Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold60
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: 3815296
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 18690 characters in sequence are not A, C, G, or T
File 11 of 21
Found at i:1530450 original size:2 final size:2
Alignment explanation
Indices: 1530445--1530481 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
1530435 AAAAAAAAAA
1530445 AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG -G AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1530482 AAAGCAACGT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1530694 original size:13 final size:13
Alignment explanation
Indices: 1530676--1530708 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
1530666 TAAATATATA
1530676 TTATTTATAAATT
1 TTATTTATAAATT
1530689 TTATTTATAAATT
1 TTATTTATAAATT
1530702 TT-TTTAT
1 TTATTTAT
1530709 TATTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTTATAAATT
Found at i:1530835 original size:17 final size:17
Alignment explanation
Indices: 1530801--1530834 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1530791 ATTTAATTAA
*
1530801 AATTTATTTTTTATTTT
1 AATTTATTTTATATTTT
1530818 AATTTATTATTATATTT
1 AATTTATT-TTATATTT
1530835 ACAAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
AATTTATTTTATATTTT
Found at i:1531825 original size:13 final size:14
Alignment explanation
Indices: 1531798--1531827 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1531788 TATTTAAATT
1531798 AAATAAAATTTAAA
1 AAATAAAATTTAAA
1531812 AAATAAAA-TTAAA
1 AAATAAAATTTAAA
1531825 AAA
1 AAA
1531828 AATAGTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAAAATTTAAA
Found at i:1531828 original size:14 final size:14
Alignment explanation
Indices: 1531798--1531828 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1531788 TATTTAAATT
*
1531798 AAATAAAATTTAAA
1 AAATAAAATTAAAA
1531812 AAATAAAATTAAAA
1 AAATAAAATTAAAA
1531826 AAA
1 AAA
1531829 ATAGTGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAAAATTAAAA
Found at i:1533518 original size:19 final size:19
Alignment explanation
Indices: 1533494--1533533 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
1533484 GGACTTTCCC
1533494 AATTATTTTTT-TAATTTTT
1 AATTATTTTTTCT-ATTTTT
1533513 AATTATTTTTTCTATTTTT
1 AATTATTTTTTCTATTTTT
1533532 AA
1 AA
1533534 GTGTTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (19 bp):
AATTATTTTTTCTATTTTT
Found at i:1534757 original size:2 final size:2
Alignment explanation
Indices: 1534750--1534782 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1534740 TATGTCGTGT
1534750 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1534783 TTAAGGAGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1534844 original size:62 final size:62
Alignment explanation
Indices: 1534720--1534844 Score: 207
Period size: 62 Copynumber: 2.0 Consensus size: 62
1534710 TATTCTATTT
* *
1534720 TTTAAGTAGTCATCAGTTCCTATGTCGTGTTATATATATATATATATATATATATATATATA
1 TTTAAGGAGTCATCAGTTCCTATGTCGTGTTATATATATATATATATATATAAATATATATA
*
1534782 TTTAAGGAGTCATCAGTTCCTATGTTGTGTTATATATATATATATATATATAAA-ATATTATA
1 TTTAAGGAGTCATCAGTTCCTATGTCGTGTTATATATATATATATATATATAAATATA-TATA
1534844 T
1 T
1534845 CTGTTACGTA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 3 0.05
62 56 0.95
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.46
Consensus pattern (62 bp):
TTTAAGGAGTCATCAGTTCCTATGTCGTGTTATATATATATATATATATATAAATATATATA
Found at i:1539209 original size:4 final size:4
Alignment explanation
Indices: 1539200--1539227 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
1539190 AAGTAGGGGG
1539200 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1539228 AAAAAGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:1539746 original size:50 final size:51
Alignment explanation
Indices: 1539689--1539785 Score: 135
Period size: 49 Copynumber: 1.9 Consensus size: 51
1539679 GTTTTACAAT
* *
1539689 TTAAATTAAATGATATTAATTTAATTA-ATAAATTTAT-TTAAAAAAATTAA
1 TTAAATT-AATAATATTAAATTAATTACATAAATTTATATTAAAAAAATTAA
**
1539739 TTAAATTAATAATATTAAATTAATTACATATTTTTATATTAAAAAAA
1 TTAAATTAATAATATTAAATTAATTACATAAATTTATATTAAAAAAA
1539786 GACTAACATA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
49 17 0.41
50 15 0.37
51 9 0.22
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (51 bp):
TTAAATTAATAATATTAAATTAATTACATAAATTTATATTAAAAAAATTAA
Found at i:1539763 original size:18 final size:17
Alignment explanation
Indices: 1539703--1539764 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
1539693 ATTAAATGAT
*
1539703 ATTAATTTAATTAATAA
1 ATTAAATTAATTAATAA
* *
1539720 ATTTATTTAA--AA-AA
1 ATTAAATTAATTAATAA
1539734 ATT-AATTAAATTAATAA
1 ATTAAATT-AATTAATAA
1539751 TATTAAATTAATTA
1 -ATTAAATTAATTA
1539765 CATATTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
13 3 0.08
14 7 0.19
15 2 0.05
16 2 0.05
17 11 0.30
18 8 0.22
19 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTAAATTAATTAATAA
Found at i:1539783 original size:49 final size:49
Alignment explanation
Indices: 1539689--1539784 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 49
1539679 GTTTTACAAT
* *
1539689 TTAAATTAAATGATATTAATTTAATTAATAAATTTATTTAAAAAAATTAA
1 TTAAATTAAATAATATTAAATTAATTAATAAATTTATTT-AAAAAATTAA
**
1539739 TTAAATT-AATAATATTAAATTAATTACATATTTTTATATTAAAAAA
1 TTAAATTAAATAATATTAAATTAATTA-ATAAATTTAT-TTAAAAAA
1539785 AGACTAACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
49 17 0.43
50 21 0.52
51 2 0.05
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (49 bp):
TTAAATTAAATAATATTAAATTAATTAATAAATTTATTTAAAAAATTAA
Found at i:1555051 original size:24 final size:24
Alignment explanation
Indices: 1555024--1555073 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
1555014 ATTAATGGAA
*
1555024 ATATAATAAAATTAAATAAAATTT
1 ATATAATAAAATGAAATAAAATTT
* * *
1555048 ATATAATCATATGATATAAAATTT
1 ATATAATAAAATGAAATAAAATTT
1555072 AT
1 AT
1555074 CTTTAAGATC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATAATAAAATGAAATAAAATTT
Found at i:1555308 original size:25 final size:26
Alignment explanation
Indices: 1555261--1555317 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
1555251 TGTTAGTATC
*
1555261 ATTTTTTATATTGTATTGTGTTTTATA
1 ATTTTTTATATTGTATTGAGTTTT-TA
*
1555288 ATTTTTTAT-TT-TTTTGAGTTTTTA
1 ATTTTTTATATTGTATTGAGTTTTTA
*
1555312 AATTTT
1 ATTTTT
1555318 GATACGTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 7 0.26
25 9 0.33
26 2 0.07
27 9 0.33
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (26 bp):
ATTTTTTATATTGTATTGAGTTTTTA
Found at i:1555615 original size:25 final size:26
Alignment explanation
Indices: 1555568--1555624 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
1555558 TGTTAGTATT
*
1555568 ATTTTTTATATTGTATTGTGTTTTATA
1 ATTTTTTATATTGTATTGAGTTTT-TA
*
1555595 ATTTTTTAT-TT-TTTTGAGTTTTTA
1 ATTTTTTATATTGTATTGAGTTTTTA
*
1555619 AATTTT
1 ATTTTT
1555625 GATACGATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 7 0.26
25 9 0.33
26 2 0.07
27 9 0.33
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (26 bp):
ATTTTTTATATTGTATTGAGTTTTTA
Found at i:1555752 original size:307 final size:307
Alignment explanation
Indices: 1555198--1555774 Score: 1091
