAATAAAATAT
14900549 GTGATCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 11 0.39
16 3 0.11
17 9 0.32
18 5 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAATAATAAAATATT
Found at i:14901324 original size:21 final size:22
Alignment explanation
Indices: 14901300--14901351 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
14901290 TGGCTAGTAC
*
14901300 AAATAACAA-AAACAATAGC-AA
1 AAATAACAACAAA-AACAGCAAA
14901321 AAATAACAACAAAAACAGCAGAA
1 AAATAACAACAAAAACAGCA-AA
14901344 AAATAACA
1 AAATAACA
14901352 GCACCAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 14 0.52
22 3 0.11
23 10 0.37
ACGTcount: A:0.71, C:0.15, G:0.06, T:0.08
Consensus pattern (22 bp):
AAATAACAACAAAAACAGCAAA
Found at i:14901345 original size:23 final size:24
Alignment explanation
Indices: 14901304--14901351 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
14901294 TAGTACAAAT
*
14901304 AACAAAAACAATAGCAAAAATAAC
1 AACAAAAACAACAGCAAAAATAAC
*
14901328 AACAAAAACAGCAG-AAAAATAAC
1 AACAAAAACAACAGCAAAAATAAC
14901351 A
1 A
14901352 GCACCAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.71, C:0.17, G:0.06, T:0.06
Consensus pattern (24 bp):
AACAAAAACAACAGCAAAAATAAC
Found at i:14902801 original size:13 final size:14
Alignment explanation
Indices: 14902770--14902807 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
14902760 TCATTATATT
*
14902770 TTAACAAAATCAAAG
1 TTAA-AAAATTAAAG
14902785 TTAAAAAATTAAA-
1 TTAAAAAATTAAAG
14902798 TTAAAAAATT
1 TTAAAAAATT
14902808 TATCTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (14 bp):
TTAAAAAATTAAAG
Found at i:14908544 original size:46 final size:46
Alignment explanation
Indices: 14908477--14908615 Score: 224
Period size: 46 Copynumber: 3.0 Consensus size: 46
14908467 CATGGCAAAA
* *
14908477 TGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATATTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
* *
14908523 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAGCCATACTGATT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
* *
14908569 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
14908615 T
1 T
14908616 ATAGCATTGT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.30
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
Found at i:14909017 original size:33 final size:33
Alignment explanation
Indices: 14908980--14909102 Score: 131
Period size: 33 Copynumber: 3.7 Consensus size: 33
14908970 ACATTTGTAG
** *
14908980 TGCCATAACCCAGTTATGGTCTTATTATCAGAA
1 TGCCATAACCCAACTATGGTCTTATCATCAGAA
* * ** *
14909013 TGCCATAGCCCAGCTATGGTCTTA-CATTTGTAG
1 TGCCATAACCCAACTATGGTCTTATCATCAG-AA
*
14909046 TGCCATAACCCAATTATGGTCTTATCATCAGAA
1 TGCCATAACCCAACTATGGTCTTATCATCAGAA
* *
14909079 TGTCATAGCCCAACTATGGTCTTA
1 TGCCATAACCCAACTATGGTCTTA
14909103 CTAGCCCAAC
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
32 3 0.04
33 66 0.90
34 4 0.05
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (33 bp):
TGCCATAACCCAACTATGGTCTTATCATCAGAA
Found at i:14909068 original size:66 final size:66
Alignment explanation
Indices: 14908962--14909103 Score: 248
Period size: 66 Copynumber: 2.2 Consensus size: 66
14908952 TGGCCCTGCC
* * *
14908962 ATGGTCTTACATTTGTAGTGCCATAACCCAGTTATGGTCTTATTATCAGAATGCCATAGCCCAGC
1 ATGGTCTTACATTTGTAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAAC
14909027 T
66 T
*
14909028 ATGGTCTTACATTTGTAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGTCATAGCCCAAC
1 ATGGTCTTACATTTGTAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAAC
14909093 T
66 T
14909094 ATGGTCTTAC
1 ATGGTCTTAC
14909104 TAGCCCAACT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 72 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.34
Consensus pattern (66 bp):
ATGGTCTTACATTTGTAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAAC
T
Found at i:14909109 original size:20 final size:20
Alignment explanation
Indices: 14909084--14909123 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14909074 CAGAATGTCA
14909084 TAGCCCAACTATGGTCTTAC
1 TAGCCCAACTATGGTCTTAC
14909104 TAGCCCAACTATGGTCTTAC
1 TAGCCCAACTATGGTCTTAC
14909124 ATTTAAACAT
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:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (20 bp):
TAGCCCAACTATGGTCTTAC
Found at i:14932375 original size:31 final size:31
Alignment explanation
Indices: 14932332--14932391 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
14932322 CGTAATATAA
*
14932332 AATTGCACATAAAACCATAATTCATGTATGC
1 AATTACACATAAAACCATAATTCATGTATGC
*
14932363 AATTACACATAAAATCATAATTCATGTAT
1 AATTACACATAAAACCATAATTCATGTAT
14932392 AGATTTAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.32
Consensus pattern (31 bp):
AATTACACATAAAACCATAATTCATGTATGC
Found at i:14934658 original size:22 final size:22
Alignment explanation
Indices: 14934630--14934698 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
14934620 CACTAATGAA
14934630 CAGAGAGCACAGATGTGCTAAT
1 CAGAGAGCACAGATGTGCTAAT
*
14934652 CGGAGAGCACTA-ATGTGCTAATAAT
1 CAGAGAGCAC-AGATGTGC---TAAT
*
14934677 CAGAGAGCACTGATGTGCTAAT
1 CAGAGAGCACAGATGTGCTAAT
14934699 AATCAGAGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
22 19 0.49
23 1 0.03
25 19 0.49
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (22 bp):
CAGAGAGCACAGATGTGCTAAT
Found at i:14934682 original size:25 final size:25
Alignment explanation
Indices: 14934648--14934709 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
14934638 ACAGATGTGC
*
14934648 TAATCGGAGAGCACTAATGTGCTAA
1 TAATCAGAGAGCACTAATGTGCTAA
*
14934673 TAATCAGAGAGCACTGATGTGCTAA
1 TAATCAGAGAGCACTAATGTGCTAA
14934698 TAATCAGAGAGC
