Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 37 of 189
Found at i:11273552 original size:45 final size:46
Alignment explanation
Indices: 11273480--11273567 Score: 115
Period size: 45 Copynumber: 1.9 Consensus size: 46
11273470 AGCTCTAAAT
* * *
11273480 GAATAAATTAATCAATATAGCAAATTTTG-CTAGAATACAAAATGA
1 GAATAAATTAATCAAGATAGCAAATTTTGTCAAAAATACAAAATGA
* **
11273525 GAATAAATTAATCAAGATGGCGTATTTTGTCAAAAATACAAAA
1 GAATAAATTAATCAAGATAGCAAATTTTGTCAAAAATACAAAA
11273568 ATGAATAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 25 0.69
46 11 0.31
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.28
Consensus pattern (46 bp):
GAATAAATTAATCAAGATAGCAAATTTTGTCAAAAATACAAAATGA
Found at i:11273574 original size:45 final size:43
Alignment explanation
Indices: 11273476--11273576 Score: 112
Period size: 45 Copynumber: 2.3 Consensus size: 43
11273466 GCAAAGCTCT
* * *
11273476 AAATGAATAAATTAATCAATATAGCAAATTTTGCTAGAATACA
1 AAATGAATAAATTAATCAAGATAGCAAATTTTGCAAAAATACA
* **
11273519 AAATGAGAATAAATTAATCAAGATGGCGTATTTTGTCAAAAATACAA
1 AAAT--GAATAAATTAATCAAGATAGCAAATTTTG-CAAAAATAC-A
11273566 AAATGAATAAA
1 AAATGAATAAA
11273577 ATGGAAATAG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.08
45 32 0.67
46 7 0.15
47 5 0.10
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (43 bp):
AAATGAATAAATTAATCAAGATAGCAAATTTTGCAAAAATACA
Found at i:11273891 original size:34 final size:34
Alignment explanation
Indices: 11273840--11273918 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
11273830 TCACCTTGGC
* * *
11273840 CTCTCCTTTTTCTTTTTTCATTC-TTCCTTTTTTT
1 CTCTTCTTTTTCGTTTTT-ATTCTTTCCGTTTTTT
* * *
11273874 CTTTTCTTTTTCGTTTTTTTTCTTTTCGTTTTTT
1 CTCTTCTTTTTCGTTTTTATTCTTTCCGTTTTTT
11273908 CTCTTCTTTTT
1 CTCTTCTTTTT
11273919 TTTCAAGTGA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
33 3 0.08
34 34 0.92
ACGTcount: A:0.01, C:0.22, G:0.03, T:0.75
Consensus pattern (34 bp):
CTCTTCTTTTTCGTTTTTATTCTTTCCGTTTTTT
Found at i:11273899 original size:15 final size:15
Alignment explanation
Indices: 11273870--11273912 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
11273860 TTCTTCCTTT
11273870 TTTTCTTTTCTTTTTCG
1 TTTT-TTTTC-TTTTCG
11273887 TTTTTTTTCTTTTCG
1 TTTTTTTTCTTTTCG
*
11273902 TTTTTTCTCTT
1 TTTTTTTTCTT
11273913 CTTTTTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 16 0.64
16 5 0.20
17 4 0.16
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (15 bp):
TTTTTTTTCTTTTCG
Found at i:11275811 original size:62 final size:63
Alignment explanation
Indices: 11275709--11275826 Score: 184
Period size: 62 Copynumber: 1.9 Consensus size: 63
11275699 CTAAACTCAA
* * *
11275709 CGTACTTTTTAGATTTTAGGAAATTAATTGTATGTAATGAAGTGTAATGTTGATGCGTGAATG
1 CGTACTTTTTAGATTTTAGAAAATTAATTGTATGCAATGAAATGTAATGTTGATGCGTGAATG
* *
11275772 CGTA-TTTTTGGATTTTAGAAAATTTATTGTATGCAATGAAATGTAATGTTGATGC
1 CGTACTTTTTAGATTTTAGAAAATTAATTGTATGCAATGAAATGTAATGTTGATGC
11275827 ATGGAAAAGA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
62 46 0.92
63 4 0.08
ACGTcount: A:0.31, C:0.05, G:0.22, T:0.42
Consensus pattern (63 bp):
CGTACTTTTTAGATTTTAGAAAATTAATTGTATGCAATGAAATGTAATGTTGATGCGTGAATG
Found at i:11276775 original size:15 final size:14
Alignment explanation
Indices: 11276750--11276784 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
11276740 TGCAGCAGTA
11276750 TACCAAGCTTAAAC
1 TACCAAGCTTAAAC
11276764 TACCACAGCTTAAAC
1 TACCA-AGCTTAAAC
11276779 TACCAA
1 TACCAA
11276785 AATCAAGACG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.43, C:0.31, G:0.06, T:0.20
Consensus pattern (14 bp):
TACCAAGCTTAAAC
Found at i:11277565 original size:127 final size:126
Alignment explanation
Indices: 11277388--11277627 Score: 301
Period size: 127 Copynumber: 1.9 Consensus size: 126
11277378 TTATTTTAAT
* *
11277388 TTTAAAAGGATATTCGGTTATTTAGGTCAACGAGAAAAATCGAAGCCCAGTAAGTTAGGGCACGA
1 TTTAAAAGGATATTCGGCTATTCAGGTCAACGAGAAAAATCGAAGCCCAGTAAGTTAGGGCACGA
* *
11277453 TT-TCTCAAATTTTCTAAATAT-AGA-ATATTGCCTTTATTTTTGAAATTTTATACGTTTGGAAA
66 TTCT-TCAAATTTCCTAAA-ATGAGAGATATTGCC-TTA-TTTTAAAATTTTATACGTTTGGAAA
** * *
11277515 TTTAAAAGGATATTTTGCTATTCAGGTTTAACGAG-AAAATCG-AGACCCAGTAAGTTAGGGTAC
1 TTTAAAAGGATATTCGGCTATTCAGG-TCAACGAGAAAAATCGAAG-CCCAGTAAGTTAGGGCAC
* *
11277578 GATTCTTCGAATTTCCTAAAATGCGAGATATTGCCTTATTTTAAAATTTT
64 GATTCTTCAAATTTCCTAAAATGAGAGATATTGCCTTATTTTAAAATTTT
11277628 CTTTTTGAAT
Statistics
Matches: 98, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
126 15 0.15
127 67 0.68
128 16 0.16
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (126 bp):
TTTAAAAGGATATTCGGCTATTCAGGTCAACGAGAAAAATCGAAGCCCAGTAAGTTAGGGCACGA
TTCTTCAAATTTCCTAAAATGAGAGATATTGCCTTATTTTAAAATTTTATACGTTTGGAAA
Found at i:11293835 original size:9 final size:9
Alignment explanation
Indices: 11293823--11293847 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11293813 GTTCCTTATG
11293823 TTTTTATAT
1 TTTTTATAT
11293832 TTTTTATAT
1 TTTTTATAT
11293841 TTTTTAT
1 TTTTTAT
11293848 TCTTCTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTATAT
Found at i:11295458 original size:18 final size:16
Alignment explanation
Indices: 11295408--11295482 Score: 62
Period size: 16 Copynumber: 4.6 Consensus size: 16
11295398 ATTTTATTTG
11295408 TTTTATTTTATTTTAT
1 TTTTATTTTATTTTAT
*
11295424 TTTATTTTTTATGTTTAT
1 TTT-TATTTTAT-TTTAT
*
11295442 GTTTATTTCTATTTT-T
1 TTTTATTT-TATTTTAT
** * *
11295458 AGTTGTTTTGTTTTAT
1 TTTTATTTTATTTTAT
11295474 TTTTATTTT
1 TTTTATTTT
11295483 CTTATACTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
15 5 0.11
16 16 0.36
17 14 0.31
18 10 0.22
ACGTcount: A:0.15, C:0.01, G:0.07, T:0.77
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:11295479 original size:6 final size:6
Alignment explanation
Indices: 11295408--11295482 Score: 59
Period size: 6 Copynumber: 12.5 Consensus size: 6
11295398 ATTTTATTTG
* * *
11295408 TTTTA- TTTTA- TTTTA- TTTTATT TTTTAT GTTTAT GTTTAT TTCTAT
1 TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT
11295454 TTTTAGT TGTTT-T GTTTTAT TTTTAT TTT
1 TTTTA-T T-TTTAT -TTTTAT TTTTAT TTT
11295483 CTTATACTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
5 15 0.25
6 33 0.55
7 9 0.15
8 3 0.05
ACGTcount: A:0.15, C:0.01, G:0.07, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:11295482 original size:5 final size:5
Alignment explanation
Indices: 11295398--11295456 Score: 57
Period size: 5 Copynumber: 11.0 Consensus size: 5
11295388 AGGATAATTG
*
11295398 ATTTT A-TTT GTTTT ATTTT ATTTT ATTTT ATTTTTT ATGTTT ATGTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A--TTTT AT-TTT AT-TTT
11295446 ATTTCT ATTTT
1 ATTT-T ATTTT
11295457 TAGTTGTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
4 3 0.06
5 23 0.49
6 16 0.34
7 5 0.11
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:11295539 original size:22 final size:20
Alignment explanation
Indices: 11295475--11295532 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 20
11295465 TTGTTTTATT
*
11295475 TTTATTTTCTTATACTTTGTT
1 TTTATTTTCTTATA-TTTGTG
*
11295496 TAATTATTATCTTCACTATTTGTG
1 T--TTATTTTCTT-A-TATTTGTG
11295520 TTTATTTTCTTAT
1 TTTATTTTCTTAT
11295533 TAGTTTGCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
20 1 0.03
21 2 0.07
22 9 0.30
23 9 0.30
24 7 0.23
25 2 0.07
ACGTcount: A:0.19, C:0.10, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTATTTTCTTATATTTGTG
Found at i:11299678 original size:42 final size:41
Alignment explanation
Indices: 11299631--11299745 Score: 140
Period size: 41 Copynumber: 2.8 Consensus size: 41
11299621 TGAGTTTCCA
* **
11299631 TTTAACCCTAATGGGTTTCTGTTCAGCTCTTTTGAGCTTCAG
1 TTTAACCCTTATGGGTTTCTGTTCAGC-CTTACGAGCTTCAG
* **
11299673 TTTAACCCTTATGGGTTTCCGTTCAGCCTTACGAGCTTTTG
1 TTTAACCCTTATGGGTTTCTGTTCAGCCTTACGAGCTTCAG
* *
11299714 TTCAACCCTTATGGGTTTCTGTTTAGCACTTA
1 TTTAACCCTTATGGGTTTCTGTTCAGC-CTTA
11299746 TGTGCTTCTG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 34 0.54
42 29 0.46
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.43
Consensus pattern (41 bp):
TTTAACCCTTATGGGTTTCTGTTCAGCCTTACGAGCTTCAG
Found at i:11299745 original size:21 final size:21
Alignment explanation
Indices: 11299636--11299762 Score: 78
Period size: 21 Copynumber: 6.1 Consensus size: 21
11299626 TTCCATTTAA
*
11299636 CCCTAATGGGTTTCTGTTCAG
1 CCCTTATGGGTTTCTGTTCAG
* * * * * * *
11299657 CTCTTTTGAGCTTCAGTTTAA
1 CCCTTATGGGTTTCTGTTCAG
*
11299678 CCCTTATGGGTTTCCGTTCAG
1 CCCTTATGGGTTTCTGTTCAG
* * *
11299699 -CCTTACGAGCTTT-TGTTCAA
1 CCCTTATG-GGTTTCTGTTCAG
*
11299719 CCCTTATGGGTTTCTGTTTAG
1 CCCTTATGGGTTTCTGTTCAG
* * * *
11299740 CACTTATGTGCTTCTGTGCAG
1 CCCTTATGGGTTTCTGTTCAG
11299761 CC
1 CC
11299763 TTCGGGCTTC
Statistics
Matches: 74, Mismatches: 29, Indels: 6
0.68 0.27 0.06
Matches are distributed among these distances:
20 15 0.20
21 59 0.80
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.41