Period size: 307 Copynumber: 1.9 Consensus size: 307
1555188 ATAAATTTTA
1555198 ATATTTTAATAATTTATGTTATTTAAATTTTAAATATAAATAAATTCGTGTCATGTTAGTATCAT
1 ATATTTTAATAATTTATGTTATTTAAATTTTAAATATAAATAAATTCGTGTCATGTTAGTATCAT
*
1555263 TTTTTATATTGTATTGTGTTTTATAATTTTTTATTTTTTTGAGTTTTTAAATTTTGATACGTTTA
66 TTTTTATATTGTATTGTGTTTTATAATTTTTTATTTTTTTGAGTTTTTAAATTTTGATACGATTA
*
1555328 TTATGTCATGCTTTAATTATTTTTTAATATTATATTTATATTTTATAATCATATAATAATTTCAT
131 TTATGTCATACTTTAATTATTTTTTAATATTATATTTATATTTTATAATCATATAATAATTTCAT
* *
1555393 ATTATGTTATAAGAATTTACGTTACGTGTCATATAATAATTAAATTTTATTATTTATCTAAATTA
196 ATTATGTTATAAGAATTTACGTTACGTGCCATATAATAATTAAAATTTATTATTTATCTAAATTA
1555458 AATTTGATAATTTTAATAATTTAATAAATTCTGCCATATTACGTGCC
261 AATTTGATAATTTTAATAATTTAATAAATTCTGCCATATTACGTGCC
*
1555505 ATATTTTAATAATTTATGTTATTTAAATTTTAAATATAAATAAATTCGTGTCATGTTAGTATTAT
1 ATATTTTAATAATTTATGTTATTTAAATTTTAAATATAAATAAATTCGTGTCATGTTAGTATCAT
*
1555570 TTTTTATATTGTATTGTGTTTTATAATTTTTTATTTTTTTGAGTTTTTAAATTTTGATACGATTG
66 TTTTTATATTGTATTGTGTTTTATAATTTTTTATTTTTTTGAGTTTTTAAATTTTGATACGATTA
*
1555635 TTATGTCATATTTTAATTATTTTTTAATATTATATTTATATTTTATAATCATATAATAATTTCAT
131 TTATGTCATACTTTAATTATTTTTTAATATTATATTTATATTTTATAATCATATAATAATTTCAT
1555700 ATTATGTTATAAGAATTTACGTTACGTGCCATATAATAATTAAAATTTATTATTTATCTAAATTA
196 ATTATGTTATAAGAATTTACGTTACGTGCCATATAATAATTAAAATTTATTATTTATCTAAATTA
1555765 AATTTGATAA
261 AATTTGATAA
1555775 CTATATTTTA
Statistics
Matches: 263, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
307 263 1.00
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (307 bp):
ATATTTTAATAATTTATGTTATTTAAATTTTAAATATAAATAAATTCGTGTCATGTTAGTATCAT
TTTTTATATTGTATTGTGTTTTATAATTTTTTATTTTTTTGAGTTTTTAAATTTTGATACGATTA
TTATGTCATACTTTAATTATTTTTTAATATTATATTTATATTTTATAATCATATAATAATTTCAT
ATTATGTTATAAGAATTTACGTTACGTGCCATATAATAATTAAAATTTATTATTTATCTAAATTA
AATTTGATAATTTTAATAATTTAATAAATTCTGCCATATTACGTGCC
Found at i:1556111 original size:18 final size:18
Alignment explanation
Indices: 1556084--1556135 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
1556074 ATAATAATAA
*
1556084 ATATTATATATTTATATT
1 ATATTTTATATTTATATT
1556102 ATATTTTATA-TTATTATT
1 ATATTTTATATTTA-TATT
1556120 -T-TTTTAT-TTTATATT
1 ATATTTTATATTTATATT
1556135 A
1 A
1556136 AAAAATCTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
15 4 0.13
16 9 0.30
17 4 0.13
18 13 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATATTTTATATTTATATT
Found at i:1556510 original size:16 final size:16
Alignment explanation
Indices: 1556491--1556525 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1556481 TATTATTTTT
1556491 ATTT-AATTTAAAAATA
1 ATTTAAATTT-AAAATA
1556507 ATTTAAATTTAAAATA
1 ATTTAAATTTAAAATA
1556523 ATT
1 ATT
1556526 AAAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTTAAATTTAAAATA
Found at i:1556538 original size:24 final size:25
Alignment explanation
Indices: 1556501--1556549 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
1556491 ATTTAATTTA
1556501 AAAATAATTTAAATTTAAAATAATT
1 AAAATAATTTAAATTTAAAATAATT
*
1556526 AAAA-AATTTAAATTTAAATTAATT
1 AAAATAATTTAAATTTAAAATAATT
1556550 TAATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AAAATAATTTAAATTTAAAATAATT
Found at i:1556542 original size:30 final size:31
Alignment explanation
Indices: 1556516--1556600 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 31
1556506 AATTTAAATT
*
1556516 TAAAATAATTAAAAAATTTA-AATTTAAA-T
1 TAAAATAATTAAAAAATTAATAATTTAAATT
** * *
1556545 TAATTTAATTTTAAAAATTAATAATTTATATT
1 TAAAATAA-TTAAAAAATTAATAATTTAAATT
* *
1556577 TAAAATAATTAAAAATTTGATAAT
1 TAAAATAATTAAAAAATTAATAAT
1556601 CAAGCTAAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
29 6 0.14
30 10 0.23
31 20 0.47
32 7 0.16
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (31 bp):
TAAAATAATTAAAAAATTAATAATTTAAATT
Found at i:1556569 original size:21 final size:23
Alignment explanation
Indices: 1556545--1556594 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
1556535 AAATTTAAAT
*
1556545 TAATTTA-ATTTTAAA-AATTAA
1 TAATTTATATTTAAAATAATTAA
1556566 TAATTTATATTTAAAATAATTAA
1 TAATTTATATTTAAAATAATTAA
*
1556589 AAATTT
1 TAATTT
1556595 GATAATCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.28
22 7 0.28
23 11 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATTTATATTTAAAATAATTAA
Found at i:1556879 original size:22 final size:23
Alignment explanation
Indices: 1556858--1556905 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
1556848 ATTGACTATT
1556858 TTTTTTA-AT-TATATA-ATATA
1 TTTTTTATATATATATAGATATA
*
1556878 TTATTTATATATATATAGGATATA
1 TTTTTTATATATATATA-GATATA
1556902 TTTT
1 TTTT
1556906 ATATCACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 6 0.27
21 2 0.09
22 6 0.27
24 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
TTTTTTATATATATATAGATATA
Found at i:1561909 original size:22 final size:21
Alignment explanation
Indices: 1561866--1561923 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
1561856 TCTTTTTTTA
1561866 ATTATTATAATTTATTTCATC
1 ATTATTATAATTTATTTCATC
*
1561887 ATTATTA-AATATATATTTTATC
1 ATTATTATAAT-T-TATTTCATC
*
1561909 ATTAATTTTAATTTA
1 ATT-ATTATAATTTA
1561924 ATTATAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 3 0.10
21 8 0.26
22 13 0.42
23 4 0.13
24 3 0.10
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATTATAATTTATTTCATC
Found at i:1563897 original size:2 final size:2
Alignment explanation
Indices: 1563890--1563921 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1563880 TTACAGCTTG
*
1563890 AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1563922 CTTAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1565272 original size:22 final size:21
Alignment explanation
Indices: 1565229--1565277 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
1565219 AAAATTATTT
*
1565229 TAATTTAAATTTAATTATAAA
1 TAATATAAATTTAATTATAAA
*
1565250 TTATATAAATATTAA-TATAAAA
1 TAATATAAAT-TTAATTAT-AAA
1565272 TAATAT
1 TAATAT
1565278 TTTAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATATAAATTTAATTATAAA
Found at i:1565429 original size:49 final size:49
Alignment explanation
Indices: 1565376--1565476 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
1565366 AATCAAACCC
1565376 GTGAACGTGTAGTGGCGAATGGAGGACCTAATTACAAAGCAATTAATGA
1 GTGAACGTGTAGTGGCGAATGGAGGACCTAATTACAAAGCAATTAATGA
1565425 GTGAACGTGTAGTGGCGAATGGAGGACCTAATTACAAAGCAATTAATGA
1 GTGAACGTGTAGTGGCGAATGGAGGACCTAATTACAAAGCAATTAATGA
1565474 GTG
1 GTG
1565477 GTAGAAAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.23
Consensus pattern (49 bp):
GTGAACGTGTAGTGGCGAATGGAGGACCTAATTACAAAGCAATTAATGA
Found at i:1567396 original size:1 final size:1
Alignment explanation
Indices: 1567390--1567415 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
1567380 CAGATAGGTT
1567390 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
1567416 AAGTGGTGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:1568803 original size:212 final size:213
Alignment explanation
Indices: 1568407--1568831 Score: 744
Period size: 212 Copynumber: 2.0 Consensus size: 213
1568397 ATCTAAAACA
* *
1568407 AATAATCTAGGGACACCTGAAACCATCAAACTTTTATATCATTCACACTGTCAATAAAAAGTTTA