1 TAATCAGAGAGC
14934710 GTGCTAAGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (25 bp):
TAATCAGAGAGCACTAATGTGCTAA
Found at i:14942533 original size:30 final size:30
Alignment explanation
Indices: 14942490--14942549 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
14942480 ATTTAATACA
* *
14942490 TGAACTTTAATTTGGTACAATTATATATAT
1 TGAAATTTAATTTGATACAATTATATATAT
* **
14942520 TGAAATTTGATTTGATGTAATTATATATAT
1 TGAAATTTAATTTGATACAATTATATATAT
14942550 ATATAATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.03, G:0.12, T:0.48
Consensus pattern (30 bp):
TGAAATTTAATTTGATACAATTATATATAT
Found at i:14942655 original size:23 final size:23
Alignment explanation
Indices: 14942610--14942656 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
14942600 TATATACATT
14942610 TTAAAAATATATATCGATTTTTATG
1 TTAAAAATATATA-C-ATTTTTATG
14942635 TTAAAAATATATA-ATTATTTAT
1 TTAAAAATATATACATT-TTTAT
14942657 ATTGTAATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 3 0.14
23 5 0.24
25 13 0.62
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (23 bp):
TTAAAAATATATACATTTTTATG
Found at i:14945597 original size:124 final size:124
Alignment explanation
Indices: 14945454--14945722 Score: 326
Period size: 124 Copynumber: 2.2 Consensus size: 124
14945444 TTTTTTCGAG
** * * ** * *
14945454 TTGACGTTTCTGATTAAATAGTGGGAAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTAGAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTG
*** *
14945519 AAATAGTGGCCTCGTAGACGCGATTTCGCTACAG-TGGTCATGT-GAGAAATAATTTTTT
66 AAATAGCACCCTCGTAGACGCGATTTCACTACAGTTGGTCATGTAG-GAAATAATTTTTT
* * * *
14945577 TTGACGTTTTCTGAGGAAATAGTATAAAATTGCTGATACCAGGATGCTATATGAGAAGAAATTGT
1 TTGACG-TTTCTGAGCAAATAGTAGAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGT
* * * *
14945642 GAAATCGCACCCTCGTGGACGTGATTTCACTACAGTTGGTCATGTAGGAAATATTTTTTT
65 GAAATAGCACCCTCGTAGACGCGATTTCACTACAGTTGGTCATGTAGGAAATAATTTTTT
14945702 TTGACGTTTCTGAGCAAATAG
1 TTGACGTTTCTGAGCAAATAG
14945723 GGTCAAATCG
Statistics
Matches: 123, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
123 6 0.05
124 89 0.72
125 27 0.22
126 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTAGAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTG
AAATAGCACCCTCGTAGACGCGATTTCACTACAGTTGGTCATGTAGGAAATAATTTTTT
Found at i:14947509 original size:22 final size:23
Alignment explanation
Indices: 14947481--14947536 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
14947471 TTTTATAACA
14947481 AAAAATAAATTAAT-AAATATCT
1 AAAAATAAATTAATAAAATATCT
* *
14947503 AAAAATACATAAATAAAAATATCT
1 AAAAATAAATTAAT-AAAATATCT
*
14947527 TAAAA-AAATT
1 AAAAATAAATT
14947537 TAAAATTTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 12 0.44
23 3 0.11
24 12 0.44
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAAATAAATTAATAAAATATCT
Found at i:14947665 original size:28 final size:29
Alignment explanation
Indices: 14947633--14947688 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
14947623 TGAAAATATT
14947633 AAAAATTTTAAAATTAT-TTAAAAAAATA
1 AAAAATTTTAAAATTATCTTAAAAAAATA
*
14947661 AAAAATTTTAAAATTTTCTTAAAAAAAT
1 AAAAATTTTAAAATTATCTTAAAAAAAT
14947689 GAAATTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAAATTTTAAAATTATCTTAAAAAAATA
Found at i:14947760 original size:22 final size:22
Alignment explanation
Indices: 14947730--14947771 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14947720 ATTTGGAGAT
*
14947730 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
14947752 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
14947772 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:14947792 original size:52 final size:51
Alignment explanation
Indices: 14947721--14947823 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
14947711 TTAATATGGA
* * *
14947721 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
*
14947772 TTTGAGAGAATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
14947824 AAATTTTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:14947798 original size:22 final size:23
Alignment explanation
Indices: 14947773--14947864 Score: 111
Period size: 22 Copynumber: 4.2 Consensus size: 23
14947763 ATTTGAGAGT
14947773 TTGAGAG-AATTTTGGAAGGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
* *
14947795 TTGATAGAAATTTT-GAAGGGAA
1 TTGAGAGAAATTTTGGAAGGAAA
*
14947817 TTGAGAGAAATTTTGAAAGG-AA
1 TTGAGAGAAATTTTGGAAGGAAA
* *
14947839 TTGAGAG-AATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
14947861 TTGA
1 TTGA
14947865 TATTGAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
21 9 0.15
22 41 0.68
23 10 0.17
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (23 bp):
TTGAGAGAAATTTTGGAAGGAAA
Found at i:14947822 original size:44 final size:44
Alignment explanation
Indices: 14947773--14947864 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
14947763 ATTTGAGAGT
* * * *
14947773 TTGAGAG-AATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAA
1 TTGAGAGAAATTTTGAAAGG-AATTGAGAGAAATTTTGAAAGAAA
*
14947817 TTGAGAGAAATTTTGAAAGGAATTGAGAGAATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGAAAGGAATTGAGAGAAATTTTGAAAGAAA
14947861 TTGA
1 TTGA
14947865 TATTGAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 31 0.74
45 11 0.26
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (44 bp):
TTGAGAGAAATTTTGAAAGGAATTGAGAGAAATTTTGAAAGAAA
Found at i:14948616 original size:38 final size:39
Alignment explanation
Indices: 14948565--14948677 Score: 169
Period size: 38 Copynumber: 2.9 Consensus size: 39
14948555 TCACTATTTT
*
14948565 GTATGAGTCATAAAAATAAGCTTGTTTGTTATGTAAAA-
