Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 75 of 82
Found at i:27794937 original size:4 final size:4
Alignment explanation
Indices: 27794930--27794989 Score: 54
Period size: 4 Copynumber: 14.8 Consensus size: 4
27794920 AGGGAGAAGA
*
27794930 AAAG AAAG AGAA- AAAG AAAA AAGAG AAAG AAAGG AAAG AAAGG AAA-
1 AAAG AAAG A-AAG AAAG AAAG AA-AG AAAG AAA-G AAAG AAA-G AAAG
27794976 AAA- AAAG AAAG AAA
1 AAAG AAAG AAAG AAA
27794990 AGGAAAATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
3 8 0.17
4 27 0.56
5 13 0.27
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:27794954 original size:15 final size:15
Alignment explanation
Indices: 27794934--27794996 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 15
27794924 AGAAGAAAAG
27794934 AAAGAGAAAAAGAAA
1 AAAGAGAAAAAGAAA
27794949 AAAGAGAAAGAAAGGAAA
1 AAAGAG-AA-AAA-GAAA
27794967 GAAAG-GAAAAA-AAA
1 -AAAGAGAAAAAGAAA
*
27794981 AGAA-AGAAAAGGAAA
1 A-AAGAGAAAAAGAAA
27794996 A
1 A
27794997 TAAAAAAGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
13 1 0.03
14 10 0.25
15 10 0.25
16 5 0.12
17 5 0.12
18 5 0.12
19 4 0.10
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAGAGAAAAAGAAA
Found at i:27794990 original size:9 final size:9
Alignment explanation
Indices: 27794926--27794991 Score: 54
Period size: 9 Copynumber: 7.9 Consensus size: 9
27794916 GGGGAGGGAG
27794926 AAGAAAAGA
1 AAGAAAAGA
*
27794935 AAGAGAA-A
1 AAGAAAAGA
27794943 AAG-AAA-A
1 AAGAAAAGA
27794950 AAGAGAAAGA
1 AAGA-AAAGA
*
27794960 AAGGAAAGA
1 AAGAAAAGA
*
27794969 AAG-GAA-A
1 AAGAAAAGA
27794976 AA-AAAAGA
1 AAGAAAAGA
27794984 AAGAAAAG
1 AAGAAAAG
27794992 GAAAATAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 11 0.24
8 9 0.20
9 22 0.48
10 4 0.09
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (9 bp):
AAGAAAAGA
Found at i:27795013 original size:22 final size:20
Alignment explanation
Indices: 27794926--27795002 Score: 65
Period size: 19 Copynumber: 3.9 Consensus size: 20
27794916 GGGGAGGGAG
27794926 AAGAAAA-GAAAGAGAAAAAG-
1 AAGAAAAGGAAA-A-AAAAAGA
* *
27794946 AA-AAAA-GAGAAAGAAAGGA
1 AAGAAAAGGA-AAAAAAAAGA
27794965 AAG-AAAGGAAAAAAAAAGA
1 AAGAAAAGGAAAAAAAAAGA
27794984 AAGAAAAGGAAAATAAAAA
1 AAGAAAAGGAAAA-AAAAA
27795003 AGAAGACAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
18 4 0.09
19 23 0.49
20 15 0.32
21 5 0.11
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (20 bp):
AAGAAAAGGAAAAAAAAAGA
Found at i:27795716 original size:7 final size:7
Alignment explanation
Indices: 27795704--27795773 Score: 52
Period size: 8 Copynumber: 9.3 Consensus size: 7
27795694 GAAAAAGATG
27795704 AATAAAA
1 AATAAAA
27795711 AATAAAAA
1 AAT-AAAA
27795719 AATAAAA
1 AATAAAA
*
27795726 AGAAAAAA
1 A-ATAAAA
*
27795734 AAAAATGAA
1 AATAA--AA
27795743 AATAAATA
1 AATAAA-A
27795751 AATAATAA
1 AATAA-AA
*
27795759 AA-ATAA
1 AATAAAA
27795765 AATAAAA
1 AATAAAA
27795772 AA
1 AA
27795774 ATGACAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
6 4 0.08
7 19 0.37
8 22 0.42
9 7 0.13
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (7 bp):
AATAAAA
Found at i:27795720 original size:8 final size:8
Alignment explanation
Indices: 27795707--27795786 Score: 63
Period size: 9 Copynumber: 9.2 Consensus size: 8
27795697 AAAGATGAAT
27795707 AAAAAATA
1 AAAAAATA