1 AATAAACTAGGCACACCTGAAACCATCAAACTTTTATATCATTCACACTGTCAATAAAAAGTTTA
* *
1568472 ATTCTGCATAAAGATTCCCACAACTACAGAGTTTTAACTGCATCAATGCATAGATAAAGAAAAAT
66 ATTCTGCATAAAGATTCCCACAACGACAGAGATTTAACTGCATCAATGCATAGATAAAGAAAAAT
1568537 GGAAAAAGAGTGAAGGTGAACACGTACAAGTATGGAACAGAAATTATTAAATAAACATTACTCCA
131 GGAAAAAGAGTGAAGGTGAACACGTACAAGTATGGAACAGAAATTATTAAATAAACATTACTCCA
1568602 ACAAAATTCCAATGTTTG
196 ACAAAATTCCAATGTTTG
*
1568620 AATAAACTAGGCACACTTGAAACCATCAAACTTTTATATCATTCACACTGTCAATAAAAAGTTTA
1 AATAAACTAGGCACACCTGAAACCATCAAACTTTTATATCATTCACACTGTCAATAAAAAGTTTA
* *
1568685 ATTCTGCATAAAGATTCCCACAACGACAGAGATTTAAC-GCATCCATGCATAGATAAGGAAAAAT
66 ATTCTGCATAAAGATTCCCACAACGACAGAGATTTAACTGCATCAATGCATAGATAAAGAAAAAT
* *
1568749 GGAGAAAGAGTGAAGGTGAACATGTACAAGTATGGAACAGAAATTATTAAATAAACATTACTCCA
131 GGAAAAAGAGTGAAGGTGAACACGTACAAGTATGGAACAGAAATTATTAAATAAACATTACTCCA
* *
1568814 ACACAATTGCAATGTTTG
196 ACAAAATTCCAATGTTTG
1568832 TTACCATATC
Statistics
Matches: 201, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
212 103 0.51
213 98 0.49
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.25
Consensus pattern (213 bp):
AATAAACTAGGCACACCTGAAACCATCAAACTTTTATATCATTCACACTGTCAATAAAAAGTTTA
ATTCTGCATAAAGATTCCCACAACGACAGAGATTTAACTGCATCAATGCATAGATAAAGAAAAAT
GGAAAAAGAGTGAAGGTGAACACGTACAAGTATGGAACAGAAATTATTAAATAAACATTACTCCA
ACAAAATTCCAATGTTTG
Found at i:1571575 original size:21 final size:24
Alignment explanation
Indices: 1571537--1571584 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
1571527 ACTGCTTAAA
*
1571537 ATATATATTAATTTTATTTTT-TT
1 ATATATATTAATTGTATTTTTATT
1571560 ATATATATT-A-TGTATTTTTATT
1 ATATATATTAATTGTATTTTTATT
1571582 ATA
1 ATA
1571585 CAAATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 6 0.26
23 9 0.39
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
ATATATATTAATTGTATTTTTATT
Found at i:1571658 original size:21 final size:20
Alignment explanation
Indices: 1571634--1571690 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 20
1571624 TAAATTGTTT
1571634 ATATTTTAAAATATAATAAAA
1 ATATTTTAAAATATAA-AAAA
* *
1571655 ATA--TTAAAATTTAAAATA
1 ATATTTTAAAATATAAAAAA
*
1571673 ATATATTAAAAATATAAA
1 ATAT-TTTAAAATATAAA
1571691 TTAAAGATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 6 0.21
19 10 0.34
21 13 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATTTTAAAATATAAAAAA
Found at i:1571680 original size:20 final size:20
Alignment explanation
Indices: 1571634--1571689 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
1571624 TAAATTGTTT
*
1571634 ATATTTTAAAATATAATAAA
1 ATATATTAAAATATAATAAA
*
1571654 A-ATATTAAAATTTAA-AATA
1 ATATATTAAAATATAATAA-A
1571673 ATATATTAAAAATATAA
1 ATATATT-AAAATATAA
1571690 ATTAAAGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 2 0.07
19 14 0.47
20 6 0.20
21 8 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATATTAAAATATAATAAA
Found at i:1571682 original size:29 final size:27
Alignment explanation
Indices: 1571643--1571702 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 27
1571633 TATATTTTAA
1571643 AATATAATAAAAATATTAAAATTTAAA-AT
1 AATATAATAAAAATA-T-AAA-TTAAAGAT
*
1571672 AATATATTAAAAATATAAATTAAAGAT
1 AATATAATAAAAATATAAATTAAAGAT
1571699 AATA
1 AATA
1571703 CATACGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 5 0.17
27 9 0.31
28 1 0.03
29 14 0.48
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (27 bp):
AATATAATAAAAATATAAATTAAAGAT
Found at i:1577941 original size:2 final size:2
Alignment explanation
Indices: 1577934--1577963 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1577924 TTTTTCTTTC
1577934 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
1577964 AAGATCAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1580402 original size:14 final size:15
Alignment explanation
Indices: 1580372--1580406 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1580362 TACATAAAAA
*
1580372 TTTTAAAAAATTAAT
1 TTTTAAAAAAATAAT
*
1580387 TTTTAAAAAAATATT
1 TTTTAAAAAAATAAT
1580402 TTTTA
1 TTTTA
1580407 TCACATAAAT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTTAAAAAAATAAT
Found at i:1581662 original size:15 final size:17
Alignment explanation
Indices: 1581636--1581668 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1581626 TATATAATTT
1581636 TTTTATTAAA-TTAATA
1 TTTTATTAAATTTAATA
1581652 TTTTA-TAAATTTAATA
1 TTTTATTAAATTTAATA
1581668 T
1 T
1581669 ATTAATAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTATTAAATTTAATA
Found at i:1597422 original size:21 final size:22
Alignment explanation
Indices: 1597385--1597430 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
1597375 ATCTTGATTA
*
1597385 TTTTAAAATTTAAATTTGAAAC
1 TTTTAAAATTAAAATTTGAAAC
*
1597407 TTTTAAAA-TAAAATTTTAAAC
1 TTTTAAAATTAAAATTTGAAAC
1597428 TTT
1 TTT
1597431 AATGTTAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTAAAATTAAAATTTGAAAC
Found at i:1602315 original size:17 final size:17
Alignment explanation
Indices: 1602236--1602326 Score: 66
Period size: 17 Copynumber: 5.5 Consensus size: 17
1602226 TAATATATTA
*
1602236 TATATT-TATATATTTT
1 TATATTATATTTATTTT
* *
1602252 T-TA-TATATTAATGATT
1 TATATTATATTTAT-TTT
* **
1602268 TATGTTATATAAATTTT
1 TATATTATATTTATTTT
*
1602285 AATA-TA-ATTATATTTT
1 TATATTATATT-TATTTT
1602301 TATATTATATTTATTTT
1 TATATTATATTTATTTT
1602318 TATATTATA
1 TATATTATA
1602327 ACATATTTTA
Statistics
Matches: 57, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
14 1 0.02
15 9 0.16
16 14 0.25
17 22 0.39
18 11 0.19
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
TATATTATATTTATTTT
Found at i:1602317 original size:33 final size:34
Alignment explanation
Indices: 1602266--1602342 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 34
1602256 ATATTAATGA
* * *
1602266 TTTATGTTATATAAATTTTAATATAATTATAT-T
1 TTTATATTATATAAATTTTAATATAATAACATAT
** * *
1602299 TTTATATTATATTTATTTTTATATTATAACATAT
1 TTTATATTATATAAATTTTAATATAATAACATAT
1602333 TTTATATTAT
1 TTTATATTAT
1602343 TTTCAATTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 25 0.69
34 11 0.31
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (34 bp):
TTTATATTATATAAATTTTAATATAATAACATAT
Found at i:1608530 original size:18 final size:18
Alignment explanation
Indices: 1608509--1608562 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 18
1608499 AAATTAATAT
1608509 AAATATATAATTATATTA
1 AAATATATAATTATATTA
* *
1608527 AAATTTAT-ATAATA-TA
1 AAATATATAATTATATTA
*
1608543 AATTAT-TAA-TATATTA
1 AAATATATAATTATATTA
1608559 AAAT
1 AAAT
1608563 TTACTAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
15 4 0.14
16 12 0.43
17 5 0.18
18 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATATAATTATATTA
Found at i:1608561 original size:32 final size:33
Alignment explanation
Indices: 1608503--1608565 Score: 103
Period size: 32 Copynumber: 1.9 Consensus size: 33
1608493 ATATAAAAAT
1608503 TAATATAAATATATAATTATATTAAAATTTATA
1 TAATATAAATATATAATTATATTAAAATTTATA
1608536 TAATATAAAT-TATTAA-TATATTAAAATTTA
1 TAATATAAATATA-TAATTATATTAAAATTTA
1608566 CTAAATTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (33 bp):
TAATATAAATATATAATTATATTAAAATTTATA
Found at i:1613501 original size:2 final size:2
Alignment explanation