1 GTATGAGTCATAAAAATAAGTTTGTTTGTTATGTAAAAG
* *
14948603 GTATGAGTTATAAAAGTAAGTTTGTTTGTTATG-AAAAG
1 GTATGAGTCATAAAAATAAGTTTGTTTGTTATGTAAAAG
14948641 GTATGAGTCA-AAAAAGTAAGTTTGTTTGTTATGTAAA
1 GTATGAGTCATAAAAA-TAAGTTTGTTTGTTATGTAAA
14948678 TGAGATTCTT
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
37 8 0.12
38 56 0.84
39 3 0.04
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (39 bp):
GTATGAGTCATAAAAATAAGTTTGTTTGTTATGTAAAAG
Found at i:14952920 original size:20 final size:20
Alignment explanation
Indices: 14952895--14952934 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14952885 CATTTCATTT
*
14952895 ATGCAATTGCTTTATCCATA
1 ATGCAATTACTTTATCCATA
*
14952915 ATGCAATTACTTTATGCATA
1 ATGCAATTACTTTATCCATA
14952935 CCATATTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGCAATTACTTTATCCATA
Found at i:14953159 original size:37 final size:40
Alignment explanation
Indices: 14953102--14953210 Score: 116
Period size: 37 Copynumber: 2.8 Consensus size: 40
14953092 TCGGATAATT
* *
14953102 CGAAGTAATAAATTGACACCCAGTGTCTCATC-AGTTAAAC
1 CGAAG-AATAAATTGGCACCCAGTGTCTCATCTAATTAAAC
* * * * *
14953142 TG-A-AATAAATTGGCACCCAGAGCCTTATCTAATTAATC
1 CGAAGAATAAATTGGCACCCAGTGTCTCATCTAATTAAAC
14953180 CGAAGTAATAAATTGGCACCCAGTGTCTCAT
1 CGAAG-AATAAATTGGCACCCAGTGTCTCAT
14953211 TGACTCGAAG
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
37 22 0.41
38 7 0.13
39 2 0.04
40 1 0.02
41 22 0.41
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (40 bp):
CGAAGAATAAATTGGCACCCAGTGTCTCATCTAATTAAAC
Found at i:14953415 original size:24 final size:24
Alignment explanation
Indices: 14953370--14953416 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
14953360 TATATATACC
14953370 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
14953394 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
14953417 CCATTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:14954096 original size:17 final size:17
Alignment explanation
Indices: 14954076--14954139 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
14954066 AATTTTTCTC
*
14954076 CTTTCTTTCTTTTTTTT
1 CTTTCTTTCTTTTCTTT
* *
14954093 CTTTTATTTC-TTTCCTT
1 C-TTTCTTTCTTTTCTTT
* *
14954110 CTTTGTTTCGTTTCTTT
1 CTTTCTTTCTTTTCTTT
14954127 CTCTTC-TTCTTTT
1 CT-TTCTTTCTTTT
14954140 TCTATTTCCA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
16 7 0.19
17 21 0.57
18 9 0.24
ACGTcount: A:0.02, C:0.22, G:0.03, T:0.73
Consensus pattern (17 bp):
CTTTCTTTCTTTTCTTT
Found at i:14954209 original size:35 final size:36
Alignment explanation
Indices: 14954160--14954260 Score: 109
Period size: 35 Copynumber: 2.8 Consensus size: 36
14954150 TTTCTTTTAC
* *
14954160 TTTATCATTATAATATAATAATATATATACT-TA-ACT
1 TTTAACATT-TAATATTATAATATATATACTATATA-T
* *
14954196 TTTAACTTTTAATATTATAATAT-TATAATATATAT
1 TTTAACATTTAATATTATAATATATATACTATATAT
*
14954231 TTTAACATTAAATATTTATAATATATATAC
1 TTTAACATTTAATA-TTATAATATATATAC
14954261 ACTTATGTCG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
34 5 0.09
35 28 0.52
36 17 0.31
37 4 0.07
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.50
Consensus pattern (36 bp):
TTTAACATTTAATATTATAATATATATACTATATAT
Found at i:14954233 original size:28 final size:28
Alignment explanation
Indices: 14954202--14954258 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
14954192 AACTTTTAAC
*
14954202 TTTTAATATTATAATA-TTATAATATATA
1 TTTTAACATTA-AATATTTATAATATATA
14954230 TTTTAACATTAAATATTTATAATATATA
1 TTTTAACATTAAATATTTATAATATATA
14954258 T
1 T
14954259 ACACTTATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (28 bp):
TTTTAACATTAAATATTTATAATATATA
Found at i:14954240 original size:20 final size:19
Alignment explanation
Indices: 14954207--14954245 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
14954197 TTAACTTTTA
*
14954207 ATATTATAATATTATAATAT
1 ATATTATAACATTA-AATAT
*
14954227 ATATTTTAACATTAAATAT
1 ATATTATAACATTAAATAT
14954246 TTATAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTATAACATTAAATAT
Found at i:14957058 original size:25 final size:25
Alignment explanation
Indices: 14956988--14957068 Score: 135
Period size: 25 Copynumber: 3.2 Consensus size: 25
14956978 ACTTTAGCGC
***
14956988 GCTCTCTGATTATTAGCACGCCAGT
1 GCTCTCTGATTATTAGCACGTTGGT
14957013 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTGGT
14957038 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTGGT
14957063 GCTCTC
1 GCTCTC
14957069 CGTTTAGCAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTGGT
Found at i:14957078 original size:22 final size:24
Alignment explanation
Indices: 14956988--14957078 Score: 87
Period size: 25 Copynumber: 3.8 Consensus size: 24
14956978 ACTTTAGCGC
* ***
14956988 GCTCTCTGATTATTAGCACGCCAGT
1 GCTCTCCGA-TATTAGCACGTTGGT
*
14957013 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCCGA-TATTAGCACGTTGGT
*
14957038 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCCGA-TATTAGCACGTTGGT
14957063 GCTCTCCG-T-TTAGCAC
1 GCTCTCCGATATTAGCAC
14957079 ATCTGCGCTT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
22 7 0.11
23 1 0.02
25 54 0.87
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.36
Consensus pattern (24 bp):
GCTCTCCGATATTAGCACGTTGGT
Found at i:14958147 original size:51 final size:51
Alignment explanation
Indices: 14958071--14958171 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
14958061 CGTGTAGCAA
* * *
14958071 CAACATTATTCAGTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAG
1 CAACATTATCCACTCCATCTAATGTTGCAAAATCACCAGCATATTCATCAG
*
14958122 CAACATTATCCACTCTATCTAATGTTGCAAAATCACCAGCATATTCATCA
1 CAACATTATCCACTCCATCTAATGTTGCAAAATCACCAGCATATTCATCA