Consensus pattern (21 bp):
CCCTTATGGGTTTCTGTTCAG
Found at i:11304839 original size:38 final size:38
Alignment explanation
Indices: 11304797--11304875 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
11304787 AAAGCATTTT
11304797 AACCAATTCAATTCAACCAATCCAATATGCCACAAATC
1 AACCAATTCAATTCAACCAATCCAATATGCCACAAATC
11304835 AACCAATTCAATTCAACCAATCCAATATGCCACAAATC
1 AACCAATTCAATTCAACCAATCCAATATGCCACAAATC
11304873 AAC
1 AAC
11304876 ACCAAAACAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.46, C:0.32, G:0.03, T:0.20
Consensus pattern (38 bp):
AACCAATTCAATTCAACCAATCCAATATGCCACAAATC
Found at i:11310508 original size:15 final size:15
Alignment explanation
Indices: 11310469--11310509 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
11310459 AATCTCTTAA
11310469 AAATTCATAAATATAT
1 AAATT-ATAAATATAT
*
11310485 -ATTTA-AAATATAT
1 AAATTATAAATATAT
11310498 AAATTATAAATA
1 AAATTATAAATA
11310510 ATTCATAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
13 8 0.38
14 5 0.24
15 8 0.38
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATTATAAATATAT
Found at i:11311242 original size:31 final size:31
Alignment explanation
Indices: 11311184--11311242 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
11311174 TAAAATATAA
*
11311184 TTTTATAATGTATTAATTTATTATTTTTATC
1 TTTTATAATGTATTAATATATTATTTTTATC
* *
11311215 TTTTTTAATG-ATTAAATATATTCTTTTT
1 TTTTATAATGTATT-AATATATTATTTTT
11311243 TTATTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 21 0.88
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (31 bp):
TTTTATAATGTATTAATATATTATTTTTATC
Found at i:11323016 original size:37 final size:37
Alignment explanation
Indices: 11322973--11323061 Score: 151
Period size: 37 Copynumber: 2.4 Consensus size: 37
11322963 ATCATAAATA
*
11322973 AATAAACTAATCAATGTTCAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
11323010 ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
11323047 AATGAACTAATCAAT
1 AATAAACTAATCAAT
11323062 ATATTTATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.35
Consensus pattern (37 bp):
AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
Found at i:11323141 original size:33 final size:33
Alignment explanation
Indices: 11323104--11323179 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
11323094 TTAAAACTTG
*
11323104 AATTATACATATACCAACAATTAATTTTAGGTC
1 AATTATACATACACCAACAATTAATTTTAGGTC
*
11323137 AATTATAGATACACCAACAATTAATTTTAGGTC
1 AATTATACATACACCAACAATTAATTTTAGGTC
11323170 AATTATACAT
1 AATTATACAT
11323180 GCTTTATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (33 bp):
AATTATACATACACCAACAATTAATTTTAGGTC
Found at i:11324393 original size:92 final size:91
Alignment explanation
Indices: 11324236--11324444 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
11324226 TTGATTTTAG
* * *
11324236 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
11324301 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
11324328 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
11324392 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
11324420 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
11324445 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:11324407 original size:24 final size:25
Alignment explanation
Indices: 11324372--11324419 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
11324362 TTATGAAATT
11324372 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
11324396 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
11324420 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:11324489 original size:18 final size:17
Alignment explanation
Indices: 11324461--11324495 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11324451 ATTATTTTAA
*
11324461 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11324478 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11324496 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11324615 original size:16 final size:16
Alignment explanation
Indices: 11324594--11324635 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11324584 TTATTAAATT
*
11324594 ATATATTTTAATTATA
1 ATATATTTTAATAATA
11324610 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
11324625 AT-TATGTTTAA
1 ATATAT-TTTAA
11324636 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:11324620 original size:15 final size:15
Alignment explanation
Indices: 11324585--11324626 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11324575 TTAAGAATTT
*
11324585 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11324599 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11324613 TATTTAATAATAAT
1 TATTTAATTATAAT
11324627 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:11324651 original size:75 final size:75
Alignment explanation
Indices: 11324570--11324808 Score: 180
Period size: 75 Copynumber: 3.1 Consensus size: 75
11324560 TAAGAATATT
11324570 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
11324635 AATATGATTA
66 AATATGATTA
* ** * * * ** ** * * *
11324645 AATTATTTATTATTGATATT-AATAATCTTATTAAAATT-TAA-ATA-ACAATAACAATAATAAT
1 AATTATTAAGAATT-TTATTAAATTAT-ATATTTTAATTATAATATATTTAATAATAATTAT-GT
* ** *
11324706 TTACCAAAACAAATTTCTGCT
63 TTA--AATA-TGA--T-T--A
*
11324727 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
11324792 AATATGATTA
66 AATATGATTA
*
11324802 AAATATT
1 AATTATT
11324809 TATTATTGAT
Statistics
Matches: 113, Mismatches: 36, Indels: 30
0.63 0.20 0.17
Matches are distributed among these distances:
73 10 0.09
74 7 0.06
75 25 0.22
76 15 0.13
77 2 0.02
78 1 0.01
79 1 0.01
80 2 0.02
81 15 0.13
82 18 0.16
83 7 0.06
84 10 0.09
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:11324658 original size:82 final size:82
Alignment explanation
Indices: 11324566--11324815 Score: 211
Period size: 76 Copynumber: 3.1 Consensus size: 82
11324556 CATATAAGAA
*
11324566 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
1 TATTTATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
11324631 TTTAAATATGATTAAAT
66 TTTAAATATGATTAAAT
* * * * * * * *
11324648 TATTTATTATT--G-ATATTAATAATCTTATTAAAATTTAA--ATAACA-A--TAACAATAATAA
1 TATTTATTATTAAGAATTTTATTAA-ATTA-TATATTTTAATTATAATATATTTAATAATAATTA
* *** *
11324705 TTTACCAA-A--A-CAAAT
64 TGTTTAAATATGATTAAAT
*
11324720 T-TCTGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAAT
1 TAT-T--T-ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAAT
*
11324784 TATGTTTAAATATGATTAAAA
62 TATGTTTAAATATGATTAAAT
11324805 TATTTATTATT
1 TATTTATTATT
11324816 GATAATAATA
Statistics
Matches: 120, Mismatches: 29, Indels: 38
0.64 0.16 0.20
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 1 0.01
75 7 0.06
76 22 0.18
77 4 0.03
78 13 0.11
79 14 0.12
80 4 0.03
81 22 0.18
82 17 0.14
83 1 0.01
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (82 bp):
TATTTATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG
TTTAAATATGATTAAAT
Found at i:11324766 original size:18 final size:17
Alignment explanation
Indices: 11324738--11324772 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11324728 ATTATTAAGA
*
11324738 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11324755 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11324773 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11324876 original size:157 final size:157
Alignment explanation
Indices: 11324569--11324885 Score: 589
Period size: 157 Copynumber: 2.0 Consensus size: 157
11324559 ATAAGAATAT
*
11324569 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
11324634 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
11324699 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
11324726 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
11324791 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
11324856 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
11324883 TAA
1 TAA
11324886 GGGTATTCTA
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:11325032 original size:16 final size:16
Alignment explanation
Indices: 11325008--11325043 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
11324998 AATTTGCTAT
11325008 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
11325024 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
11325040 TACA
1 TACA
11325044 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11328127 original size:21 final size:21
Alignment explanation
Indices: 11328102--11328145 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
11328092 GGATTGAAAG
11328102 GAACATGCAGGATGGTGTCGA
1 GAACATGCAGGATGGTGTCGA
11328123 GAACATGCAGGATGGTGTCGA
1 GAACATGCAGGATGGTGTCGA
11328144 GA
1 GA
11328146 TCCGTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.14, G:0.39, T:0.18
Consensus pattern (21 bp):
GAACATGCAGGATGGTGTCGA
Found at i:11335749 original size:12 final size:13