Indices: 1613494--1613522 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1613484 ATTCAGACAA
1613494 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1613523 ATATGTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1614469 original size:33 final size:33
Alignment explanation
Indices: 1614408--1614471 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
1614398 CTTAATTATG
*
1614408 TAAATTTTAAATATATTAATAATTTATATTAAA
1 TAAATTTTAAATATATTAATAATGTATATTAAA
* *
1614441 TAAATTTTAAA-ATATTTATAGGTGTATATTA
1 TAAATTTTAAATATATTAATA-ATGTATATTA
1614472 TATTTTTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 8 0.30
33 19 0.70
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (33 bp):
TAAATTTTAAATATATTAATAATGTATATTAAA
Found at i:1622773 original size:2 final size:2
Alignment explanation
Indices: 1622766--1622791 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1622756 ATAATGTTTA
1622766 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1622792 TTCATTCAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1625681 original size:2 final size:2
Alignment explanation
Indices: 1625630--1625662 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1625620 CAACAAGAAC
1625630 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1625663 GCTTTCTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1625691 original size:20 final size:22
Alignment explanation
Indices: 1625651--1625691 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1625641 TATATATATA
*
1625651 TATATATATATAGCTTTCTTTC
1 TATATATATATAGCTTGCTTTC
1625673 TATATATAT-TA-CTTGCTTT
1 TATATATATATAGCTTGCTTT
1625692 TTTTATCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.27, C:0.12, G:0.05, T:0.56
Consensus pattern (22 bp):
TATATATATATAGCTTGCTTTC
Found at i:1626498 original size:19 final size:19
Alignment explanation
Indices: 1626459--1626506 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
1626449 AATTCAATTC
* *
1626459 ATATATTTATTTTATTTTA
1 ATATATTTATTGTATTATA
*
1626478 ATATATTTATTGTGTTATA
1 ATATATTTATTGTATTATA
1626497 ATCATATTTA
1 AT-ATATTTA
1626507 AAGTCTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
ATATATTTATTGTATTATA
Found at i:1626601 original size:14 final size:14
Alignment explanation
Indices: 1626569--1626623 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
1626559 ATTTAAAAAA
1626569 TATATTTA-T-ATT
1 TATATTTATTAATT
1626581 ATATATTTATTAATT
1 -TATATTTATTAATT
*
1626596 TATATTCATATAA-T
1 TATATTTAT-TAATT
1626610 TATATTTAATTAAT
1 TATATTT-ATTAAT
1626624 ATTGTCATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
13 8 0.23
14 19 0.54
15 8 0.23
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TATATTTATTAATT
Found at i:1626612 original size:22 final size:21
Alignment explanation
Indices: 1626572--1626612 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1626562 TAAAAAATAT
*
1626572 ATTTATATTATATATTTATTA
1 ATTTATATTATATAATTATTA
1626593 ATTTATATTCATATAATTAT
1 ATTTATATT-ATATAATTAT
1626613 ATTTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTATATTATATAATTATTA
Found at i:1626625 original size:25 final size:21
Alignment explanation
Indices: 1626576--1626636 Score: 59
Period size: 25 Copynumber: 2.7 Consensus size: 21
1626566 AAATATATTT
*
1626576 ATATTATATATTTATTAATTT
1 ATATTATATATTTATTAATTA
1626597 ATATTCATATAATTATATTTAATTA
1 ATATT-ATAT-ATT-TA-TTAATTA
*
1626622 ATATTGTCATATTTA
1 ATATTAT-ATATTTA
1626637 CTTATACCTG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
21 5 0.15
22 4 0.12
23 5 0.15
24 6 0.18
25 13 0.39
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (21 bp):
ATATTATATATTTATTAATTA
Found at i:1626675 original size:3 final size:3
Alignment explanation
Indices: 1626667--1626694 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1626657 TTTTTTATAG
1626667 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1626695 ATAAAAATCA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1627217 original size:17 final size:17
Alignment explanation
Indices: 1627176--1627218 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
1627166 TCCTTACTTC
1627176 AAGTAAAAAATTGATTT
1 AAGTAAAAAATTGATTT
* * *
1627193 ATAATAAAAATTTTATTT
1 A-AGTAAAAAATTGATTT
1627211 AAGTAAAA
1 AAGTAAAA
1627219 TTTAAAAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (17 bp):
AAGTAAAAAATTGATTT
Found at i:1627255 original size:20 final size:20
Alignment explanation
Indices: 1627227--1627268 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
1627217 AATTTAAAAG
*
1627227 TTAATGGTTTATTATACGAA
1 TTAAAGGTTTATTATACGAA
1627247 TTAAAGGTTTATTATACGAA
1 TTAAAGGTTTATTATACGAA
1627267 TT
1 TT
1627269 TGGAAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (20 bp):
TTAAAGGTTTATTATACGAA
Found at i:1627512 original size:16 final size:17
Alignment explanation
Indices: 1627491--1627525 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1627481 ATTTAACACA
1627491 TATT-AAATTAAAAATT
1 TATTAAAATTAAAAATT
*
1627507 TATTAAAATTAAAATTT
1 TATTAAAATTAAAAATT
1627524 TA
1 TA
1627526 CTTGATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTAAAATTAAAAATT
Found at i:1632482 original size:2 final size:2
Alignment explanation
Indices: 1632475--1632513 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1632465 CTTTCAACAA
1632475 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1632514 AATTTAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1632822 original size:14 final size:13
Alignment explanation
Indices: 1632775--1632825 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
1632765 TTCAATTGGT
1632775 AAAAAGAAA-AAGGG
1 AAAAAGAAAGAA--G
1632789 AAAAA-AAA-AAG
1 AAAAAGAAAGAAG
1632800 AAAAAGAAAGAAG
1 AAAAAGAAAGAAG
1632813 AAAGAAGAAAGAA
1 AAA-AAGAAAGAA
1632826 CTAGGACCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 6 0.18
12 3 0.09
13 11 0.32
14 14 0.41
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAGAAG
Found at i:1632823 original size:7 final size:7
Alignment explanation
Indices: 1632797--1632825 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1632787 GGAAAAAAAA
1632797 AAGAAA-
1 AAGAAAG
1632803 AAGAAAG
1 AAGAAAG
1632810 AAGAAAG
1 AAGAAAG
1632817 AAGAAAG
1 AAGAAAG
1632824 AA
1 AA
1632826 CTAGGACCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (7 bp):
AAGAAAG
Found at i:1641720 original size:2 final size:2
Alignment explanation
Indices: 1641713--1641747 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1641703 GCAAAGTGAT
1641713 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1641748 TTAATAACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1644956 original size:15 final size:16
Alignment explanation
Indices: 1644936--1644977 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
1644926 AATTATTGAT
1644936 AATTAAATAAATA-AA
1 AATTAAATAAATATAA
* *
1644951 AATTAATTAAA-ATAT
1 AATTAAATAAATATAA
1644966 AATTAAATAAAT
1 AATTAAATAAAT
1644978 CTAACATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 1 0.05
15 21 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTAAATAAATATAA
Found at i:1655355 original size:3 final size:3
Alignment explanation
Indices: 1655347--1655387 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1655337 ATTGTGCATC