14958172 ACAATAACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.35, C:0.27, G:0.09, T:0.30
Consensus pattern (51 bp):
CAACATTATCCACTCCATCTAATGTTGCAAAATCACCAGCATATTCATCAG
Found at i:14958379 original size:33 final size:33
Alignment explanation
Indices: 14958342--14958416 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
14958332 CCTTTTCTAG
* * *
14958342 ATCACCTTCACCATCAGA-TTCTACCCCTTCATC
1 ATCACCCTCACCATCA-ACTTCCACCCCTTCAAC
*
14958375 ATCACCCTCCCCATCAACTTCCACCCCTTCAAC
1 ATCACCCTCACCATCAACTTCCACCCCTTCAAC
*
14958408 ATCGCCCTC
1 ATCACCCTC
14958417 CCTAGTAGTC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
32 1 0.03
33 35 0.97
ACGTcount: A:0.23, C:0.49, G:0.03, T:0.25
Consensus pattern (33 bp):
ATCACCCTCACCATCAACTTCCACCCCTTCAAC
Found at i:14959214 original size:117 final size:117
Alignment explanation
Indices: 14959005--14959215 Score: 359
Period size: 117 Copynumber: 1.8 Consensus size: 117
14958995 GGTAACAGAA
* * * *
14959005 ATCAACATCATCGGGACCACTGTCGCATCACAAATTGACAAAACAAACCCTACATTGTGGCACTG
1 ATCAACAACATCGGGACCACTATCGCATCAAAAATCGACAAAACAAACCCTACATTGTGGCACTG
*
14959070 AAATTGCAATAATAAATAACAATTAACCATCTACAATTTTTACAACAGTTTT
66 AAATTGCAATAATAAATAACAAATAACCATCTACAATTTTTACAACAGTTTT
14959122 ATCAACAACATCGGGACCACTATCGCATCAAAAATCGACAAAACAAACCCTACATTGTGGCACTG
1 ATCAACAACATCGGGACCACTATCGCATCAAAAATCGACAAAACAAACCCTACATTGTGGCACTG
* *
14959187 AAATTGCAATAATAAATCATAAATAACCA
66 AAATTGCAATAATAAATAACAAATAACCA
14959216 ACAAATCAAA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
117 87 1.00
ACGTcount: A:0.43, C:0.24, G:0.10, T:0.23
Consensus pattern (117 bp):
ATCAACAACATCGGGACCACTATCGCATCAAAAATCGACAAAACAAACCCTACATTGTGGCACTG
AAATTGCAATAATAAATAACAAATAACCATCTACAATTTTTACAACAGTTTT
Found at i:14959442 original size:17 final size:16
Alignment explanation
Indices: 14959402--14959446 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
14959392 GAATGCTAAT
14959402 GATTTAGGGATTTAAA
1 GATTTAGGGATTTAAA
*
14959418 GATTTAGGGATTTGAA
1 GATTTAGGGATTTAAA
14959434 GATTTTAGGGATT
1 GA-TTTAGGGATT
14959447 CAATAAAGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 17 0.63
17 10 0.37
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (16 bp):
GATTTAGGGATTTAAA
Found at i:14960087 original size:18 final size:18
Alignment explanation
Indices: 14960056--14960107 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
14960046 CAAAAATTAT
*
14960056 ATAATTATATATTTTGTA
1 ATAATTTTATATTTTGTA
14960074 AT-ATTTTAATATTTTGTA
1 ATAATTTT-ATATTTTGTA
14960092 ATAAATTTTATATTTT
1 AT-AATTTTATATTTT
14960108 TTGAATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 4 0.13
18 14 0.47
19 7 0.23
20 5 0.17
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (18 bp):
ATAATTTTATATTTTGTA
Found at i:14965760 original size:50 final size:49
Alignment explanation
Indices: 14965657--14965779 Score: 131
Period size: 50 Copynumber: 2.5 Consensus size: 49
14965647 GAGATCCCAT
* * *
14965657 GTAAGACCATGTCTGGGACAAGGCGTTAGCACCGAGATGAGCGGTCATTC
1 GTAAGACCATGTCTGGGACATGGCATGAGCACCGAGATGAGCGGTCA-TC
* * **
14965707 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTTTCA-C
1 GTAAGACCATGTCTGGGACATGGCATGAGCACCGAGATGAG--CGGTCATC
* *
14965757 GTAAGACCATATCTGGGATATGG
1 GTAAGACCATGTCTGGGACATGG
14965780 TATTGACAGT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 58 0.94
52 4 0.06
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATGAGCACCGAGATGAGCGGTCATC
Found at i:14966088 original size:20 final size:20
Alignment explanation
Indices: 14966050--14966088 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14966040 TAAGCAAGCA
*
14966050 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
14966070 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
14966089 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:14977548 original size:6 final size:7
Alignment explanation
Indices: 14977533--14977558 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14977523 TTACTCGGTC
14977533 TTTTCTT
1 TTTTCTT
14977540 TTTTCTT
1 TTTTCTT
14977547 TTTTCTT
1 TTTTCTT
14977554 TTTTC
1 TTTTC
14977559 CAACAATTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTCTT
Found at i:15000112 original size:8 final size:8
Alignment explanation
Indices: 15000099--15000123 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15000089 ATATATACTA
15000099 AATAAAAT
1 AATAAAAT
15000107 AATAAAAT
1 AATAAAAT
15000115 AATAAAAT
1 AATAAAAT
15000123 A
1 A
15000124 TCATTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:15000395 original size:143 final size:143
Alignment explanation
Indices: 15000229--15000514 Score: 464
Period size: 143 Copynumber: 2.0 Consensus size: 143
15000219 TCTTCTAATT
* * *
15000229 GACCATTTTTCCCTTTAGATCTTTTAAAATTCCATCCTTGAGTCATCACTTAATTCGGTAAAATT
1 GACCATTTTGCCATTTAGATCTTTTAAAATTCCATCCTTGAGTCATCACTTAATTCGATAAAATT
* *
15000294 ATAATTTAGTCCCTCATGATTCTTCATCTATTCAATTTGGTCCCAATTCATCCATTTTCCTTAGT
66 ATAATTTAGTCCCTCATAATTCTTCATCTATTCAATTTGGTCCCAATCCATCCATTTTCCTTAGT
*
15000359 TTCTAGATTATTC
131 TTCTAGATCATTC
* *
15000372 GACCATTTTGCCATTTAGATCTTTTAAAATTCTATCCTTGAGTCATCACTTAATTTGATAAAATT
1 GACCATTTTGCCATTTAGATCTTTTAAAATTCCATCCTTGAGTCATCACTTAATTCGATAAAATT
* * * *
15000437 ATGATTTAGTCCCTCATAATTCTTCATCTATTCAATTTGTTCCTAATCCATCCATTTTTCTTAGT
66 ATAATTTAGTCCCTCATAATTCTTCATCTATTCAATTTGGTCCCAATCCATCCATTTTCCTTAGT
15000502 TTCTAGATCATTC
131 TTCTAGATCATTC
15000515 CACCCTTAAA
Statistics
Matches: 131, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
143 131 1.00
ACGTcount: A:0.26, C:0.21, G:0.08, T:0.45
Consensus pattern (143 bp):