Alignment explanation
Indices: 11335732--11335760 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11335722 AATATTCCAA
11335732 TTTTATTTTT-AT
1 TTTTATTTTTAAT
11335744 TTTTATTTTTAAT
1 TTTTATTTTTAAT
11335757 TTTT
1 TTTT
11335761 TGTTTTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTATTTTTAAT
Found at i:11337955 original size:16 final size:16
Alignment explanation
Indices: 11337919--11337957 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
11337909 TCAGTTATTT
11337919 AAATA-TTATTTTTTA
1 AAATATTTATTTTTTA
**
11337934 TTATATTTATTTTTTA
1 AAATATTTATTTTTTA
11337950 AAATATTT
1 AAATATTT
11337958 TATATATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AAATATTTATTTTTTA
Found at i:11338309 original size:4 final size:4
Alignment explanation
Indices: 11338302--11338333 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
11338292 CTTTTACTTT
11338302 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
11338334 AGAAAGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:11339548 original size:13 final size:13
Alignment explanation
Indices: 11339532--11339570 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
11339522 TTAAGTAAAA
11339532 ATATTATATTATT
1 ATATTATATTATT
11339545 ATA-TA-A-TATT
1 ATATTATATTATT
11339555 ATATTATATTATT
1 ATATTATATTATT
11339568 ATA
1 ATA
11339571 ATAAAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
10 7 0.30
11 3 0.13
12 3 0.13
13 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATTATATTATT
Found at i:11343161 original size:285 final size:285
Alignment explanation
Indices: 11342651--11343225 Score: 1105
Period size: 285 Copynumber: 2.0 Consensus size: 285
11342641 TAGAACATTT
*
11342651 TGTTAGAGATTGTCTGAAGAATGAGAATGCTACACTTGTTACTTCTTAGAGATATATGTCTGCTT
1 TGTTAGAGATTGTCTGAAGAATGAGAATGCTACACTTGTTACTTCTCAGAGATATATGTCTGCTT
11342716 CTAGAGGTCGTGGGTCGAGTCGAAGTGGTTCATTTTCGAGAGGTGGTGCTAGGAAGGGAAATGAT
66 CTAGAGGTCGTGGGTCGAGTCGAAGTGGTTCATTTTCGAGAGGTGGTGCTAGGAAGGGAAATGAT
11342781 GTTGTTCCTCAACAGTCAGAGGCCAAAACTCTAGCTCAAGCTTATGCTGTGCGGACTCGTGAGGA
131 GTTGTTCCTCAACAGTCAGAGGCCAAAACTCTAGCTCAAGCTTATGCTGTGCGGACTCGTGAGGA
11342846 TGGTGATGCTAATGATGTGGTGACATGTATATTTTTATTATATTCAAAACGTGTTTATGCTTTGA
196 TGGTGATGCTAATGATGTGGTGACATGTATATTTTTATTATATTCAAAACGTGTTTATGCTTTGA
11342911 TAGATCCGGGATCTTCACATTCATA
261 TAGATCCGGGATCTTCACATTCATA
*
11342936 TGTTAGAGATTGTCTGAAGAATGAGAATGCTACACTTGTTACTTCTCATAGATATATGTCTGCTT
1 TGTTAGAGATTGTCTGAAGAATGAGAATGCTACACTTGTTACTTCTCAGAGATATATGTCTGCTT
11343001 CTAGAGGTCGTGGGTCGAGTCGAAGTGGTTCATTTTCGAGAGGTGGTGCTAGGAAGGGAAATGAT
66 CTAGAGGTCGTGGGTCGAGTCGAAGTGGTTCATTTTCGAGAGGTGGTGCTAGGAAGGGAAATGAT
* * *
11343066 GTTGTTCCTCAATAGTCAGAGGCCAGAACTCTAGCTCAAGCTTATGTTGTGCGGACTCGTGAGGA
131 GTTGTTCCTCAACAGTCAGAGGCCAAAACTCTAGCTCAAGCTTATGCTGTGCGGACTCGTGAGGA
11343131 TGGTGATGCTAATGATGTGGTGACATGTATATTTTTATTATATTCAAAACGTGTTTATGCTTTGA
196 TGGTGATGCTAATGATGTGGTGACATGTATATTTTTATTATATTCAAAACGTGTTTATGCTTTGA
11343196 TAGATCCGGGATCTTCACATTCATA
261 TAGATCCGGGATCTTCACATTCATA
11343221 TGTTA
1 TGTTA
11343226 ATACTAAATT
Statistics
Matches: 285, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
285 285 1.00
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.34
Consensus pattern (285 bp):
TGTTAGAGATTGTCTGAAGAATGAGAATGCTACACTTGTTACTTCTCAGAGATATATGTCTGCTT
CTAGAGGTCGTGGGTCGAGTCGAAGTGGTTCATTTTCGAGAGGTGGTGCTAGGAAGGGAAATGAT
GTTGTTCCTCAACAGTCAGAGGCCAAAACTCTAGCTCAAGCTTATGCTGTGCGGACTCGTGAGGA
TGGTGATGCTAATGATGTGGTGACATGTATATTTTTATTATATTCAAAACGTGTTTATGCTTTGA
TAGATCCGGGATCTTCACATTCATA
Found at i:11346892 original size:20 final size:19
Alignment explanation
Indices: 11346848--11346892 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
11346838 ACAAATAACT
*
11346848 AAAAAGAAAAAAGAAATAG
1 AAAAAGAAAAAAGAAACAG
11346867 AAAAAGAAAGAAAGAAACAG
1 AAAAAGAAA-AAAGAAACAG
*
11346887 AGAAAG
1 AAAAAG
11346893 CCAAACGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (19 bp):
AAAAAGAAAAAAGAAACAG
Found at i:11347848 original size:41 final size:39
Alignment explanation
Indices: 11347803--11347911 Score: 114
Period size: 37 Copynumber: 2.8 Consensus size: 39
11347793 CTTTGAGTCA
* **
11347803 ATGAGACACTGGGTGTCAAGTTATTACTTCGGATATATTCG
1 ATGAGACACTGGGTGTCAA-TTATTACTTCAG-TATAGCCG
* * *
11347844 ATGAGGCACTGGGTGACAA-T-TTACTTCAGTTTAGCCG
1 ATGAGACACTGGGTGTCAATTATTACTTCAGTATAGCCG
*
11347881 ATGAGACACTGGGTGTCAATTTACTACTTCA
1 ATGAGACACTGGGTGTCAA-TTATTACTTCA
11347912 AATTATCTGA
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
37 22 0.39
38 8 0.14
39 2 0.04
40 7 0.12
41 17 0.30
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (39 bp):
ATGAGACACTGGGTGTCAATTATTACTTCAGTATAGCCG
Found at i:11350404 original size:25 final size:25
Alignment explanation
Indices: 11350375--11350458 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 25
11350365 AAAAATCTGG
11350375 GCACTCAACAACATTAGAATCAACT
1 GCACTCAACAACATTAGAATCAACT
* * **
11350400 GCACTGAAC-GC-TTGAAGCAAAAAATCT
1 GCACTCAACAACATT--AG-AATCAA-CT
11350427 GGGCACTCAACAACATTAGAATCAACT
1 --GCACTCAACAACATTAGAATCAACT
11350454 GCACT
1 GCACT
11350459 GAGAAGATTA
Statistics
Matches: 43, Mismatches: 8, Indels: 16
0.64 0.12 0.24
Matches are distributed among these distances:
23 2 0.05
24 1 0.02
25 15 0.35
26 4 0.09
27 4 0.09
28 4 0.09
29 10 0.23
30 1 0.02
31 2 0.05
ACGTcount: A:0.40, C:0.26, G:0.14, T:0.19
Consensus pattern (25 bp):
GCACTCAACAACATTAGAATCAACT
Found at i:11350418 original size:54 final size:54
Alignment explanation
Indices: 11350356--11350460 Score: 210
Period size: 54 Copynumber: 1.9 Consensus size: 54
11350346 GGTAGTAACT
11350356 CTTGAAGCAAAAAATCTGGGCACTCAACAACATTAGAATCAACTGCACTGAACG
1 CTTGAAGCAAAAAATCTGGGCACTCAACAACATTAGAATCAACTGCACTGAACG
11350410 CTTGAAGCAAAAAATCTGGGCACTCAACAACATTAGAATCAACTGCACTGA
1 CTTGAAGCAAAAAATCTGGGCACTCAACAACATTAGAATCAACTGCACTGA
11350461 GAAGATTATG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.19
Consensus pattern (54 bp):
CTTGAAGCAAAAAATCTGGGCACTCAACAACATTAGAATCAACTGCACTGAACG
Found at i:11351857 original size:23 final size:23
Alignment explanation
Indices: 11351831--11351929 Score: 155
Period size: 23 Copynumber: 4.3 Consensus size: 23
11351821 ATAAGTGCCA
*
11351831 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCAGAAGCTAC
*
11351854 CACTGTTATGTAGTC-GAAGCTAC
1 CACTGATATGTAG-CAGAAGCTAC
*
11351877 CACTGAAATGTAGCAGAAGCTAC
1 CACTGATATGTAGCAGAAGCTAC
11351900 CACTGATATGTAGCAGAAGCTAC
1 CACTGATATGTAGCAGAAGCTAC
11351923 CACTGAT
1 CACTGAT
11351930 CAATAACACT
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
22 1 0.01
23 68 0.97
24 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCAGAAGCTAC
Found at i:11357549 original size:45 final size:45
Alignment explanation
Indices: 11357485--11357573 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
11357475 TGGAGTACAA
*
11357485 GATAATTCATCCAACACTCTGATGGTATTATCAAGCCAGAACTCC
1 GATAATTCATCCAACACTCTAATGGTATTATCAAGCCAGAACTCC
11357530 GATAATTCATCCAACACTCTAATGGTATTATCAAGCCAGAACTC
1 GATAATTCATCCAACACTCTAATGGTATTATCAAGCCAGAACTC
11357574 TGCTCTTTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (45 bp):
GATAATTCATCCAACACTCTAATGGTATTATCAAGCCAGAACTCC
Found at i:11359263 original size:23 final size:23
Alignment explanation
Indices: 11359237--11359335 Score: 146
Period size: 23 Copynumber: 4.3 Consensus size: 23
11359227 ATAAGTGCCA
11359237 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCTGAAGCTAC
*
11359260 CACTGTTATGTAG-TCGAAGCTAC
1 CACTGATATGTAGCT-GAAGCTAC
* *
11359283 CACTGAAATGTAGCAGAAGCTAC
1 CACTGATATGTAGCTGAAGCTAC
*
11359306 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCTGAAGCTAC
11359329 CACTGAT
1 CACTGAT
11359336 CAATAACACT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
22 1 0.01
23 67 0.99
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCTGAAGCTAC
Found at i:11363523 original size:17 final size:17
Alignment explanation
Indices: 11363501--11363536 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
11363491 CCGTTACTAT
11363501 TTAATCAAATTATAAAA
1 TTAATCAAATTATAAAA
*
11363518 TTAATCAAATTTTAAAA
1 TTAATCAAATTATAAAA
11363535 TT
1 TT
11363537 TTTAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAATCAAATTATAAAA
Found at i:11369586 original size:31 final size:31
Alignment explanation
Indices: 11369550--11369614 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
11369540 ACAACCCAGT
11369550 TGACTTAAAAAAAAGCTTTTGAATAGTTAAG
1 TGACTTAAAAAAAAGCTTTTGAATAGTTAAG
* * *
11369581 TGACTTAAATAAAATCTTTTGAATAGTTTAG
1 TGACTTAAAAAAAAGCTTTTGAATAGTTAAG
11369612 TGA
1 TGA
11369615 TAATTTTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (31 bp):
TGACTTAAAAAAAAGCTTTTGAATAGTTAAG
Found at i:11379442 original size:14 final size:14
Alignment explanation
Indices: 11379423--11379449 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11379413 GAGTGTAGTA