1655347 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1655388 GGTAAGTTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1655673 original size:18 final size:18
Alignment explanation
Indices: 1655647--1655696 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
1655637 TAGTATTTTT
1655647 ATAATTTTAAATAATAAA
1 ATAATTTTAAATAATAAA
* *
1655665 ATAAATTTAAA-AATTAA
1 ATAATTTTAAATAATAAA
1655682 ATCAATTTTAAATAA
1 AT-AATTTTAAATAA
1655697 AATTTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 7 0.26
18 18 0.67
19 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATTTTAAATAATAAA
Found at i:1656423 original size:3 final size:3
Alignment explanation
Indices: 1656415--1656458 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
1656405 TTATTTTTAA
1656415 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1656459 AGTGTTGATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1657041 original size:24 final size:24
Alignment explanation
Indices: 1657009--1657057 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1656999 AAAAATTTAT
*
1657009 TAAATTTATTTATAAATATTAATA
1 TAAAATTATTTATAAATATTAATA
* * *
1657033 TAAAATTATTTTTAACTTTTAATA
1 TAAAATTATTTATAAATATTAATA
1657057 T
1 T
1657058 TATATTAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
TAAAATTATTTATAAATATTAATA
Found at i:1663449 original size:50 final size:50
Alignment explanation
Indices: 1663350--1663449 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
1663340 AGATATGAAA
* **
1663350 GCTGATAGGACCAGTTTTTGACCATCTCTGCTGTCATAGCTGTCGCAATG
1 GCTGATAGGACCAGTTTTTGACCACCTCTGCTGTCATAGCTGTAACAATG
* *
1663400 GCTGATGGGACCAGTTTTTGACCCCCTCTGCTGTCATAGCTGTAACAATG
1 GCTGATAGGACCAGTTTTTGACCACCTCTGCTGTCATAGCTGTAACAATG
1663450 TATCAGTCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (50 bp):
GCTGATAGGACCAGTTTTTGACCACCTCTGCTGTCATAGCTGTAACAATG
Found at i:1666642 original size:2 final size:2
Alignment explanation
Indices: 1666632--1666668 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
1666622 ACACACACAC
*
1666632 AT AT A- AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1666669 GAAACTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1667147 original size:18 final size:18
Alignment explanation
Indices: 1667098--1667200 Score: 55
Period size: 18 Copynumber: 6.0 Consensus size: 18
1667088 TAAAAATTAC
1667098 ATAT-TTATAT-TATTT-
1 ATATATTATATATATTTA
*
1667113 TTATATTATAATCATATTTA
1 ATATATTAT-AT-ATATTTA
1667133 ATATATTATATATA--TA
1 ATATATTATATATATTTA
* *
1667149 A-ATTTTA-ATATA-TAA
1 ATATATTATATATATTTA
*
1667164 ATAAATTATTATATATATTA
1 ATATATTA-TATATAT-TTA
1667184 AT-TAATT-TATATATTTA
1 ATAT-ATTATATATATTTA
1667201 TATTATTTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 22
0.69 0.08 0.22
Matches are distributed among these distances:
14 5 0.07
15 10 0.15
16 11 0.16
17 5 0.07
18 15 0.22
19 7 0.10
20 15 0.22
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATATTATATATATTTA
Found at i:1667159 original size:16 final size:16
Alignment explanation
Indices: 1667136--1667197 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
1667126 ATATTTAATA
1667136 TATTATATATATAAAT
1 TATTATATATATAAAT
1667152 T-TTAATATATAAATAAAT
1 TATT-ATATAT--ATAAAT
*
1667170 TATTATATATATTAAT
1 TATTATATATATAAAT
1667186 TAATT-TATATAT
1 T-ATTATATATAT
1667198 TTATATTATT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 2 0.05
16 20 0.50
17 3 0.08
18 13 0.32
19 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTATATATATAAAT
Found at i:1667202 original size:22 final size:22
Alignment explanation
Indices: 1667169--1667251 Score: 87
Period size: 22 Copynumber: 3.6 Consensus size: 22
1667159 TATAAATAAA
* *
1667169 TTAT-TATATATATTAATTAAT
1 TTATATATATATATTATTTATT
*
1667190 TTATATATTTATATTATTTATT
1 TTATATATATATATTATTTATT
*
1667212 TTATATCATCTTATATTTTATTTATT
1 TTATAT-A---TATATATTATTTATT
1667238 TTATATATATATAT
1 TTATATATATATAT
1667252 ATATGGTAAC
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
21 4 0.08
22 26 0.51
23 1 0.02
25 1 0.02
26 19 0.37
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTATATATATATATTATTTATT
Found at i:1667252 original size:26 final size:26
Alignment explanation
Indices: 1667191--1667255 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
1667181 TTAATTAATT
*
1667191 TATATATTTATATTATTTATTTTATA
1 TATATATATATATTATTTATTTTATA
* *
1667217 TCATCT-TATATTTTATTTATTTTATA
1 T-ATATATATATATTATTTATTTTATA
1667243 TATATATATATAT
1 TATATATATATAT
1667256 GGTAACACGG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 3 0.09
26 26 0.81
27 3 0.09
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (26 bp):
TATATATATATATTATTTATTTTATA
Found at i:1669335 original size:14 final size:14
Alignment explanation
Indices: 1669302--1669349 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
1669292 TTAAGTTCAG
*
1669302 ATTAAATTTAA-GA
1 ATTAAATTTAATAA
*
1669315 CTTAAA-TTATATAA
1 ATTAAATTTA-ATAA
1669329 ATTAAATTTAATAA
1 ATTAAATTTAATAA
1669343 ATTAAAT
1 ATTAAAT
1669350 AAGTAAGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.10
13 6 0.21
14 17 0.59
15 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (14 bp):
ATTAAATTTAATAA
Found at i:1671415 original size:2 final size:2
Alignment explanation
Indices: 1671408--1671436 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1671398 GATGCTTTCA
1671408 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1671437 ATACAAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1680234 original size:12 final size:12
Alignment explanation
Indices: 1680201--1680260 Score: 59
Period size: 13 Copynumber: 4.8 Consensus size: 12
1680191 GTGTGAATTA
*
1680201 AATTAAATTTAA
1 AATTAAATTTAT
*
1680213 AATTTTAATTTAT
1 AA-TTAAATTTAT
1680226 AATTAAATTTATT
1 AATTAAATTTA-T
*
1680239 AAATAAA-TTAT
1 AATTAAATTTAT
1680250 AATTTAAATTT
1 AA-TTAAATTT
1680261 TTTATGAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 3 0.08
12 17 0.44
13 19 0.49
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTAAATTTAT
Found at i:1681966 original size:12 final size:12
Alignment explanation
Indices: 1681949--1681987 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
1681939 TATATTATAT
*
1681949 ATTTATAATTTA
1 ATTTATAATTAA
1681961 ATTTATAATTAA
1 ATTTATAATTAA
1681973 ATTTAATATATTAA
1 ATTT-ATA-ATTAA
1681987 A
1 A
1681988 CTAAATTGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 15 0.62
13 3 0.12
14 6 0.25
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
ATTTATAATTAA
Found at i:1682426 original size:28 final size:30
Alignment explanation
Indices: 1682383--1682464 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 30
1682373 CGTAATTTTT
* * *
1682383 TTATTTTTATAAATTTTAATATTAATA-AT
1 TTATATTTATATATTTTAATATTAATATAC
*
1682412 TTATA-TTATATATTTTAA-AAT-ATATAC
1 TTATATTTATATATTTTAATATTAATATAC
1682439 TTATATTATATTATATTTTAATATTA
1 TTATATT-TA-TATATTTTAATATTA
1682465 TCATATGTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
26 3 0.07
27 8 0.19
28 13 0.31
29 6 0.14
30 10 0.24
31 2 0.05
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (30 bp):
TTATATTTATATATTTTAATATTAATATAC
Found at i:1682475 original size:28 final size:29
Alignment explanation
Indices: 1682389--1682475 Score: 74