GACCATTTTGCCATTTAGATCTTTTAAAATTCCATCCTTGAGTCATCACTTAATTCGATAAAATT
ATAATTTAGTCCCTCATAATTCTTCATCTATTCAATTTGGTCCCAATCCATCCATTTTCCTTAGT
TTCTAGATCATTC
Found at i:15014344 original size:368 final size:368
Alignment explanation
Indices: 15013661--15014395 Score: 1461
Period size: 368 Copynumber: 2.0 Consensus size: 368
15013651 TAAATTTTTT
15013661 ATTTTCTATTATTGATAATGGTGTTTAGTTAATTTCTAACACCAACTTCTTAAAAATATAAACAA
1 ATTTTCTATTATTGATAATGGTGTTTAGTTAATTTCTAACACCAACTTCTTAAAAATATAAACAA
15013726 AAAGGGTTATGCACTGAATTGAATAATTTCAACCATAAATAAAACAATTAATAAAATGTGGAATG
66 AAAGGGTTATGCACTGAATTGAATAATTTCAACCATAAATAAAACAATTAATAAAATGTGGAATG
15013791 TCTCTGTTTTAAAAATTGAAAACATTGATTTAAAGTTTGAGGATAAATTTATCGAATTATTTAGA
131 TCTCTGTTTTAAAAATTGAAAACATTGATTTAAAGTTTGAGGATAAATTTATCGAATTATTTAGA
15013856 ATTAGGATCAAGTTGATAGAATATGTAAGTGTTGAGGACTAAATATGTTATTATACTAATTTAAA
196 ATTAGGATCAAGTTGATAGAATATGTAAGTGTTGAGGACTAAATATGTTATTATACTAATTTAAA
15013921 AAAAGACGAATAACAAAAATAATTAATTCAAATTTAAATTTTTTTTAAAGTTGAGTAGTGAGGAT
261 AAAAGACGAATAACAAAAATAATTAATTCAAATTTAAATTTTTTTTAAAGTTGAGTAGTGAGGAT
15013986 TTATATAATTTAGCTTGAAAATTATTTGGTTGCACATGTCATG
326 TTATATAATTTAGCTTGAAAATTATTTGGTTGCACATGTCATG
*
15014029 ATTTTTTATTATTGATAATGGTGTTTAGTTAATTTCTAACACCAACTTCTTAAAAATATAAACAA
1 ATTTTCTATTATTGATAATGGTGTTTAGTTAATTTCTAACACCAACTTCTTAAAAATATAAACAA
15014094 AAAGGGTTATGCACTGAATTGAATAATTTCAACCATAAATAAAACAATTAATAAAATGTGGAATG
66 AAAGGGTTATGCACTGAATTGAATAATTTCAACCATAAATAAAACAATTAATAAAATGTGGAATG
15014159 TCTCTGTTTTAAAAATTGAAAACATTGATTTAAAGTTTGAGGATAAATTTATCGAATTATTTAGA
131 TCTCTGTTTTAAAAATTGAAAACATTGATTTAAAGTTTGAGGATAAATTTATCGAATTATTTAGA
15014224 ATTAGGATCAAGTTGATAGAATATGTAAGTGTTGAGGACTAAATATGTTATTATACTAATTTAAA
196 ATTAGGATCAAGTTGATAGAATATGTAAGTGTTGAGGACTAAATATGTTATTATACTAATTTAAA
15014289 AAAAGACGAATAACAAAAATAATTAATTCAAATTTAAATTTTTTTTAAAGTTGAGTAGTGAGGAT
261 AAAAGACGAATAACAAAAATAATTAATTCAAATTTAAATTTTTTTTAAAGTTGAGTAGTGAGGAT
15014354 TTATATAATTTAGCTTGAAAATTATTTGGTTGCACATGTCAT
326 TTATATAATTTAGCTTGAAAATTATTTGGTTGCACATGTCAT
15014396 AATGATGCAA
Statistics
Matches: 366, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
368 366 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.37
Consensus pattern (368 bp):
ATTTTCTATTATTGATAATGGTGTTTAGTTAATTTCTAACACCAACTTCTTAAAAATATAAACAA
AAAGGGTTATGCACTGAATTGAATAATTTCAACCATAAATAAAACAATTAATAAAATGTGGAATG
TCTCTGTTTTAAAAATTGAAAACATTGATTTAAAGTTTGAGGATAAATTTATCGAATTATTTAGA
ATTAGGATCAAGTTGATAGAATATGTAAGTGTTGAGGACTAAATATGTTATTATACTAATTTAAA
AAAAGACGAATAACAAAAATAATTAATTCAAATTTAAATTTTTTTTAAAGTTGAGTAGTGAGGAT
TTATATAATTTAGCTTGAAAATTATTTGGTTGCACATGTCATG
Found at i:15018717 original size:3 final size:3
Alignment explanation
Indices: 15018711--15018737 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15018701 AAAATGTATG
15018711 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
15018738 CCACCTCAGA
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):
TAA
Found at i:15040496 original size:46 final size:46
Alignment explanation
Indices: 15040443--15040532 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
15040433 ATAAGAAATA
15040443 GCAAAACCACGTCGTTTTGATAAATATTTACCCATTAAGTTAAAAG
1 GCAAAACCACGTCGTTTTGATAAATATTTACCCATTAAGTTAAAAG
*
15040489 GCAAAACCACGTCGTTTTGATAAATGTTTACCCATTAAGTTAAA
1 GCAAAACCACGTCGTTTTGATAAATATTTACCCATTAAGTTAAA
15040533 TTATCTTCTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (46 bp):
GCAAAACCACGTCGTTTTGATAAATATTTACCCATTAAGTTAAAAG
Found at i:15040868 original size:30 final size:31
Alignment explanation
Indices: 15040827--15040891 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
15040817 TTAAATAAAT
*
15040827 AAATGATAAAATTATAG-TTTGTT-CTTTCAA
1 AAATAATAAAATT-TAGATTTGTTCCTTTCAA
* *
15040857 AAATAATAAAATTTTGATTTGTTCCTTTTAA
1 AAATAATAAAATTTAGATTTGTTCCTTTCAA
15040888 AAAT
1 AAAT
15040892 TTAAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 2 0.07
30 18 0.60
31 10 0.33
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.45
Consensus pattern (31 bp):
AAATAATAAAATTTAGATTTGTTCCTTTCAA
Found at i:15041097 original size:10 final size:10
Alignment explanation
Indices: 15041084--15041117 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
15041074 ATTATTAATT
15041084 TTTTCTATTA
1 TTTTCTATTA
15041094 TTTTCTATTA
1 TTTTCTATTA
* *
15041104 TTTTATGTTA
1 TTTTCTATTA
15041114 TTTT
1 TTTT
15041118 TTAAATGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (10 bp):
TTTTCTATTA
Found at i:15057685 original size:40 final size:40
Alignment explanation
Indices: 15057586--15057686 Score: 166
Period size: 40 Copynumber: 2.5 Consensus size: 40
15057576 GGTTCTGTGC
* * * *
15057586 CTAGCAGACTTAATGCCGGCGAATTTTTCAGACTTAATGT
1 CTAGCAGGCTTAATGCCGGTGAACTTTACAGACTTAATGT
15057626 CTAGCAGGCTTAATGCCGGTGAACTTTACAGACTTAATGT
1 CTAGCAGGCTTAATGCCGGTGAACTTTACAGACTTAATGT
15057666 CTAGCAGGCTTAATGCCGGTG
1 CTAGCAGGCTTAATGCCGGTG
15057687 TTCTGAGTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAACTTTACAGACTTAATGT
Found at i:15059368 original size:18 final size:20
Alignment explanation
Indices: 15059345--15059383 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
15059335 GGTTTTTTTC
15059345 ATAAATA-AT-ATAAAATAA
1 ATAAATACATAATAAAATAA
15059363 ATAAATATCATAATAAAATAA
1 ATAAATA-CATAATAAAATAA
15059384 GAGGATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
20 2 0.11
21 9 0.50
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAAATACATAATAAAATAA
Found at i:15059645 original size:85 final size:85
Alignment explanation
Indices: 15059556--15059732 Score: 250
Period size: 84 Copynumber: 2.1 Consensus size: 85
15059546 ATAGTATACG
* *