11379423 AAATATTGAAAAAT
1 AAATATTGAAAAAT
11379437 AAATATTGAAAAA
1 AAATATTGAAAAA
11379450 AAAAGAGACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AAATATTGAAAAAT
Found at i:11383677 original size:31 final size:30
Alignment explanation
Indices: 11383610--11383696 Score: 104
Period size: 31 Copynumber: 2.9 Consensus size: 30
11383600 GTGTAGTCTG
* *
11383610 ATACATGAAA-TTTGATTTGGTGCAATTAT
1 ATACATGAAACTTTGATTTGGTTCAAATAT
* * *
11383639 ACACATGAAACTTTGGTTGTGGTTCAAATGT
1 ATACATGAAACTTTGATT-TGGTTCAAATAT
11383670 ATACATGAAACTTTGATTATGGTTCAA
1 ATACATGAAACTTTGATT-TGGTTCAA
11383697 TCATACACAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 9 0.19
30 6 0.12
31 33 0.69
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (30 bp):
ATACATGAAACTTTGATTTGGTTCAAATAT
Found at i:11384218 original size:16 final size:16
Alignment explanation
Indices: 11384199--11384229 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11384189 TTATAAGATA
11384199 TTAAAAAAAACAAAAT
1 TTAAAAAAAACAAAAT
*
11384215 TTAAAAAAAATAAAA
1 TTAAAAAAAACAAAA
11384230 ATGCTCATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
TTAAAAAAAACAAAAT
Found at i:11384857 original size:18 final size:19
Alignment explanation
Indices: 11384834--11384878 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
11384824 ACATTTGAAC
*
11384834 AAAAATTAAAGTTTA-ATA
1 AAAAATTAAAATTTATATA
11384852 AAAAATTAAAATTTATATA
1 AAAAATTAAAATTTATATA
*
11384871 TAAAATTA
1 AAAAATTA
11384879 CATTACACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAAATTAAAATTTATATA
Found at i:11387758 original size:11 final size:11
Alignment explanation
Indices: 11387703--11387778 Score: 61
Period size: 11 Copynumber: 6.7 Consensus size: 11
11387693 AAATAAATGA
11387703 AAGAAAAAGA-
1 AAGAAAAAGAG
11387713 ATAG-AAAA-AG
1 A-AGAAAAAGAG
11387723 AAGAACAAAGTAG
1 AAGAA-AAAG-AG
*
11387736 AACGAAATAGAG
1 AA-GAAAAAGAG
11387748 AAGAAAAAGAG
1 AAGAAAAAGAG
11387759 AAAGAAAAAGGAG
1 -AAGAAAAA-GAG
11387772 AA-AAAAA
1 AAGAAAAA
11387779 TTAGGGTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
9 3 0.05
10 7 0.13
11 18 0.33
12 14 0.25
13 10 0.18
14 3 0.05
ACGTcount: A:0.71, C:0.03, G:0.22, T:0.04
Consensus pattern (11 bp):
AAGAAAAAGAG
Found at i:11389490 original size:25 final size:24
Alignment explanation
Indices: 11389443--11389490 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11389433 GAGAAATAAT
* * *
11389443 TTTTAGTTAAACTCTGTTTATTTG
1 TTTTAGTCAAACACTGTTAATTTG
11389467 TTTTAGTCAAACACTGATTAATTT
1 TTTTAGTCAAACACTG-TTAATTT
11389491 AGATTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.52
Consensus pattern (24 bp):
TTTTAGTCAAACACTGTTAATTTG
Found at i:11391569 original size:24 final size:24
Alignment explanation
Indices: 11391542--11391590 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
11391532 ATTTAGAGAA
11391542 TTTTGTGTTT-AGGTTTTCAGAGTT
1 TTTTGT-TTTCAGGTTTTCAGAGTT
* *
11391566 TTTTGTTTTCGGGTTTTCGGAGTT
1 TTTTGTTTTCAGGTTTTCAGAGTT
11391590 T
1 T
11391591 AGTTTTTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.08, C:0.06, G:0.27, T:0.59
Consensus pattern (24 bp):
TTTTGTTTTCAGGTTTTCAGAGTT
Found at i:11396224 original size:15 final size:15
Alignment explanation
Indices: 11396204--11396240 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
11396194 TTTATACTAC
*
11396204 AAAATATTTATTATT
1 AAAATATTTAATATT
11396219 AAAATA-TTAATATT
1 AAAATATTTAATATT
11396233 -AAATATTT
1 AAAATATTT
11396241 TCAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 9 0.45
15 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AAAATATTTAATATT
Found at i:11398594 original size:21 final size:20
Alignment explanation
Indices: 11398566--11398605 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
11398556 CACTTCACAA
*
11398566 TCATGTCATACATCATCATC
1 TCATGTCAAACATCATCATC
11398586 TCATAGTCAAACATCATCAT
1 TCAT-GTCAAACATCATCAT
11398606 AAAGTCCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.33
Consensus pattern (20 bp):
TCATGTCAAACATCATCATC
Found at i:11400646 original size:10 final size:10
Alignment explanation
Indices: 11400602--11400669 Score: 52
Period size: 10 Copynumber: 6.8 Consensus size: 10
11400592 AAAAAGTATT
* *
11400602 TTTTAAATAT
1 TTTTAAAAAA
*
11400612 TTTTAAAATA
1 TTTTAAAAAA
11400622 TTTT--AAAA
1 TTTTAAAAAA
*
11400630 -TTAAAAAAA
1 TTTTAAAAAA
11400639 TTTTAAAAAGTA
1 TTTTAAAAA--A
11400651 TTTTAAAAATA
1 TTTTAAAAA-A
11400662 TTTTAAAA
1 TTTTAAAA
11400670 TTAAAAAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
7 2 0.04
8 3 0.06
9 4 0.09
10 18 0.38
11 10 0.21
12 10 0.21
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:11400653 original size:12 final size:11
Alignment explanation
Indices: 11400592--11400669 Score: 67
Period size: 11 Copynumber: 7.4 Consensus size: 11
11400582 TTAAAAATTA
11400592 AAAAAGTATTTT
1 AAAAA-TATTTT
**
11400604 TTAAATATTTT
1 AAAAATATTTT
*
11400615 TAAAATATTTT
1 AAAAATATTTT
11400626 --AAA-A--TT
1 AAAAATATTTT
*
11400632 AAAAAAATTTT
1 AAAAATATTTT
11400643 AAAAAGTATTTT
1 AAAAA-TATTTT
11400655 AAAAATATTTT
1 AAAAATATTTT
11400666 AAAA
1 AAAA
11400670 TTAAAAAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
6 2 0.04
8 4 0.07
9 4 0.07
11 33 0.59
12 13 0.23
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:11400653 original size:40 final size:40
Alignment explanation
Indices: 11400578--11400677 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 40
11400568 ACCAAAAATT
** *
11400578 TATTTTAAAAATTAAAAAAGTATTTTTTAAATATTTTTAAAA
1 TATTTT-AAAATTAAAAAAG-ATTTTAAAAATATTTTAAAAA
11400620 TATTTTAAAATTAAAAAA-ATTTTAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAGATTTTAAAAA-TATTTTAAAAA
11400660 TATTTTAAAATTAAAAAA
1 TATTTTAAAATTAAAAAA
11400678 TAATAAAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
39 8 0.15
40 28 0.52
41 12 0.22
42 6 0.11
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAGATTTTAAAAATATTTTAAAAA
Found at i:11400687 original size:40 final size:41
Alignment explanation
Indices: 11400609--11400700 Score: 125
Period size: 40 Copynumber: 2.2 Consensus size: 41
11400599 ATTTTTTAAA
* **
11400609 TATTTTTAAAATATTTTAAAATTAAAAAAAT-TTTAAAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAAATATAAAAAAAG
11400649 TATTTTAAAAATATTTTAAAATT-AAAAAATAATAAAAAAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAAAT-AT-AAAAAAAG
11400691 TATTTTAAAA
1 TATTTTAAAA
11400701 TTAAAAAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
39 7 0.15
40 22 0.48
41 1 0.02
42 16 0.35
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (41 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAATATAAAAAAAG
Found at i:11401678 original size:25 final size:27
Alignment explanation
Indices: 11401650--11401708 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
11401640 GTATATGAAT
*
11401650 TGAAATCAA-CTATTGGAA-TGAGAT-G
1 TGAAAT-AATCTAATGGAATTGAGATAG
11401675 TGAAA-AATCTAATGGAATTGAGATAG
1 TGAAATAATCTAATGGAATTGAGATAG
11401701 TGAAATAA
1 TGAAATAA
11401709 GGTATGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 2 0.07
24 8 0.28
25 11 0.38
26 6 0.21
27 2 0.07
ACGTcount: A:0.46, C:0.05, G:0.22, T:0.27
Consensus pattern (27 bp):
TGAAATAATCTAATGGAATTGAGATAG
Found at i:11404309 original size:48 final size:42
Alignment explanation
Indices: 11404200--11404305 Score: 176
Period size: 42 Copynumber: 2.5 Consensus size: 42
11404190 ATAGCCAGCT
* * *
11404200 ATGGTCTTACACGAATCTCGTATCGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGCCCCAGAC
11404242 ATGGTCTTACACGAATCTCATATCGATGCCAATGCCCCAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGCCCCAGAC
11404284 ATGGTCTTACACGTAATCTCAT
1 ATGGTCTTACACG-AATCTCAT
11404306 CTCAGTATCC
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
42 52 0.87
43 8 0.13
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGAATCTCATATCGATGCCAATGCCCCAGAC
Found at i:11406834 original size:41 final size:41
Alignment explanation
Indices: 11406763--11406972 Score: 303
Period size: 41 Copynumber: 5.1 Consensus size: 41
11406753 ATTGGTGAAT
* ** * *
11406763 TGAATCAGGTTATAAATCTAGTAGGCTAAGTGCCAGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
* *
11406804 TGAATCAGGCTATAAGCCTAGCAGGTTAAGTGCCGGTGATA
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
* * **
11406845 TGAATCAGGTTATAAACCTAGCAGGCTAAGTTTCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
*
11406886 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCAGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
11406927 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
*
11406968 CGAAT
1 TGAAT
11406973 ATGATGAATT
Statistics
Matches: 149, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 149 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (41 bp):
TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
Found at i:11407200 original size:31 final size:34