Period size: 28 Copynumber: 3.0 Consensus size: 29
1682379 TTTTTTATTT
*
1682389 TTATAAATTTTAATATTA--ATAATTTATA
1 TTATATATTTTAATATTATCAT-ATTTATA
* *
1682417 TTATATATTTTAA-AATAT-ATACTTATA
1 TTATATATTTTAATATTATCATATTTATA
1682444 TTATATTATATTTTAATATTATCATATGTTAT
1 -T-TA-TATATTTTAATATTATCATAT-TTAT
1682476 TGATAATTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
27 9 0.19
28 15 0.32
29 2 0.04
30 10 0.21
31 4 0.09
32 3 0.06
33 4 0.09
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (29 bp):
TTATATATTTTAATATTATCATATTTATA
Found at i:1687176 original size:15 final size:17
Alignment explanation
Indices: 1687145--1687181 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
1687135 GTTAATCAAA
1687145 TTTTATTATTAATTATT
1 TTTTATTATTAATTATT
1687162 TTTTATT-TTAA-TATT
1 TTTTATTATTAATTATT
1687177 TTTTA
1 TTTTA
1687182 AATTTAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 9 0.45
16 4 0.20
17 7 0.35
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTATTAATTATT
Found at i:1692625 original size:13 final size:13
Alignment explanation
Indices: 1692607--1692631 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1692597 TGATTATAAG
1692607 TTTAAAAATAAAA
1 TTTAAAAATAAAA
1692620 TTTAAAAATAAA
1 TTTAAAAATAAA
1692632 TAAAAATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTTAAAAATAAAA
Found at i:1693167 original size:18 final size:20
Alignment explanation
Indices: 1693129--1693175 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
1693119 TTAAATTAAT
1693129 TTTATATATAATTTATATTTA
1 TTTA-ATATAATTTATATTTA
1693150 TTTAATATAA-TTAT-TTTA
1 TTTAATATAATTTATATTTA
*
1693168 TTTTATAT
1 TTTAATAT
1693176 TTTATTCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 11 0.44
19 4 0.16
20 6 0.24
21 4 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTAATATAATTTATATTTA
Found at i:1694142 original size:2 final size:2
Alignment explanation
Indices: 1694135--1694170 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1694125 TGTTCCATTG
1694135 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1694171 CCATATCAAG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1694744 original size:17 final size:17
Alignment explanation
Indices: 1694719--1694751 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1694709 TTTTTTAAAA
*
1694719 AATGTTAATTAATATTC
1 AATGATAATTAATATTC
1694736 AATGATAATTAATATT
1 AATGATAATTAATATT
1694752 TATAAACATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (17 bp):
AATGATAATTAATATTC
Found at i:1699713 original size:35 final size:34
Alignment explanation
Indices: 1699668--1699734 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
1699658 AACATCTAAC
*
1699668 ATCTAGGCATCTGTGCTCATATAAGATCCTTCCG
1 ATCTAGGCATCTATGCTCATATAAGATCCTTCCG
*
1699702 ATCTATGGCATCTATTCTCATATAAGATCCTTC
1 ATCTA-GGCATCTATGCTCATATAAGATCCTTC
1699735 AATCAGTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 5 0.17
35 25 0.83
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.36
Consensus pattern (34 bp):
ATCTAGGCATCTATGCTCATATAAGATCCTTCCG
Found at i:1701437 original size:14 final size:15
Alignment explanation
Indices: 1701418--1701451 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
1701408 GCTCAATTAA
1701418 AAAAAAAAAAAAAG-
1 AAAAAAAAAAAAAGC
*
1701432 AAAAAAAACAAAAGC
1 AAAAAAAAAAAAAGC
1701447 AAAAA
1 AAAAA
1701452 CCAAAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.88, C:0.06, G:0.06, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAGC
Found at i:1711529 original size:25 final size:26
Alignment explanation
Indices: 1711459--1711531 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 26
1711449 TAATATTTAT
* *
1711459 ACATAAATATATTAA-AATTTATATA
1 ACATAAATATATTAATAATTAAAATA
1711484 ACATAAAT-TATTAATATATTAAAATA
1 ACATAAATATATTAATA-ATTAAAATA
*
1711510 A-ATAAATATATAAATAATTAAA
1 ACATAAATATATTAATAATTAAA
1711532 TTTAAGATAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 6 0.14
25 21 0.50
26 15 0.36
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (26 bp):
ACATAAATATATTAATAATTAAAATA
Found at i:1711882 original size:31 final size:32
Alignment explanation
Indices: 1711845--1711933 Score: 87
Period size: 31 Copynumber: 2.8 Consensus size: 32
1711835 TTTTTATTTT
1711845 TTAAATATTTATATTTAATATAAA-ATAAAAA
1 TTAAATATTTATATTTAATATAAATATAAAAA
* * *
1711876 TTAAATATTTAAATATTAA-A-AAATTTAAAAC
1 TTAAATATTTATAT-TTAATATAAATATAAAAA
* *
1711907 TTAAATATATT-TATTTACTATATATAT
1 TTAAATAT-TTATATTTAATATAAATAT
1711934 TATATTCTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
30 6 0.13
31 30 0.65
32 10 0.22
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (32 bp):
TTAAATATTTATATTTAATATAAATATAAAAA
Found at i:1711910 original size:23 final size:23
Alignment explanation
Indices: 1711871--1711914 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1711861 AATATAAAAT
*
1711871 AAAAATTAAATATTTAAATATTA
1 AAAAATTAAATACTTAAATATTA
1711894 AAAAATTTAAA-ACTTAAATAT
1 AAAAA-TTAAATACTTAAATAT
1711915 ATTTATTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAAATTAAATACTTAAATATTA
Found at i:1712204 original size:15 final size:14
Alignment explanation
Indices: 1712180--1712209 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
1712170 CTCTTTCTCC
1712180 TTTTTTTTTTTAAT
1 TTTTTTTTTTTAAT
1712194 TTTTTTATTTTTAAT
1 TTTTTT-TTTTTAAT
1712209 T
1 T
1712210 ATGAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTTTTTTAAT
Found at i:1712653 original size:22 final size:24
Alignment explanation
Indices: 1712604--1712653 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
1712594 ATTTTCAGGT
*
1712604 ATATTAAAAATTATTTACTTAATA
1 ATATTAAAAATTAGTTACTTAATA
1712628 ATATT-AAAATT-GTTAC-TAATA
1 ATATTAAAAATTAGTTACTTAATA
1712649 GATAT
1 -ATAT
1712654 ATTAATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.21
22 8 0.33
23 6 0.25
24 5 0.21
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (24 bp):
ATATTAAAAATTAGTTACTTAATA
Found at i:1712981 original size:2 final size:2
Alignment explanation
Indices: 1712976--1713006 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1712966 TGATAATTGC
1712976 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1713007 TCTTCTTAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1713722 original size:14 final size:14
Alignment explanation
Indices: 1713703--1713733 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1713693 AAATATTTTA
1713703 TTTTTTAAAATTAT
1 TTTTTTAAAATTAT
1713717 TTTTTTAAAATTAT
1 TTTTTTAAAATTAT
1713731 TTT
1 TTT
1713734 ATATATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTTTAAAATTAT
Found at i:1714623 original size:14 final size:16
Alignment explanation
Indices: 1714592--1714633 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
1714582 TTTTAAAAAA
1714592 TAATATTTAATAAATT
1 TAATATTTAATAAATT
*
1714608 TAATATTT-A-AATTT
1 TAATATTTAATAAATT
1714622 TAATA-TTAATAA
1 TAATATTTAATAA
1714634 CTTATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 2 0.09
14 10 0.43
15 3 0.13
16 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATATTTAATAAATT
Found at i:1714799 original size:34 final size:30
Alignment explanation
Indices: 1714749--1714813 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 30
1714739 ATAATAATAA