15059556 AAAAAATGAAAATAATAATT-TTTATTGGTGCCGCCGATGTCTTAGGCGGCACCCAAATATTTTA
1 AAAAAAT-AAAA-AA-AATTATTTATTGGTGCAGCCGATGTCTCAGGCGGCACCCAAATATTTTA
**
15059620 AATTTTTTT-AGCTAAAATGATA
63 AATTTTTTTAAGCTAAAACAATA
* *
15059642 AAAAAATAAAAAAAATTATTTATTGGTGCAGCCGATGTGTCAGGCGGCACCCAAATATTTTTAAT
1 AAAAAATAAAAAAAATTATTTATTGGTGCAGCCGATGTCTCAGGCGGCACCCAAATATTTTAAAT
*
15059707 TTTTTTAAGCTGAAACAATA
66 TTTTTTAAGCTAAAACAATA
15059727 AAAAAA
1 AAAAAA
15059733 ACTTGTATAA
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
83 4 0.05
84 51 0.62
85 20 0.24
86 7 0.09
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (85 bp):
AAAAAATAAAAAAAATTATTTATTGGTGCAGCCGATGTCTCAGGCGGCACCCAAATATTTTAAAT
TTTTTTAAGCTAAAACAATA
Found at i:15062894 original size:67 final size:68
Alignment explanation
Indices: 15062786--15062947 Score: 274
Period size: 67 Copynumber: 2.4 Consensus size: 68
15062776 GTGATTTATG
* *
15062786 TATTGAATTTTCATTCTTGAATCAACTTAAATTATTTACATATATTTGCTTTATGTTTCTA-TTT
1 TATTGAATTTTCATTCTTGTATCAACTTAAATTATTTACATATATTTGCATTATGTTTCTATTTT
15062850 TCT
66 TCT
*
15062853 TATTGTATTTTCATTCTTGTATCAACTTAAATTATTTACATATATTTGCATTATGTTTCTATTTT
1 TATTGAATTTTCATTCTTGTATCAACTTAAATTATTTACATATATTTGCATTATGTTTCTATTTT
*
15062918 TTT
66 TCT
15062921 TATTGAATTTTCATTCTT-TATCAACTT
1 TATTGAATTTTCATTCTTGTATCAACTT
15062948 CATAGATGAA
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
67 67 0.75
68 22 0.25
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.57
Consensus pattern (68 bp):
TATTGAATTTTCATTCTTGTATCAACTTAAATTATTTACATATATTTGCATTATGTTTCTATTTT
TCT
Found at i:15068002 original size:27 final size:27
Alignment explanation
Indices: 15067972--15068433 Score: 318
Period size: 27 Copynumber: 17.5 Consensus size: 27
15067962 AATGCCCCCA
* *
15067972 TAGGGTAAAATGATCGAAATACCCTCG
1 TAGGGTAAAATGACCGTAATACCCTCG
* *** * *
15067999 TAGGGTAGAAT-ACTAAAATACCCCCA
1 TAGGGTAAAATGACCGTAATACCCTCG
**
15068025 TAGGGTAAAATGATTGTAATACCC-CTG
1 TAGGGTAAAATGACCGTAATACCCTC-G
* **
15068052 TAAGGTAAAATGACTTTAATACCC-CTG
1 TAGGGTAAAATGACCGTAATACCCTC-G
* * *
15068079 AAGGGTAAAATGATCGTAATGTCCCT-G
1 TAGGGTAAAATGACCGTAAT-ACCCTCG
* *
15068106 TAGGGTAAAATGACTGTAATACCC-CTA
1 TAGGGTAAAATGACCGTAATACCCTC-G
* * *
15068133 TAGGGTAAAATAACCGCAATGCCCAT-G
1 TAGGGTAAAATGACCGTAATACCC-TCG
* * *
15068160 TAGGGTAAAATGATCGAAATACCCTCA
1 TAGGGTAAAATGACCGTAATACCCTCG
* *
15068187 TAGAGTAAAATAACCGTAATACCC-CTG
1 TAGGGTAAAATGACCGTAATACCCTC-G
* *
15068214 TATGGTAAAATAACCGT-A-A---T-G
1 TAGGGTAAAATGACCGTAATACCCTCG
* *
15068235 CA-GGTAAAATGACCATAATACCC-CTG
1 TAGGGTAAAATGACCGTAATACCCTC-G
* *
15068261 TAGGGTAAAATGAACATAATACCC-CTG
1 TAGGGTAAAATGACCGTAATACCCTC-G
15068288 TAGGGTAAAATGACCGTAA-ATCCCT-G
1 TAGGGTAAAATGACCGTAATA-CCCTCG
*
15068314 TAGGGTAAAATGACCGTAATGCCCTCG
1 TAGGGTAAAATGACCGTAATACCCTCG
* *
15068341 TAGGGTAAAATGACCGTAATGCCC-CTA
1 TAGGGTAAAATGACCGTAATACCCTC-G
* * *
15068368 TAGGGTAAAAGGAACGTAATACCCTTG
1 TAGGGTAAAATGACCGTAATACCCTCG
* * *
15068395 TAGGGTAAAATGATCGTAATGCCCTGG
1 TAGGGTAAAATGACCGTAATACCCTCG
15068422 T-GGGT-AAATGAC
1 TAGGGTAAAATGAC
15068434 AATTTTTGCC
Statistics
Matches: 349, Mismatches: 61, Indels: 52
0.76 0.13 0.11
Matches are distributed among these distances:
20 12 0.03
21 3 0.01
22 1 0.00
25 7 0.02
26 59 0.17
27 264 0.76
28 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATACCCTCG
Found at i:15068091 original size:54 final size:54
Alignment explanation
Indices: 15067973--15068414 Score: 351
Period size: 54 Copynumber: 8.4 Consensus size: 54
15067963 ATGCCCCCAT
* * * ** *
15067973 AGGGTAAAATGATCGAAATA-CCCTCGTAGGGTAGAAT-ACTAAAATACCCC-CA
1 AGGGTAAAATGACCGTAATACCCCT-GTAGGGTAAAATGACTGTAATACCCCTGA
** * *
15068025 TAGGGTAAAATGATTGTAATACCCCTGTAAGGTAAAATGACTTTAATACCCCTGA
1 -AGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACTGTAATACCCCTGA
* **
15068080 AGGGTAAAATGATCGTAATGTCCCTGTAGGGTAAAATGACTGTAATACCCCT-A
1 AGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACTGTAATACCCCTGA
* * * * * *
15068133 TAGGGTAAAATAACCGCAATGCCCATGTAGGGTAAAATGA-TCGAAATA-CCCTCA
1 -AGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACT-GTAATACCCCTGA
* * * * * *
15068187 TAGAGTAAAATAACCGTAATACCCCTGTATGGTAAAATAACCGT-A-A----TGC
1 -AGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACTGTAATACCCCTGA
* * *
15068236 A-GGTAAAATGACCATAATACCCCTGTAGGGTAAAATGAAC-ATAATACCCCTGT
1 AGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATG-ACTGTAATACCCCTGA
* * * *
15068289 AGGGTAAAATGACCGTAA-ATCCCTGTAGGGTAAAATGACCGTAAT-GCCCTCGT
1 AGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACTGTAATACCCCT-GA
* * * * *
15068342 AGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAAGGAAC-GTAATACCCTTGT
1 AGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATG-ACTGTAATACCCCTGA
*
15068396 AGGGTAAAATGATCGTAAT
1 AGGGTAAAATGACCGTAAT
15068415 GCCCTGGTGG
Statistics
Matches: 323, Mismatches: 46, Indels: 39
0.79 0.11 0.10
Matches are distributed among these distances:
47 32 0.10
48 4 0.01
49 2 0.01
52 7 0.02
53 80 0.25
54 192 0.59
55 6 0.02
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (54 bp):
AGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACTGTAATACCCCTGA
Found at i:15068129 original size:81 final size:81
Alignment explanation
Indices: 15068025--15068433 Score: 419
Period size: 81 Copynumber: 5.2 Consensus size: 81
15068015 AATACCCCCA
** * ** *
15068025 TAGGGTAAAATGATTGTAATACCCCTGTAAGGTAAAATGACTTTAATACCCCTGAAGGGTAAAAT
1 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAAT
15068090 GATCGTAATGTCCCT-G
66 GATCGTAATG-CCCTCG
* * * * * *
15068106 TAGGGTAAAATGACTGTAATACCCCTATAGGGTAAAATAACCGCAATGCCCATGTAGGGTAAAAT