Alignment explanation
Indices: 11407164--11407250 Score: 99
Period size: 37 Copynumber: 2.6 Consensus size: 34
11407154 TATTTAGGCC
11407164 TTCGGCATAGGTGGATATA-TAT-T-TGTATGCA
1 TTCGGCATAGGTGGATATAGTATATATGTATGCA
* *
11407195 TTCGGCATAGATAGATATAAGTGTATATATGTATGCA
1 TTCGGCATAGGTGGATAT-A--GTATATATGTATGCA
*
11407232 TTCGGCATAGGTGGGTATA
1 TTCGGCATAGGTGGATATA
11407251 AGTGAATATG
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
31 16 0.36
32 1 0.02
35 3 0.07
36 2 0.04
37 23 0.51
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.36
Consensus pattern (34 bp):
TTCGGCATAGGTGGATATAGTATATATGTATGCA
Found at i:11407222 original size:37 final size:37
Alignment explanation
Indices: 11407181--11407259 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
11407171 TAGGTGGATA
*
11407181 TATATTTGTATGCATTCGGCATAGATAGATATAAGTG
1 TATATATGTATGCATTCGGCATAGATAGATATAAGTG
* * *
11407218 TATATATGTATGCATTCGGCATAGGTGGGTATAAGTG
1 TATATATGTATGCATTCGGCATAGATAGATATAAGTG
*
11407255 AATAT
1 TATAT
11407260 GTGCTTTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.37
Consensus pattern (37 bp):
TATATATGTATGCATTCGGCATAGATAGATATAAGTG
Found at i:11414396 original size:17 final size:17
Alignment explanation
Indices: 11414374--11414417 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
11414364 TGGTTGTGTT
11414374 TATATA-ATGTGCG-AA
1 TATATATATGTGCGTAA
*
11414389 TATATATATGTGTGTAA
1 TATATATATGTGCGTAA
11414406 TATATATATGTG
1 TATATATATGTG
11414418 GATTGAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 14 0.54
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.43
Consensus pattern (17 bp):
TATATATATGTGCGTAA
Found at i:11414693 original size:41 final size:41
Alignment explanation
Indices: 11414638--11414847 Score: 357
Period size: 41 Copynumber: 5.1 Consensus size: 41
11414628 ATTGGTGAAT
* *
11414638 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
* *
11414679 TGAATCAGGCTATAAGCCTAGCACGCTAAGTGCCGGTGATA
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
* *
11414720 TGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
11414761 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
11414802 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
1 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
*
11414843 CGAAT
1 TGAAT
11414848 ATGATGAATT
Statistics
Matches: 158, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 158 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (41 bp):
TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
Found at i:11415072 original size:31 final size:34
Alignment explanation
Indices: 11415036--11415145 Score: 106
Period size: 37 Copynumber: 3.3 Consensus size: 34
11415026 GCATATTTAG
11415036 GCATTCGGCATAGGTGGATATA-TAT-T-TGTAT
1 GCATTCGGCATAGGTGGATATAGTATATATGTAT
* *
11415067 GCATTCGGCATAGATAGATATAAGTGTATATATGTAT
1 GCATTCGGCATAGGTGGATAT-A--GTATATATGTAT
*
11415104 GCATTCGGCATAGGTGGGTATAAGTGA-ATATG--T
1 GCATTCGGCATAGGTGGATAT-AGT-ATATATGTAT
11415137 GCATTCGGC
1 GCATTCGGC
11415146 CTTTATAGTT
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
31 19 0.28
32 1 0.01
33 10 0.15
35 10 0.15
36 2 0.03
37 25 0.37
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (34 bp):
GCATTCGGCATAGGTGGATATAGTATATATGTAT
Found at i:11415097 original size:37 final size:37
Alignment explanation
Indices: 11415056--11415145 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
11415046 TAGGTGGATA
*
11415056 TATATTTGTATGCATTCGGCATAGATAGATATAAGTG
1 TATATATGTATGCATTCGGCATAGATAGATATAAGTG
* * *
11415093 TATATATGTATGCATTCGGCATAGGTGGGTATAAGTG
1 TATATATGTATGCATTCGGCATAGATAGATATAAGTG
11415130 -A-ATATG--TGCATTCGGC
1 TATATATGTATGCATTCGGC
11415146 CTTTATAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
33 10 0.20
35 5 0.10
36 1 0.02
37 33 0.67
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (37 bp):
TATATATGTATGCATTCGGCATAGATAGATATAAGTG
Found at i:11420621 original size:13 final size:14
Alignment explanation
Indices: 11420600--11420632 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
11420590 CGGATGATTA
11420600 AAAAATTTATGT-T
1 AAAAATTTATGTAT
*
11420613 AAAATTTTATGTAT
1 AAAAATTTATGTAT
11420627 AAAAAT
1 AAAAAT
11420633 ATACAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (14 bp):
AAAAATTTATGTAT
Found at i:11432031 original size:43 final size:43
Alignment explanation
Indices: 11431952--11432109 Score: 187
Period size: 43 Copynumber: 3.7 Consensus size: 43
11431942 CAACGTCAAC
* * * * *
11431952 GTCCCAGACGTGGTCTTACATG-TAATCACAAATCGATGCCACT
1 GTCCTAGACGTGGTCTTACACGAAAAT-ACAAGTCGATGCCAAT
**
11431995 GTCCTAGACAAGGTCTTACACGAAAATACAAGTCGATGCCAAT
1 GTCCTAGACGTGGTCTTACACGAAAATACAAGTCGATGCCAAT
*
11432038 GTCCTAGACGTGGTAC-TACACGAAAATACAAGTCGATGTCAAT
1 GTCCTAGACGTGGT-CTTACACGAAAATACAAGTCGATGCCAAT
*
11432081 GT-CTCAAACGTGGTCTTACACGAAAATAC
1 GTCCT-AGACGTGGTCTTACACGAAAATAC
11432110 TTATCAGCAA
Statistics
Matches: 100, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
42 3 0.03
43 93 0.93
44 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (43 bp):
GTCCTAGACGTGGTCTTACACGAAAATACAAGTCGATGCCAAT
Found at i:11433934 original size:11 final size:11
Alignment explanation
Indices: 11433918--11433942 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11433908 CATTTAATAA
11433918 ATTATTTTTAT
1 ATTATTTTTAT
11433929 ATTATTTTTAT
1 ATTATTTTTAT
11433940 ATT
1 ATT
11433943 GTAAAAAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTATTTTTAT
Found at i:11434004 original size:24 final size:24
Alignment explanation
Indices: 11433977--11434034 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
11433967 CATTTAATAA
*
11433977 AATAAAATATGTTTTTA-ATATTTT
1 AATAAAATATATTTTTATAT-TTTT
11434001 AATAGTAAAT-TATTTTTATATTTTT
1 AATA--AAATATATTTTTATATTTTT
11434026 AATAAAATA
1 AATAAAATA
11434035 GAAGTTCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
23 4 0.14
24 4 0.14
25 15 0.52
26 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (24 bp):
AATAAAATATATTTTTATATTTTT
Found at i:11437148 original size:186 final size:186
Alignment explanation
Indices: 11436822--11437175 Score: 550
Period size: 186 Copynumber: 1.9 Consensus size: 186
11436812 GCCAAACATG
* *
11436822 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGAGTCCACGTAGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *
11436887 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAAGAAAT
66 TGCTTGAAGCGTTTTTGACACTATTTCTTCAGAAACGTATTCTCAAAATTAGTTTTTCAAGAAAT
* *
11436952 AATGTAGAAAAAGAACGTCCACGTGTGAGATTTTTTCATCAATTTGTTCAGAAGAT
131 AATATAGAAAAAGAACGTCCACGTGGGAGATTTTTTCATCAATTTGTTCAGAAGAT
*
11437008 AACTACTGTAGAAAAAGAGAGTCTACGTAGGAGCTTTTTTCA-TCAATTTTGCTGACAGTGCATC
1 AACTACTGTAGAAAAAGAGAGTCCACGTAGGAGCTTTTTTCAGT-AATTTTGCTGACAGTGCATC
* *
11437072 CTGCTTGAAGCGTTTTTGACACTATTTCTTTAGAACCGTATTCTCAAAATTAGTTTTT-AAGGAA
65 CTGCTTGAAGCGTTTTTGACACTATTTCTTCAGAAACGTATTCTCAAAATTAGTTTTTCAA-GAA
* * * *
11437136 CTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCA
129 ATAATATAGAAAAAGAACGTCCACGTGGGAGATTTTTTCA
11437176 GTAATTTTGC
Statistics
Matches: 152, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
185 3 0.02
186 149 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (186 bp):
AACTACTGTAGAAAAAGAGAGTCCACGTAGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTCTTCAGAAACGTATTCTCAAAATTAGTTTTTCAAGAAAT
AATATAGAAAAAGAACGTCCACGTGGGAGATTTTTTCATCAATTTGTTCAGAAGAT
Found at i:11437233 original size:126 final size:126
Alignment explanation
Indices: 11437008--11437266 Score: 385
Period size: 126 Copynumber: 2.1 Consensus size: 126
11436998 TTCAGAAGAT
* *
11437008 AACTACTGTAGAAAAAGAGAGTCTACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCC
1 AACTACTATAGAAAAAGAGAGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCC
* * * * *
11437073 TGCTTGAAGCGTTTTTGACACTATTTCTTTAGAACCGTATTCTCAAAATTAGTTTTTAAGG
66 TGCTTGAAGCGTTTTGGACACAATTTATTAAGAACCATATTCTCAAAATTAGTTTTTAAGG
* * *
11437134 AACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGATAGTGCATC
1 AACTACTATAGAAAAAGAGAGTCCACGTAGGAGCTTTTTTCA-TCAATTTTGCTGACAGTGCATC
* * *
11437198 CTGCTTGAAGCGTTTTGGACACAATTTATTAAGAACCATCTTCTCAAAATTATTTTTTTAGG
65 CTGCTTGAAGCGTTTTGGACACAATTTATTAAGAACCATATTCTCAAAATTAGTTTTTAAGG
11437260 AACTACT
1 AACTACT
11437267 GTAAATAAAA
Statistics
Matches: 119, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
126 118 0.99
127 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (126 bp):
AACTACTATAGAAAAAGAGAGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTGGACACAATTTATTAAGAACCATATTCTCAAAATTAGTTTTTAAGG
Found at i:11437388 original size:34 final size:35
Alignment explanation
Indices: 11437339--11437414 Score: 120
Period size: 34 Copynumber: 2.2 Consensus size: 35
11437329 ACAATATTAT
11437339 TTTAAAAAGAACTAAACCCAAATTTAATTAATTT-
1 TTTAAAAAGAACTAAACCCAAATTTAATTAATTTA