1714749 TTTATTAAATATAATAATTAATAATTTAATTTT
1 TTTATTAAATATAAT-A--AATAATTTAATTTT
1714782 TTTATTTAAAT-TAAATAAATAATTTAATTTT
1 TTTA-TTAAATAT-AATAAATAATTTAATTTT
1714813 T
1 T
1714814 AAATAAATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
31 15 0.50
33 6 0.20
34 9 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
TTTATTAAATATAATAAATAATTTAATTTT
Found at i:1715229 original size:24 final size:27
Alignment explanation
Indices: 1715202--1715258 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 27
1715192 TACATCGTCA
1715202 AAAAATAAAATTATAT-TA-TT-TTTT
1 AAAAATAAAATTATATATATTTATTTT
*
1715226 AAAAATAAAATTATTTATATTTATTTT
1 AAAAATAAAATTATATATATTTATTTT
1715253 AAAAAT
1 AAAAAT
1715259 TTTTAATAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 15 0.52
25 2 0.07
26 2 0.07
27 10 0.34
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
AAAAATAAAATTATATATATTTATTTT
Found at i:1715456 original size:13 final size:13
Alignment explanation
Indices: 1715438--1715462 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1715428 TAATAATTGT
1715438 AAAAATTATAAAA
1 AAAAATTATAAAA
1715451 AAAAATTATAAA
1 AAAAATTATAAA
1715463 TTTTTTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATTATAAAA
Found at i:1716189 original size:10 final size:11
Alignment explanation
Indices: 1716164--1716188 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1716154 ATTTATATAA
1716164 TTTTAAAATTT
1 TTTTAAAATTT
1716175 TTTTAAAATTT
1 TTTTAAAATTT
1716186 TTT
1 TTT
1716189 ATTTTATATT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:1718196 original size:21 final size:21
Alignment explanation
Indices: 1718166--1718216 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1718156 TAATATTATA
1718166 TTAATA-TAATTATGTTAAAT
1 TTAATATTAATTATGTTAAAT
*
1718186 TTGAAT-TTAATTATTTTAAAT
1 TT-AATATTAATTATGTTAAAT
1718207 TTAATATTAA
1 TTAATATTAA
1718217 GTTTAAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (21 bp):
TTAATATTAATTATGTTAAAT
Found at i:1721609 original size:10 final size:10
Alignment explanation
Indices: 1721596--1721639 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
1721586 GTACAAAAAG
1721596 ATAAAAAATT
1 ATAAAAAATT
1721606 ATAAAAATATT
1 ATAAAAA-ATT
1721617 -TAAAAAA-T
1 ATAAAAAATT
*
1721625 AAAAAAAATT
1 ATAAAAAATT
1721635 ATAAA
1 ATAAA
1721640 TGTGGGGATC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
8 1 0.03
9 7 0.24
10 18 0.62
11 3 0.10
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:1722844 original size:27 final size:27
Alignment explanation
Indices: 1722796--1722894 Score: 76
Period size: 27 Copynumber: 3.5 Consensus size: 27
1722786 GTTTGTATTT
**
1722796 TTATATA-TTATAATTATATTTAAAATA
1 TTATATATTTATAAAAAT-TTTAAAATA
*
1722823 TTATATATTTATAAAAATTTTAATATA
1 TTATATATTTATAAAAATTTTAAAATA
*
1722850 TTAATAAATTATCTTATATAAATTTTTAAAAT-
1 TT-AT--A-TAT-TTATA-AAAATTTTAAAATA
*
1722882 TTATATTTTTATA
1 TTATATATTTATA
1722895 TATTTTTATA
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
27 22 0.37
28 12 0.20
29 1 0.02
30 1 0.02
31 5 0.08
32 7 0.12
33 11 0.19
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (27 bp):
TTATATATTTATAAAAATTTTAAAATA
Found at i:1722868 original size:20 final size:19
Alignment explanation
Indices: 1722817--1722869 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
1722807 AATTATATTT
* *
1722817 AAAATATTATATATTTATA
1 AAAATCTTATATATTAATA
*
1722836 AAAATTTTAATATATTAATA
1 AAAATCTT-ATATATTAATA
*
1722856 AATTATCTTATATA
1 AA-AATCTTATATA
1722870 AATTTTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 7 0.25
20 17 0.61
21 4 0.14
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATCTTATATATTAATA
Found at i:1722910 original size:5 final size:5
Alignment explanation
Indices: 1722900--1722944 Score: 65
Period size: 5 Copynumber: 9.0 Consensus size: 5
1722890 TTATATATTT
*
1722900 TTATA TTATA TTATA TTATA TTATA TTATAA TTAT- TTTTA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTAT-A TTATA TTATA TTATA
1722945 AAATTATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
4 3 0.08
5 28 0.78
6 5 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:1722924 original size:57 final size:59
Alignment explanation
Indices: 1722814--1722925 Score: 133
Period size: 57 Copynumber: 1.9 Consensus size: 59
1722804 TATAATTATA
*
1722814 TTTAAAATATTATATATTTATAAAAATTTTAATATATTAATAAATTATCTTATATAAATT
1 TTTAAAATATTATATATTTATAAAAATTTT-ATATATTAATAAATTATATTATATAAATT
* * *
1722874 TTTAAAAT-TTATAT-TTT-TATATATTTT-TATATTATATTATATTATATTATAT
1 TTTAAAATATTATATATTTATAAAAATTTTATATATTA-A-TAAATTATATTATAT
1722926 TATAATTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
55 7 0.15
56 1 0.02
57 21 0.46
58 3 0.07
59 6 0.13
60 8 0.17
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (59 bp):
TTTAAAATATTATATATTTATAAAAATTTTATATATTAATAAATTATATTATATAAATT
Found at i:1722945 original size:15 final size:16
Alignment explanation
Indices: 1722900--1722959 Score: 70
Period size: 15 Copynumber: 3.8 Consensus size: 16
1722890 TTATATATTT
1722900 TTATATTATATTAT-A
1 TTATATTATATTATAA
1722915 TTATATTATATTATAA
1 TTATATTATATTATAA
*
1722931 TTAT-TTTTATTATAAAA
1 TTATATTATATTAT--AA
*
1722948 TTATATTGTATT
1 TTATATTATATT
1722960 TAAAATCATA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
15 22 0.56
16 5 0.13
17 6 0.15
18 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TTATATTATATTATAA
Found at i:1722949 original size:17 final size:17
Alignment explanation
Indices: 1722914--1722965 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
1722904 ATTATATTAT
* *
1722914 ATTATATTATA-TTATA
1 ATTATATTGTATTTAAA
*
1722930 ATTAT-TTTTATTATAAA
1 ATTATATTGTATT-TAAA
1722947 ATTATATTGTATTTAAA
1 ATTATATTGTATTTAAA
1722964 AT
1 AT
1722966 CATAAATTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 4 0.13
16 6 0.20
17 14 0.47
18 6 0.20
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTATATTGTATTTAAA
Found at i:1723099 original size:2 final size:2
Alignment explanation
Indices: 1723092--1723121 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1723082 TGCAGACCCA
1723092 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1723122 GAATACTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1723455 original size:22 final size:21
Alignment explanation
Indices: 1723425--1723478 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
1723415 GACCTATTTT
*
1723425 ATAAGATAAATATTTTTAAAAA
1 ATAAAATAAATATTTTT-AAAA
*
1723447 ATAAAATAAATATTTTTATAA
1 ATAAAATAAATATTTTTAAAA
1723468 ATAAAAATAAA
1 AT-AAAATAAA
1723479 AGGCTCAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 5 0.17
22 24 0.83
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
ATAAAATAAATATTTTTAAAA
Found at i:1724935 original size:26 final size:27
Alignment explanation
Indices: 1724906--1724963 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
1724896 ATTTTTAAAT
*
1724906 ATTAGATATG-TATAAAAAT-ATATTTA
1 ATTA-ATATGATATAAAAATAATATTAA
*
1724932 ATTAATATGATATAAATATAATATTAA
1 ATTAATATGATATAAAAATAATATTAA
1724959 ATTAA
1 ATTAA
1724964 ATATTATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 5 0.18
26 12 0.43
27 11 0.39
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.41
Consensus pattern (27 bp):