1 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAAT
* * *
15068171 GATCGAAATACCCTCA
66 GATCGTAATGCCCTCG
* * * * *
15068187 TAGAGTAAAATAACCGTAATACCCCTGTATGGTAAAATAACCGT-A-A----TGCA-GGTAAAAT
1 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAAT
* * *
15068245 GACCATAATACCC-CTG
66 GATCGTAATGCCCTC-G
* * *
15068261 TAGGGTAAAATGAACATAATACCCCTGTAGGGTAAAATGACCGTAA-ATCCCTGTAGGGTAAAAT
1 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAAT
*
15068325 GACCGTAATGCCCTCG
66 GATCGTAATGCCCTCG
* * * * *
15068341 TAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAAGGAACGTAATACCCTTGTAGGGTAAAAT
1 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAAT
*
15068406 GATCGTAATGCCCTGG
66 GATCGTAATGCCCTCG
15068422 T-GGGT-AAATGAC
1 TAGGGTAAAATGAC
15068434 AATTTTTGCC
Statistics
Matches: 274, Mismatches: 44, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
73 1 0.00
74 56 0.20
75 5 0.02
79 10 0.04
80 69 0.25
81 133 0.49
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (81 bp):
TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAAT
GATCGTAATGCCCTCG
Found at i:15068375 original size:107 final size:106
Alignment explanation
Indices: 15068237--15068433 Score: 290
Period size: 107 Copynumber: 1.8 Consensus size: 106
15068227 CCGTAATGCA
* *
15068237 GGTAAAATGACCATAATACCCCTGTAGGGTAAAATGAACATAATACCCCTGTAGGGTAAAATGAC
1 GGTAAAATGACCATAATACCCCTATAGGGTAAAAGGAACATAATACCCCTGTAGGGTAAAATGAC
15068302 CGTAAAT-CCCT-GTAGGGTAAAATGACCGTAATGCCCTCGTAG
66 CGT-AATGCCCTGGT-GGGT-AAATGACCGTAATGCCCTCGTAG
* * * * *
15068344 GGTAAAATGACCGTAATGCCCCTATAGGGTAAAAGGAACGTAATACCCTTGTAGGGTAAAATGAT
1 GGTAAAATGACCATAATACCCCTATAGGGTAAAAGGAACATAATACCCCTGTAGGGTAAAATGAC
15068409 CGTAATGCCCTGGTGGGTAAATGAC
66 CGTAATGCCCTGGTGGGTAAATGAC
15068434 AATTTTTGCC
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
106 10 0.12
107 69 0.85
108 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (106 bp):
GGTAAAATGACCATAATACCCCTATAGGGTAAAAGGAACATAATACCCCTGTAGGGTAAAATGAC
CGTAATGCCCTGGTGGGTAAATGACCGTAATGCCCTCGTAG
Found at i:15068749 original size:32 final size:31
Alignment explanation
Indices: 15068708--15068916 Score: 195
Period size: 32 Copynumber: 6.5 Consensus size: 31
15068698 ACTGCGATGC
*
15068708 TACTGATGGCTTTGTGCCGATCATTGTACCAT
1 TACTGATGGCTTTGTGCCGATCATT-TACCGT
* *
15068740 TACTGATGGCTTTGTGCCGATCATAATACCAT
1 TACTGATGGCTTTGTGCCGATCAT-TTACCGT
* *
15068772 TGCTGATGGCTTTGTGCCGATCATTTCACTGT
1 TACTGATGGCTTTGTGCCGATCATTT-ACCGT
* * * * * *
15068804 TAGTGATGGCTGTGTGCCAATCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCAT-TTACCGT
*
15068836 TACTGATGGCTTTGTGCCGGTCATGTTACCGT
1 TACTGATGGCTTTGTGCCGATCAT-TTACCGT
* * ** *
15068868 TATTGATGG-TTGTGTGCCGATCATATCATTGC
1 TACTGATGGCTT-TGTGCCGATCAT-TTACCGT
15068900 TACTGATGGCTTTGTGC
1 TACTGATGGCTTTGTGC
15068917 TAATCACATT
Statistics
Matches: 145, Mismatches: 27, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
31 3 0.02
32 139 0.96
33 3 0.02
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (31 bp):
TACTGATGGCTTTGTGCCGATCATTTACCGT
Found at i:15068875 original size:96 final size:95
Alignment explanation
Indices: 15068740--15068942 Score: 246
Period size: 96 Copynumber: 2.1 Consensus size: 95
15068730 ATTGTACCAT
* * *
15068740 TACTGATGGCTTTGTGCCGATCATAATACCATTGCTGATGGCTT-TGTGCCGATCATTTCACTGT
1 TACTGATGGCTTTGTGCCGATCATAATACCATTACTGATGG-TTGTGTGCCGATCATATCACTGC
* *
15068804 TAGTGATGGCTGTGTGCCAATCATATCACTG
65 TACTGATGGCTGTGTGCCAATCACATCACTG
* ** * * *
15068835 CTACTGATGGCTTTGTGCCGGTCATGTTACCGTTATTGATGGTTGTGTGCCGATCATATCATTGC
1 -TACTGATGGCTTTGTGCCGATCATAATACCATTACTGATGGTTGTGTGCCGATCATATCACTGC
* * *
15068900 TACTGATGGCTTTGTGCTAATCACATTACTG
65 TACTGATGGCTGTGTGCCAATCACATCACTG
*
15068931 TACTTATGGCTT
1 TACTGATGGCTT
15068943 GTAGTCATTC
Statistics
Matches: 91, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
95 13 0.14
96 78 0.86
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (95 bp):
TACTGATGGCTTTGTGCCGATCATAATACCATTACTGATGGTTGTGTGCCGATCATATCACTGCT
ACTGATGGCTGTGTGCCAATCACATCACTG
Found at i:15070794 original size:25 final size:25
Alignment explanation
Indices: 15070760--15070809 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
15070750 TAGGTAAATT
15070760 TCATCTAGATTAGAATTACATAGGG
1 TCATCTAGATTAGAATTACATAGGG
15070785 TCATCTAGATTAGAATTACATAGGG
1 TCATCTAGATTAGAATTACATAGGG
15070810 ATCAATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (25 bp):
TCATCTAGATTAGAATTACATAGGG
Found at i:15074375 original size:6 final size:6
Alignment explanation
Indices: 15074364--15074399 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
15074354 CCGAAAGAAA
*
15074364 ATTTTC ATTTTC ATTTTC ATTTT- ATTTTT ATTTTC A
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC A
15074400 ATAAGGGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.69
Consensus pattern (6 bp):
ATTTTC
Found at i:15074396 original size:17 final size:18
Alignment explanation
Indices: 15074364--15074399 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
15074354 CCGAAAGAAA
15074364 ATTTTCATTTTCATTTTC
1 ATTTTCATTTTCATTTTC
*
15074382 ATTTT-ATTTTTATTTTC
1 ATTTTCATTTTCATTTTC
15074399 A
1 A
15074400 ATAAGGGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTCATTTTCATTTTC
Found at i:15091949 original size:64 final size:64
Alignment explanation
Indices: 15091868--15091987 Score: 177
Period size: 64 Copynumber: 1.9 Consensus size: 64
15091858 ACAAATATCG
** * * * *
15091868 GGACGCTCATTAAGAGCTACGGTATGTCTGTAATACATGCAGGATCAATACCGATCATATAACA
1 GGACGCTCACAAAGAGCTACGGTATGTCCGCAACACATGCAAGATCAATACCGATCATATAACA
*