*
11437373 TCTTAAAAA-AACTAAACCCAAATTTATTTAATTTA
1 T-TTAAAAAGAACTAAACCCAAATTTAATTAATTTA
11437408 TTTAAAA
1 TTTAAAA
11437415 CTCTAAATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
34 31 0.79
35 8 0.21
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.37
Consensus pattern (35 bp):
TTTAAAAAGAACTAAACCCAAATTTAATTAATTTA
Found at i:11437528 original size:15 final size:15
Alignment explanation
Indices: 11437508--11437542 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
11437498 TTATTTTAAC
* *
11437508 AAAACCCTAACCCTA
1 AAAACCCTAAACCAA
11437523 AAAACCCTAAACCAA
1 AAAACCCTAAACCAA
11437538 AAAAC
1 AAAAC
11437543 TTAGGGACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.34, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAACCCTAAACCAA
Found at i:11438336 original size:17 final size:18
Alignment explanation
Indices: 11438316--11438349 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11438306 ATTATTTTTA
11438316 AAAAAACTTTA-AAAATT
1 AAAAAACTTTATAAAATT
*
11438333 AAAAAAGTTTATAAAAT
1 AAAAAACTTTATAAAAT
11438350 ATTAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAAACTTTATAAAATT
Found at i:11443273 original size:30 final size:32
Alignment explanation
Indices: 11443214--11443273 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
11443204 GAATATTAGA
* * *
11443214 ATATTATATCTTAATTATTAAGTATATATATT
1 ATATTATATATTAATTAATAAGTAAATATATT
11443246 ATATTATATATT-A-TAATAAGTAAATATA
1 ATATTATATATTAATTAATAAGTAAATATA
11443274 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.52
31 1 0.04
32 11 0.44
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (32 bp):
ATATTATATATTAATTAATAAGTAAATATATT
Found at i:11443323 original size:26 final size:25
Alignment explanation
Indices: 11443280--11443348 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 25
11443270 TATAATAAAT
*
11443280 AAAAGAAACAAAAAGAAATAGAAAGA
1 AAAAGAAA-GAAAAGAAATAGAAAGA
* * **
11443306 AACAGAATAGAAACGAAATAGGGAGA
1 AAAAGAA-AGAAAAGAAATAGAAAGA
11443332 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
11443349 AAGGGAAAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
25 9 0.26
26 25 0.71
27 1 0.03
ACGTcount: A:0.71, C:0.04, G:0.20, T:0.04
Consensus pattern (25 bp):
AAAAGAAAGAAAAGAAATAGAAAGA
Found at i:11443347 original size:15 final size:14
Alignment explanation
Indices: 11443329--11443371 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 14
11443319 CGAAATAGGG
11443329 AGAAAAAGAAAGAAA
1 AGAAAAAGAAAG-AA
11443344 AGAAAAAGGGAAAGAA
1 AGAAAAA--GAAAGAA
11443360 AGAAAGAAGAAA
1 AGAAA-AAGAAA
11443372 TTAGGGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 11 0.44
16 7 0.28
17 7 0.28
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AGAAAAAGAAAGAA
Found at i:11444087 original size:11 final size:11
Alignment explanation
Indices: 11444071--11444095 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11444061 TGAATTGGTA
11444071 TATATATTGAT
1 TATATATTGAT
11444082 TATATATTGAT
1 TATATATTGAT
11444093 TAT
1 TAT
11444096 TTGAATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (11 bp):
TATATATTGAT
Found at i:11444527 original size:20 final size:20
Alignment explanation
Indices: 11444502--11444541 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
11444492 TTGAATATGG
11444502 TATGGAAAAAGCAATTGCAT
1 TATGGAAAAAGCAATTGCAT
*
11444522 TATGGATAAAGCAATTGCAT
1 TATGGAAAAAGCAATTGCAT
11444542 AAATGAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (20 bp):
TATGGAAAAAGCAATTGCAT
Found at i:11445617 original size:58 final size:58
Alignment explanation
Indices: 11445523--11445661 Score: 190
Period size: 58 Copynumber: 2.4 Consensus size: 58
11445513 GGTGTTACAC
* * * * *
11445523 GTAAGACCATGGATGAAAGATGTCATGGTAGCAAGGTA-AATGGTATAATGTATATGGT
1 GTAAGACCATGGATGAAAGACGTCATGGCAGCAAGGTATAAT-GAATAAGGTATACGGT
*
11445581 GTAAGACCATGGATGAAAGACGTCATGGCAGTAAGGTATAATGAATAAGGTATACGGT
1 GTAAGACCATGGATGAAAGACGTCATGGCAGCAAGGTATAATGAATAAGGTATACGGT
* *
11445639 GTAAGACTATAGATGAAAGACGT
1 GTAAGACCATGGATGAAAGACGT
11445662 TATGACGACC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
58 69 0.96
59 3 0.04
ACGTcount: A:0.38, C:0.09, G:0.29, T:0.24
Consensus pattern (58 bp):
GTAAGACCATGGATGAAAGACGTCATGGCAGCAAGGTATAATGAATAAGGTATACGGT
Found at i:11453175 original size:17 final size:18
Alignment explanation
Indices: 11453149--11453187 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
11453139 GCTTATATAA
* *
11453149 GAAATTTTTTTA-CTGTT
1 GAAATCTTTTTAGCGGTT
11453166 GAAATCTTTTTAGCGGTT
1 GAAATCTTTTTAGCGGTT
11453184 GAAA
1 GAAA
11453188 AAGTTACCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.46
Consensus pattern (18 bp):
GAAATCTTTTTAGCGGTT
Found at i:11457277 original size:33 final size:33
Alignment explanation
Indices: 11457236--11457304 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
11457226 TGTTAACGGT
*
11457236 TAAATTTATTAAGTTTTTGCCATTCCTAAAGTC
1 TAAATTTATTAAGTTTTTGCCATTCCTAAAATC
* *
11457269 TAAATTTATTAAGTTTTTGCTATTCTTAAAATC
1 TAAATTTATTAAGTTTTTGCCATTCCTAAAATC
11457302 TAA
1 TAA
11457305 TGTGACAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (33 bp):
TAAATTTATTAAGTTTTTGCCATTCCTAAAATC
Found at i:11470321 original size:31 final size:31
Alignment explanation
Indices: 11470278--11470338 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
11470268 ATCATTAAAT
* *
11470278 TATTTAAAAATTTTCATTCAAGTTATTGAAC
1 TATTCAAAAATTTTAATTCAAGTTATTGAAC
*
11470309 TATTCAAAAATTTTAATTTAAGTTATTGAA
1 TATTCAAAAATTTTAATTCAAGTTATTGAA
11470339 ATGTAAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (31 bp):
TATTCAAAAATTTTAATTCAAGTTATTGAAC
Found at i:11477993 original size:18 final size:20
Alignment explanation
Indices: 11477970--11478007 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
11477960 ACATGACAAA
11477970 AATAAA-ATTTTAAT-TTTT
1 AATAAACATTTTAATATTTT
11477988 AATAAACATTTTAATATTTT
1 AATAAACATTTTAATATTTT
11478008 GTTACATGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
AATAAACATTTTAATATTTT
Found at i:11484265 original size:12 final size:12
Alignment explanation
Indices: 11484250--11484279 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11484240 AATTTGAATT
11484250 TTATTTTTAGGA
1 TTATTTTTAGGA
*
11484262 TTATTGTTAGGA
1 TTATTTTTAGGA
11484274 TTATTT
1 TTATTT
11484280 CGATATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (12 bp):
TTATTTTTAGGA
Found at i:11488098 original size:15 final size:17
Alignment explanation
Indices: 11488080--11488112 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11488070 AACCAGATAC
11488080 TATTTA-AT-TATTTTT
1 TATTTATATATATTTTT
11488095 TATTTATATATATTTTT
1 TATTTATATATATTTTT
11488112 T
1 T
11488113 TGTTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 2 0.12
17 8 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTTATATATATTTTT
Found at i:11488666 original size:21 final size:21
Alignment explanation
Indices: 11488627--11488680 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
11488617 TAAGTTCTGT
* *
11488627 GGATATTTAAGGGTAATTTGG
1 GGATATTTTAGAGTAATTTGG
* *
11488648 GGATATTTTAGAGTGATTTTG
1 GGATATTTTAGAGTAATTTGG
*
11488669 GGCTA-TTTAGAG
1 GGATATTTTAGAG
11488681 GACGACATTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.26, C:0.02, G:0.31, T:0.41
Consensus pattern (21 bp):
GGATATTTTAGAGTAATTTGG
Found at i:11488912 original size:22 final size:22
Alignment explanation
Indices: 11488884--11488928 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
11488874 ACTTTCGATC
*
11488884 ACCCACAAATAGTTTTTAAATG
1 ACCCACAAATAGTTTCTAAATG
11488906 ACCCACAAATAGTTTCTAAATG
1 ACCCACAAATAGTTTCTAAATG
11488928 A
1 A
11488929 TTGTAGGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (22 bp):
ACCCACAAATAGTTTCTAAATG
Found at i:11501511 original size:26 final size:26
Alignment explanation
Indices: 11501481--11501532 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
11501471 AGAATACTTG
*
11501481 AACCTTAACTTTTGCTAGACTTGTGT
1 AACCTCAACTTTTGCTAGACTTGTGT
*
11501507 AACCTCAACTTTTGCTGGACTTGTGT
1 AACCTCAACTTTTGCTAGACTTGTGT
11501533 GCACTTGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (26 bp):
AACCTCAACTTTTGCTAGACTTGTGT
Found at i:11503680 original size:27 final size:28
Alignment explanation
Indices: 11503626--11503680 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
11503616 ACACTTTCAA
* *
11503626 TTTTGACATGGATTAAATTTCCCTATTT
1 TTTTGACAGGGATTAAATTTCCCAATTT
* *
11503654 TTTTGA-AGGGATTAATTTTCTCAATTT
1 TTTTGACAGGGATTAAATTTCCCAATTT
11503681 CAGTCGATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (28 bp):
TTTTGACAGGGATTAAATTTCCCAATTT
Found at i:11514463 original size:4 final size:4
Alignment explanation
Indices: 11514456--11514489 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
11514446 AATTCAACAC
*
11514456 CATA CATA TATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CATA CA