ATTAATATGATATAAAAATAATATTAA
Found at i:1724962 original size:27 final size:27
Alignment explanation
Indices: 1724906--1724983 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
1724896 ATTTTTAAAT
* *
1724906 ATTAGATATG-TATAAAAAT-ATATTTA
1 ATTA-ATATGATATAAATATAATATTAA
1724932 ATTAATATGATATAAATATAATATTAA
1 ATTAATATGATATAAATATAATATTAA
* *
1724959 ATTAAATATTAT-TAAATTTAATATT
1 ATT-AATATGATATAAATATAATATT
1724984 TTTTAATATT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
25 5 0.11
26 12 0.27
27 21 0.47
28 7 0.16
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (27 bp):
ATTAATATGATATAAATATAATATTAA
Found at i:1724989 original size:16 final size:15
Alignment explanation
Indices: 1724953--1724983 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1724943 ATAAATATAA
1724953 TATTAAATTAAATAT
1 TATTAAATTAAATAT
*
1724968 TATTAAATTTAATAT
1 TATTAAATTAAATAT
1724983 T
1 T
1724984 TTTTAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAAATTAAATAT
Found at i:1725992 original size:32 final size:34
Alignment explanation
Indices: 1725928--1726029 Score: 93
Period size: 34 Copynumber: 3.0 Consensus size: 34
1725918 CTATTTTTAC
* ** *
1725928 ATGTTAATATATTTAAAATATTATTTATT-TATAT
1 ATGTTAACATATTTATTATATT-TATATTATATAT
*
1725962 AAGTT-ACA-ATTTATTAATAATTTATATTATATAT
1 ATGTTAACATATTTATT-AT-ATTTATATTATATAT
* *
1725996 ATTTTAACATATTTATTATTTTTATATTATATAT
1 ATGTTAACATATTTATTATATTTATATTATATAT
1726030 TTTATATATT
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
32 5 0.09
33 9 0.16
34 29 0.53
35 5 0.09
36 7 0.13
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (34 bp):
ATGTTAACATATTTATTATATTTATATTATATAT
Found at i:1726025 original size:14 final size:16
Alignment explanation
Indices: 1725973--1726039 Score: 61
Period size: 16 Copynumber: 4.2 Consensus size: 16
1725963 AGTTACAATT
*
1725973 TATTA-ATAATTTATA
1 TATTATATATTTTATA
*
1725988 T-TATATATATTTTAACA
1 TAT-TATATATTTT-ATA
1726005 TATT-TATTATTTT-TA
1 TATTATA-TATTTTATA
1726020 TATTATATATTTTATA
1 TATTATATATTTTATA
1726036 TATT
1 TATT
1726040 TTGTAATTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
14 1 0.02
15 14 0.33
16 16 0.38
17 10 0.24
18 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTATATATTTTATA
Found at i:1726039 original size:9 final size:9
Alignment explanation
Indices: 1725984--1726041 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
1725974 ATTAATAATT
*
1725984 TATATTATA
1 TATATTTTA
1725993 TATATTTTA
1 TATATTTTA
*
1726002 -ACATATTTA
1 TATAT-TTTA
1726011 T-TATTTT-
1 TATATTTTA
1726018 TATA--TTA
1 TATATTTTA
1726025 TATATTTTA
1 TATATTTTA
1726034 TATATTTT
1 TATATTTT
1726042 GTAATTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
6 2 0.05
7 5 0.12
8 8 0.20
9 25 0.62
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (9 bp):
TATATTTTA
Found at i:1726048 original size:24 final size:23
Alignment explanation
Indices: 1726007--1726051 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
1725997 TTTTAACATA
1726007 TTTATTATTTTTATATTATATAT
1 TTTATTATTTTTATATTATATAT
1726030 TTTATATATTTTGTA-ATTATAT
1 TTTAT-TATTTT-TATATTATAT
1726052 TTATTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 5 0.25
24 13 0.65
25 2 0.10
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTATTATTTTTATATTATATAT
Found at i:1726238 original size:20 final size:20
Alignment explanation
Indices: 1726201--1726238 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1726191 TAAGAATGTA
*
1726201 TTAAATTATTTATATAATAG
1 TTAAATTATTAATATAATAG
*
1726221 TTAAATTATTAATTTAAT
1 TTAAATTATTAATATAAT
1726239 TTAATTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TTAAATTATTAATATAATAG
Found at i:1726285 original size:23 final size:23
Alignment explanation
Indices: 1726262--1726323 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
1726252 AATATGATAT
*
1726262 TTTAAATTAAAATTTAT-TATTA
1 TTTAAATTAAAATTTATAAATTA
* *
1726284 TTAAAATTTGAAATTT-TAAATTAA
1 TTTAAA-TTAAAATTTATAAATT-A
1726308 TTTAAATTAAAATTTA
1 TTTAAATTAAAATTTA
1726324 ATAGTTTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
22 6 0.19
23 19 0.61
24 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTAAATTAAAATTTATAAATTA
Found at i:1726332 original size:30 final size:30
Alignment explanation
Indices: 1726283--1726342 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
1726273 ATTTATTATT
*
1726283 ATTAAAATTTGAAATTTTAAATTAATTTAA
1 ATTAAAATTTGAAAGTTTAAATTAATTTAA
* *
1726313 ATTAAAATTT-AATAGTTTAATTTATTTTAA
1 ATTAAAATTTGAA-AGTTTAAATTAATTTAA
1726343 TAGTTAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (30 bp):
ATTAAAATTTGAAAGTTTAAATTAATTTAA
Found at i:1732619 original size:2 final size:2
Alignment explanation
Indices: 1732612--1732653 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1732602 TCAATTTGGT
1732612 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1732654 CATGATGCAA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1735383 original size:20 final size:19
Alignment explanation
Indices: 1735360--1735414 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 19
1735350 TTTATTTTAT
*
1735360 TTATTTTGATTTAAAATAAA
1 TTATTTTTATTTAAAA-AAA
1735380 TTATTATTTATTTAATAAAAA
1 TTATT-TTTATTTAA-AAAAA
1735401 -TATTTTTATTTAAA
1 TTATTTTTATTTAAA
1735415 TTTAATTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 1 0.03
19 9 0.28
20 9 0.28
21 11 0.34
22 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTATTTTTATTTAAAAAAA
Found at i:1739345 original size:2 final size:2
Alignment explanation
Indices: 1739338--1739364 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1739328 GATACAGTGT
1739338 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1739365 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1739369 original size:2 final size:2
Alignment explanation
Indices: 1739364--1739388 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1739354 TCTCTCTCTC
1739364 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1739389 CGATTCTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1745507 original size:3 final size:3
Alignment explanation
Indices: 1745499--1745534 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
1745489 GTTATAGTGA
*
1745499 ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1745535 GCTTTGCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1753735 original size:21 final size:22
Alignment explanation
Indices: 1753697--1753739 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1753687 ATACAGATAT
1753697 ATATTTATTATAAATTTATTTA
1 ATATTTATTATAAATTTATTTA
**
1753719 ATATTT-TTATATTTTTATTTA
1 ATATTTATTATAAATTTATTTA
1753740 CGTTTAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
ATATTTATTATAAATTTATTTA
Found at i:1756469 original size:15 final size:15
Alignment explanation
Indices: 1756425--1756471 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
1756415 TGATTATATG
1756425 AATTTATAAAA-T-AA
1 AATTT-TAAAATTAAA
*
1756439 AATTTT-ATATTAAA
1 AATTTTAAAATTAAA
1756453 AATTTTAAAATTAAA
1 AATTTTAAAATTAAA
1756468 AATT
1 AATT
1756472 AACAATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 2 0.07
13 2 0.07
14 13 0.46
15 11 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTTTAAAATTAAA
Done.