15091932 GGACGCTCACAAAGAGCTGCGGTATGTCCGCAACACATGCAAGATCAATACCGATC
1 GGACGCTCACAAAGAGCTACGGTATGTCCGCAACACATGCAAGATCAATACCGATC
15091988 GGGATGCTAG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (64 bp):
GGACGCTCACAAAGAGCTACGGTATGTCCGCAACACATGCAAGATCAATACCGATCATATAACA
Found at i:15100803 original size:2 final size:2
Alignment explanation
Indices: 15100796--15100824 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15100786 TGTTCCTTCT
15100796 TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15100825 CATGATATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15104338 original size:24 final size:24
Alignment explanation
Indices: 15104311--15104395 Score: 68
Period size: 24 Copynumber: 3.5 Consensus size: 24
15104301 CTAGCGGACA
15104311 GAATAGTGGGCAGTATGTTGGGCC
1 GAATAGTGGGCAGTATGTTGGGCC
* * *
15104335 GAAT-GTAGGCTAGTCTCTTGGGCC
1 GAATAGTGGGC-AGTATGTTGGGCC
* * *
15104359 TG-CTAGTGGACAGTTTAG-TGGGCC
1 -GAATAGTGGGCAGTAT-GTTGGGCC
15104383 GAATAGTGGGCAG
1 GAATAGTGGGCAG
15104396 GCCAATGCTA
Statistics
Matches: 46, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
23 6 0.13
24 35 0.76
25 5 0.11
ACGTcount: A:0.20, C:0.15, G:0.39, T:0.26
Consensus pattern (24 bp):
GAATAGTGGGCAGTATGTTGGGCC
Found at i:15106744 original size:19 final size:19
Alignment explanation
Indices: 15106720--15106756 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15106710 TAAATTTGCT
*
15106720 ATTATTATCATTATTATTA
1 ATTATTATCATTACTATTA
*
15106739 ATTATTATTATTACTATT
1 ATTATTATCATTACTATT
15106757 TACTCATTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTATTATCATTACTATTA
Found at i:15106897 original size:25 final size:25
Alignment explanation
Indices: 15106860--15106912 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
15106850 ATATATATCT
*
15106860 TTTTATCTTTTTATAAATTTATTCA
1 TTTTATCTATTTATAAATTTATTCA
* ** *
15106885 TTTTCTCTATTTATTTATTTATTTA
1 TTTTATCTATTTATAAATTTATTCA
15106910 TTT
1 TTT
15106913 ATGTTTTCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTTATCTATTTATAAATTTATTCA
Found at i:15111845 original size:8 final size:7
Alignment explanation
Indices: 15111820--15111867 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
15111810 TTTGAGTCAA
15111820 AAAAATG
1 AAAAATG
15111827 -AAAATG
1 AAAAATG
15111833 AAAAATG
1 AAAAATG
15111840 ATAAAATG
1 A-AAAATG
15111848 -AAAATG
1 AAAAATG
15111854 AAAAA-G
1 AAAAATG
15111860 TAAAAATG
1 -AAAAATG
15111868 GAGAGGCTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 13 0.36
7 16 0.44
8 7 0.19
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.17
Consensus pattern (7 bp):
AAAAATG
Found at i:15113049 original size:45 final size:41
Alignment explanation
Indices: 15112971--15113081 Score: 105
Period size: 45 Copynumber: 2.6 Consensus size: 41
15112961 TGAAGCTACA
* * * *
15112971 AGTCTTATATCACTAAGGTTGCAGTAAAATAGACTGAAGATAG
1 AGTCTTATCTCCCTAAAGTTGCAGTAAAATAGAC-CAAGAT-G
* * * * *
15113014 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGACCACGATG
1 -AG-TCTTATCTCCCTAAAGTTGCAGTAAAATAGACCAAGATG
15113057 AGTCTTATCTCCCTAAAGTTGCAGT
1 AGTCTTATCTCCCTAAAGTTGCAGT
15113082 GGGGCAGGTT
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
41 21 0.38
42 2 0.04
43 1 0.02
44 6 0.11
45 26 0.46
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (41 bp):
AGTCTTATCTCCCTAAAGTTGCAGTAAAATAGACCAAGATG
Found at i:15124328 original size:2 final size:2
Alignment explanation
Indices: 15124321--15124373 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
15124311 TCCTACTCTA
15124321 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
15124363 TG TG TG TG TG T
1 TG TG TG TG TG T
15124374 TGTCTAACAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:15132314 original size:127 final size:127
Alignment explanation
Indices: 15132088--15132334 Score: 440
Period size: 127 Copynumber: 1.9 Consensus size: 127
15132078 AAAATTAGTA
* * *
15132088 GAATAAATTGGGAAATTGAGCACACAAATTTAACGTGGAAAAACTCCTCCAAAGAGGATAAAAAA
1 GAATAAATTGAGAAATTGAACACACAAATTTAACGTGGAAAAACCCCTCCAAAGAGGATAAAAAA
*
15132153 CTACGGGCAAAGATAATTTTACTATAATGGCAAAAGAAAGAAGAGTATAAAAGATGGAGGCG
66 CTACGGGCAAAGATAATTTTACTATAATGGCAAAAGAAAGAAGAGTACAAAAGATGGAGGCG
*
15132215 GAATAAATTGAGAAATTGAACACACAAATTTAACTTGGAAAAACCCCTCCAAAGAGGATAAAAAA
1 GAATAAATTGAGAAATTGAACACACAAATTTAACGTGGAAAAACCCCTCCAAAGAGGATAAAAAA
*
15132280 CTACGGGCAAAGATAATTTTACTATAATGGCAAAAGAACGAAGAGTACAAAAGAT
66 CTACGGGCAAAGATAATTTTACTATAATGGCAAAAGAAAGAAGAGTACAAAAGAT
15132335 AGAGATAAAA
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
127 114 1.00
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (127 bp):
GAATAAATTGAGAAATTGAACACACAAATTTAACGTGGAAAAACCCCTCCAAAGAGGATAAAAAA
CTACGGGCAAAGATAATTTTACTATAATGGCAAAAGAAAGAAGAGTACAAAAGATGGAGGCG
Found at i:15137169 original size:2 final size:2
Alignment explanation
Indices: 15137108--15137149 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
15137098 TGTATAAGTT
15137108 TA TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA TA
15137150 AGTGTGTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15137176 original size:26 final size:26
Alignment explanation
Indices: 15137112--15137189 Score: 95
Period size: 26 Copynumber: 3.0 Consensus size: 26
15137102 TAAGTTTATA
* * * *
15137112 TATATATATATATA-TATATATATATA
1 TATATATATATA-AGTGTGTATATCTC
15137138 TATATATATATAAGTGTGTATATCTC
1 TATATATATATAAGTGTGTATATCTC
*
15137164 TATATATATATAAGTGTGCATATCTC
1 TATATATATATAAGTGTGTATATCTC
15137190 ATTAGGTAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 1 0.02
26 45 0.98
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (26 bp):
TATATATATATAAGTGTGTATATCTC
Done.