11514490 AATGGTGCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:11515053 original size:31 final size:31
Alignment explanation
Indices: 11514993--11515060 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
11514983 TTACAATTTG
* *
11514993 ATCACTGAACTCCTTGAAACTTTTCATTTAA
1 ATCACTGAACTACTTAAAACTTTTCATTTAA
* * * *
11515024 GTCACTGAACTATTTAAAAGTTTTTATTTAA
1 ATCACTGAACTACTTAAAACTTTTCATTTAA
11515055 ATCACT
1 ATCACT
11515061 AGGTTGTTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.41
Consensus pattern (31 bp):
ATCACTGAACTACTTAAAACTTTTCATTTAA
Found at i:11524139 original size:2 final size:2
Alignment explanation
Indices: 11524132--11524183 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
11524122 ATCGATTTTC
11524132 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11524174 CT CT CT CT CT
1 CT CT CT CT CT
11524184 ATCTATCTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:11525100 original size:31 final size:31
Alignment explanation
Indices: 11525065--11525129 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
11525055 AATGGCCTAA
11525065 TGACTT-AATCAAAAAGT-TTCAAATAGTTCAG
1 TGACTTAAAT-AAAAAGTCTT-AAATAGTTCAG
* *
11525096 TGACTTAAATGAAAAGTCTTGAATAGTTCAG
1 TGACTTAAATAAAAAGTCTTAAATAGTTCAG
11525127 TGA
1 TGA
11525130 TCATTTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 25 0.83
32 5 0.17
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (31 bp):
TGACTTAAATAAAAAGTCTTAAATAGTTCAG
Found at i:11527054 original size:41 final size:40
Alignment explanation
Indices: 11526968--11527053 Score: 129
Period size: 40 Copynumber: 2.1 Consensus size: 40
11526958 AACAAAGAAT
* *
11526968 AAAAAGGAAAACTAAAAAATTGCCTATGAATTTAAGCTTG
1 AAAAAAGAAAACCAAAAAATTGCCTATGAATTTAAGCTTG
*
11527008 AAAAAAGAAAACCCAAAAATTAG-CTATGAATTTAAGCTTG
1 AAAAAAGAAAACCAAAAAATT-GCCTATGAATTTAAGCTTG
11527048 AAAAAA
1 AAAAAA
11527054 ACTGAAATCA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
40 41 0.98
41 1 0.02
ACGTcount: A:0.55, C:0.10, G:0.13, T:0.22
Consensus pattern (40 bp):
AAAAAAGAAAACCAAAAAATTGCCTATGAATTTAAGCTTG
Found at i:11527310 original size:16 final size:16
Alignment explanation
Indices: 11527289--11527319 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11527279 GGCTAGGATA
11527289 GGAAAAAGAAAAAGAG
1 GGAAAAAGAAAAAGAG
*
11527305 GGAAAATGAAAAAGA
1 GGAAAAAGAAAAAGA
11527320 AAATAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (16 bp):
GGAAAAAGAAAAAGAG
Found at i:11539656 original size:86 final size:87
Alignment explanation
Indices: 11539508--11539673 Score: 289
Period size: 86 Copynumber: 1.9 Consensus size: 87
11539498 TTATCCTTTG
*
11539508 GGTTGATTTAGTTTGCTGTTAGACACATGTAAAGGTGACGACTTTTCATGATCTGTGCATAGTCA
1 GGTTGATTTAGTTTGCTGTTAGACACATGTAAAGGTGACGACTTCTCATGATCTGTGCATAGTCA
11539573 TTTCTAG-AAATTTTCTTTTTT
66 TTTCTAGAAAATTTTCTTTTTT
* * *
11539594 GGTTGATTTAGTTTGCTGTTAGAGACATGTAAAGGTGACGACTTCTCATGATCTTTGGATAGTCA
1 GGTTGATTTAGTTTGCTGTTAGACACATGTAAAGGTGACGACTTCTCATGATCTGTGCATAGTCA
11539659 TTTCTAGAAAATTTT
66 TTTCTAGAAAATTTT
11539674 TGGGGTCGAT
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
86 68 0.91
87 7 0.09
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (87 bp):
GGTTGATTTAGTTTGCTGTTAGACACATGTAAAGGTGACGACTTCTCATGATCTGTGCATAGTCA
TTTCTAGAAAATTTTCTTTTTT
Found at i:11546455 original size:16 final size:16
Alignment explanation
Indices: 11546422--11546455 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11546412 TGTTGATGTT
* *
11546422 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
11546438 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
11546454 AA
1 AA
11546456 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:11549280 original size:21 final size:21
Alignment explanation
Indices: 11549254--11549294 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11549244 AGACGAGCAA
* *
11549254 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
11549275 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
11549295 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:11551230 original size:16 final size:16
Alignment explanation
Indices: 11551197--11551230 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11551187 GGAGATTGTT
* *
11551197 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
11551213 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
11551229 AA
1 AA
11551231 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:11561628 original size:29 final size:29
Alignment explanation
Indices: 11561584--11561642 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
11561574 TCAAGGGAAA
11561584 GTACGCAATGCACGACGAGAGGTGCAAAT
1 GTACGCAATGCACGACGAGAGGTGCAAAT
*
11561613 GTACGCAATGCGCGACGAGAGGTGCAAAT
1 GTACGCAATGCACGACGAGAGGTGCAAAT
11561642 G
1 G
11561643 GAAAATCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.20, G:0.34, T:0.14
Consensus pattern (29 bp):
GTACGCAATGCACGACGAGAGGTGCAAAT
Found at i:11565209 original size:46 final size:46
Alignment explanation
Indices: 11565156--11565493 Score: 397
Period size: 46 Copynumber: 7.3 Consensus size: 46
11565146 TGACAAGTGG
* * *
11565156 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAT
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
*
11565202 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
*
11565248 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
11565294 AAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* *
11565346 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
** *
11565398 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
**
11565444 AAAGTG-T---T-A-AG--T-GGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
11565481 AAAGTGATAAGTG
1 AAAGTGATAAGTG
11565494 GCTACACTTA
Statistics
Matches: 268, Mismatches: 13, Indels: 26
0.87 0.04 0.08
Matches are distributed among these distances:
37 29 0.11
38 2 0.01
40 2 0.01
41 2 0.01
42 1 0.00
45 1 0.00
46 137 0.51
52 94 0.35
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
Found at i:11565313 original size:52 final size:51
Alignment explanation
Indices: 11565248--11565445 Score: 289
Period size: 52 Copynumber: 3.9 Consensus size: 51
11565238 ATCAAGTGAC
*
11565248 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGT-G
* *
11565300 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* *
11565351 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
*
11565398 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
11565446 AGTGTTAAGT
Statistics
Matches: 137, Mismatches: 6, Indels: 10
0.90 0.04 0.07
Matches are distributed among these distances:
46 43 0.31
51 1 0.01
52 93 0.68
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
Found at i:11565321 original size:98 final size:94
Alignment explanation
Indices: 11565156--11565456 Score: 403
Period size: 98 Copynumber: 3.1 Consensus size: 94
11565146 TGACAAGTGG
*
11565156 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG--ATAAAGTGATAAGTGATAG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACATAAAGTGATAAGTGATAG
*
11565219 CTTCGGCTATACTTATCTGATCAAGTGAC
66 CTTCGGCTACACTTATCTGATCAAGTGAC
* *
11565248 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-A-T--AAAGTGATAAGTG
11565313 ATAGCTTCGGCTACACTTATCTGATCAAGTGAC
62 ATAGCTTCGGCTACACTTATCTGATCAAGTGAC
*
11565346 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--AAAGTGATAAG
1 ------AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACATAAAGTGATAAG
** *
11565409 TGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
60 TGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
*
11565444 AAAGTGTTAAGTG
1 AAAGTGATAAGTG
11565457 GCTACACTTA
Statistics
Matches: 186, Mismatches: 11, Indels: 24
0.84 0.05 0.11
Matches are distributed among these distances:
92 53 0.28
95 1 0.01
96 1 0.01
98 88 0.47
104 43 0.23
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (94 bp):
AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACATAAAGTGATAAGTGATAG
CTTCGGCTACACTTATCTGATCAAGTGAC
Found at i:11565461 original size:37 final size:37
Alignment explanation
Indices: 11565420--11565565 Score: 224
Period size: 37 Copynumber: 4.0 Consensus size: 37
11565410 GATAGCTTTA
* *
11565420 GCTACACTTATCTGATCAAGAGACAAAGTGTTAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
11565457 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
11565494 GCTACACTTATGTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
11565531 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
11565566 ATCATACGTA
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 86 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:11565509 original size:150 final size:143
Alignment explanation
Indices: 11565194--11565461 Score: 369
Period size: 150 Copynumber: 1.8 Consensus size: 143
11565184 CTTATCTGAT
*
11565194 CAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAG
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAG
* * *
11565259 TGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGC
65 TGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-----GAAAGTGATAAGTG--AGCTACGAC
* * *
11565324 TACACTTATCTGATCAAGTGA
123 TACACTGATCAGAACAAGTGA
11565345 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
* *
11565410 GATAGCTTTAGCTACACTTATCTGATCAAGAGAC-AAAGTGTTAAGTG-GCTAC
66 GATAGCTTCAGCTACACTTATCTGATCAAGAGACGAAAGTGATAAGTGAGCTAC
11565462 ACTTATCTGA
Statistics
Matches: 112, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
141 4 0.04
144 12 0.11
150 89 0.79
151 7 0.06
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (143 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
GATAGCTTCAGCTACACTTATCTGATCAAGAGACGAAAGTGATAAGTGAGCTACGACTACACTGA
TCAGAACAAGTGA
Found at i:11567598 original size:21 final size:21
Alignment explanation
Indices: 11567545--11567604 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
11567535 TATAATAGTT
11567545 TAATATAACATATATATTACAG
1 TAATATAA-ATATATATTACAG
*
11567567 TTAACAT-AATATATATTACA-
1 -TAATATAAATATATATTACAG
11567587 TACATATAAATATGATAT
1 TA-ATATAAATAT-ATAT
11567605 GACCGTCCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 2 0.06
20 3 0.09
21 17 0.53
22 5 0.16
23 5 0.16
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.38
Consensus pattern (21 bp):
TAATATAAATATATATTACAG
Found at i:11568430 original size:138 final size:138
Alignment explanation
Indices: 11568181--11568595 Score: 794
Period size: 138 Copynumber: 3.0 Consensus size: 138
11568171 ATAACTCCCT
* *
11568181 CTAGAAAGGTAGATGATTGTGATTTCTTCCTTAGTCATTTGCACCATTGCGTTTCCCTACAGCTC
1 CTAGAAAGGTAGATGATTGTGATTTCTTCCTTAGTCGTTTGCACCATCGCGTTTCCCTACAGCTC
11568246 GACATATGTATCGTATCTACAAGAGACCCAGAATCTTGGCCGCTATTGAATAACCTGGTAGCCTT
66 GACATATGTATCGTATCTACAAGAGACCCAGAATCTTGGCCGCTATTGAATAACCTGGTAGCCTT
11568311 TGAGATCA
131 TGAGATCA
11568319 CTAGAAAGGTAGATGATTGTGATTTCTTCCTTAGTCGTTTGCACCATCGCGTTTCCCTACAGCTC
1 CTAGAAAGGTAGATGATTGTGATTTCTTCCTTAGTCGTTTGCACCATCGCGTTTCCCTACAGCTC
*
11568384 GACATATGTATCGTATCTACAAGAGACCCAGAATCTTGGCCTCTATTGAATAACCTGGTAGCCTT
66 GACATATGTATCGTATCTACAAGAGACCCAGAATCTTGGCCGCTATTGAATAACCTGGTAGCCTT
11568449 TGAGATCA
131 TGAGATCA
11568457 CTAGAAAGGTAGATGATTGTGATTTCTTCCTTAGTCGTTTGCACCATCGCGTTTCCCTACAGCTC
1 CTAGAAAGGTAGATGATTGTGATTTCTTCCTTAGTCGTTTGCACCATCGCGTTTCCCTACAGCTC
11568522 GACATATGTATCGTATCTACAAGAGACCCAGAATCTTGGCCGCTATTGAATAACCTGGTAGCCTT
66 GACATATGTATCGTATCTACAAGAGACCCAGAATCTTGGCCGCTATTGAATAACCTGGTAGCCTT
*
11568587 TGGGATCA
131 TGAGATCA
11568595 C
1 C
11568596 ACACACCATA
Statistics
Matches: 272, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 272 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (138 bp):
CTAGAAAGGTAGATGATTGTGATTTCTTCCTTAGTCGTTTGCACCATCGCGTTTCCCTACAGCTC
GACATATGTATCGTATCTACAAGAGACCCAGAATCTTGGCCGCTATTGAATAACCTGGTAGCCTT
TGAGATCA
Found at i:11573048 original size:16 final size:16
Alignment explanation
Indices: 11573027--11573058 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11573017 TAATGTGTTT
11573027 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
11573043 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
11573059 ATGCAGAATG
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:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:11573435 original size:45 final size:45
Alignment explanation
Indices: 11573172--11573413 Score: 403
Period size: 45 Copynumber: 5.4 Consensus size: 45
11573162 AAGAGGTGGA
** * * *
11573172 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
11573217 CAACATCATGCATAATTTATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
*
11573262 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
11573307 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
* *
11573352 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
11573397 CAACATCATGCATAATT
1 CAACATCATGCATAATT
11573414 TAAAGAACAA
Statistics
Matches: 188, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 188 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:11579323 original size:111 final size:113
Alignment explanation
Indices: 11579185--11579412 Score: 264
Period size: 117 Copynumber: 2.0 Consensus size: 113
11579175 ATATTTTTCC
* * * *
11579185 CCTTTTAATAAAAATTATAATTTTTTTAAAACGAAAATATAACTCAAATAAATAGT-A-ATTTTC
1 CCTTTCAATAAAAATTATAATTATTTTAAAACGAAAATATAAATAAAATAAATAGTAATATTTTC
11579248 TATTATTACTAACAGCATAATTATTACAATACTTAATTATGTCTTTTTG
66 -ATTATTACTAACAGCATAATTATTACAATACTTAATTATGTCTTTTTG
* * * ** *
11579297 CCTTTCAA-AAAAATTATGATTATTTTAATATGTTAATATAAATAAAATATATAGTAATGCAAAT
1 CCTTTCAATAAAAATTATAATTATTTTAAAACGAAAATATAAATAAAATAAATAGTAAT----AT
* **
11579361 TTTGCATTATTACTAATATTATAATTATTACAATACTTAATTATGTCTTTTT
62 TTT-CATTATTACTAACAGCATAATTATTACAATACTTAATTATGTCTTTTT
11579413 CTTTTTCTTT
Statistics
Matches: 96, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
111 38 0.40
112 8 0.08
117 49 0.51
118 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (113 bp):
CCTTTCAATAAAAATTATAATTATTTTAAAACGAAAATATAAATAAAATAAATAGTAATATTTTC
ATTATTACTAACAGCATAATTATTACAATACTTAATTATGTCTTTTTG
Found at i:11586228 original size:15 final size:15
Alignment explanation
Indices: 11586208--11586236 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11586198 TAATAGTAAA
11586208 AATAGATGAATTTTT
1 AATAGATGAATTTTT
11586223 AATAGATGAATTTT
1 AATAGATGAATTTT
11586237 GTTTGTTCTT
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:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (15 bp):
AATAGATGAATTTTT
Found at i:11587364 original size:21 final size:21
Alignment explanation
Indices: 11587324--11587364 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11587314 TCAAAAATAG
**
11587324 GCCTTGATTGAGTTTTTTTTT
1 GCCTTGATTGAGTTGATTTTT
*
11587345 GCCTTGATTTAGTTGATTTT
1 GCCTTGATTGAGTTGATTTT
11587365 GATTCTTCAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.10, G:0.20, T:0.59
Consensus pattern (21 bp):
GCCTTGATTGAGTTGATTTTT
Found at i:11588117 original size:17 final size:16
Alignment explanation
Indices: 11588093--11588131 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
11588083 TAATGAGTGT
11588093 AGAG-AAGAAATGAAAA
1 AGAGAAAGAAA-GAAAA
11588109 AGAGAAAGAAAGAAAA
1 AGAGAAAGAAAGAAAA
11588125 AG-GAAAG
1 AGAGAAAG
11588132 TTCTTTTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.23
16 11 0.50
17 6 0.27
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (16 bp):
AGAGAAAGAAAGAAAA
Found at i:11595453 original size:29 final size:27
Alignment explanation
Indices: 11595397--11595454 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
11595387 AGATTTTAAA
*
11595397 ATAAATATATTTAAAAATAATGAGAAT
1 ATAAATATATTTAAAAATAATAAGAAT
* *
11595424 ATAAATATATATTTAAAATAATTAATAAT
1 ATAAATATAT-TTAAAAATAA-TAAGAAT
11595453 AT
1 AT
11595455 CCTTTACGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 10 0.38
28 9 0.35
29 7 0.27
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (27 bp):
ATAAATATATTTAAAAATAATAAGAAT
Found at i:11595738 original size:2 final size:2
Alignment explanation
Indices: 11595731--11595766 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
11595721 AAGTTTATGC
11595731 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11595767 TTGTCTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:11605854 original size:19 final size:20
Alignment explanation
Indices: 11605813--11605855 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11605803 AACTTTAGCC
*
11605813 TTTTTTATATGAATCTTAAT
1 TTTTTTATATAAATCTTAAT
*
11605833 TTTTTTATCTAAAT-TT-AT
1 TTTTTTATATAAATCTTAAT
11605851 TTTTT
1 TTTTT
11605856 AAGCTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 2 0.10
20 12 0.57
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTTTATATAAATCTTAAT
Found at i:11607143 original size:3 final size:3
Alignment explanation
Indices: 11607135--11607159 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11607125 ACCCCCACGC
11607135 CAA CAA CAA CAA CAA CAA CAA CAA C
1 CAA CAA CAA CAA CAA CAA CAA CAA C
11607160 CAGGGAGCTT
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:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:11617708 original size:43 final size:43
Alignment explanation
Indices: 11617660--11617753 Score: 179
Period size: 43 Copynumber: 2.2 Consensus size: 43
11617650 ATTGTCCCAA
11617660 ACCACAAATTTCGACACGTGAAACTTATCTTTTCAACTGCAAC
1 ACCACAAATTTCGACACGTGAAACTTATCTTTTCAACTGCAAC
11617703 ACCACAAATTTCGACACGTGAAACTTATCTTTTCAACTGCAAC
1 ACCACAAATTTCGACACGTGAAACTTATCTTTTCAACTGCAAC
*
11617746 ACCTCAAA
1 ACCACAAA
11617754 GAGATAAACA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.36, C:0.29, G:0.09, T:0.27
Consensus pattern (43 bp):
ACCACAAATTTCGACACGTGAAACTTATCTTTTCAACTGCAAC
Done.