27795715 AAAAAATAA
1 AAAAAAT-A
*
27795724 AAAGAAAAA
1 AAA-AAATA
27795733 AAAAAATGA
1 AAAAAAT-A
27795742 AAATAAATA
1 AAA-AAATA
27795751 AATAATAA-A
1 AA-AA-AATA
27795760 AATAAAATA
1 AA-AAAATA
*
27795769 AAAAAATG
1 AAAAAATA
*
27795777 ACAAAATA
1 AAAAAATA
27795785 AA
1 AA
27795787 CATATAAACA
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
8 24 0.41
9 25 0.42
10 10 0.17
ACGTcount: A:0.81, C:0.01, G:0.04, T:0.14
Consensus pattern (8 bp):
AAAAAATA
Found at i:27795725 original size:13 final size:13
Alignment explanation
Indices: 27795709--27795775 Score: 75
Period size: 13 Copynumber: 5.0 Consensus size: 13
27795699 AGATGAATAA
27795709 AAAATAAAAAAAT
1 AAAATAAAAAAAT
*
27795722 AAAA-AGAAAAAAA
1 AAAATA-AAAAAAT
27795735 AAAATGAAAATAAAT
1 AAAAT-AAAA-AAAT
27795750 -AAATAATAAAAAT
1 AAAATAA-AAAAAT
27795763 AAAATAAAAAAAT
1 AAAATAAAAAAAT
27795776 GACAAAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
12 1 0.02
13 26 0.57
14 15 0.33
15 4 0.09
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:27795782 original size:22 final size:22
Alignment explanation
Indices: 27795707--27795786 Score: 73
Period size: 22 Copynumber: 3.9 Consensus size: 22
27795697 AAAGATGAAT
27795707 AAAAAATAA-AAAAAT-AAA-A
1 AAAAAATAACAAAAATAAAATA
*
27795726 AGAAAA-AA-AAAAATGAAAATA
1 AAAAAATAACAAAAAT-AAAATA
* *
27795747 AATAAATAATAAAAATAAAATA
1 AAAAAATAACAAAAATAAAATA
*
27795769 AAAAAATGAC-AAAATAAA
1 AAAAAATAACAAAAATAAA
27795787 CATATAAACA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
18 8 0.16
19 5 0.10
20 3 0.06
21 13 0.26
22 15 0.30
23 6 0.12
ACGTcount: A:0.81, C:0.01, G:0.04, T:0.14
Consensus pattern (22 bp):
AAAAAATAACAAAAATAAAATA
Found at i:27798299 original size:29 final size:29
Alignment explanation
Indices: 27798267--27798336 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
27798257 GTGAAACGAC
* *
27798267 ACAAGAGAAGAAGAAGTACGTGAATAGGT
1 ACAAGAGAAGAAGAAGTACATGAATAAGT
* **
27798296 ACAAGAGAATAAGCTGTACATGAATAAGT
1 ACAAGAGAAGAAGAAGTACATGAATAAGT
*
27798325 ATAAGAGAAGAA
1 ACAAGAGAAGAA
27798337 AGTCTATGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.51, C:0.07, G:0.26, T:0.16
Consensus pattern (29 bp):
ACAAGAGAAGAAGAAGTACATGAATAAGT
Found at i:27798549 original size:18 final size:18
Alignment explanation
Indices: 27798526--27798561 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
27798516 ACTACCATCC
27798526 GTGTAAAGTAATTATTCT
1 GTGTAAAGTAATTATTCT
*
27798544 GTGTAAAGTAATTGTTCT
1 GTGTAAAGTAATTATTCT
27798562 ACTTATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (18 bp):
GTGTAAAGTAATTATTCT
Found at i:27798613 original size:35 final size:35
Alignment explanation
Indices: 27798574--27798648 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
27798564 TTATATTAGC
* * *
27798574 TGTTCCATATGAAGTAGCGTTTCACTTGTTCTAAT
1 TGTTCCACATGAAATAGCGCTTCACTTGTTCTAAT
** * *
27798609 TGTTCTGCGTGAAATAGTGCTTCACTTGTTCTAAT
1 TGTTCCACATGAAATAGCGCTTCACTTGTTCTAAT
27798644 TGTTC
1 TGTTC
27798649 TGCGTGGAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (35 bp):
TGTTCCACATGAAATAGCGCTTCACTTGTTCTAAT
Found at i:27798649 original size:35 final size:35
Alignment explanation
Indices: 27798594--27798672 Score: 131
Period size: 35 Copynumber: 2.3 Consensus size: 35
27798584 GAAGTAGCGT
*
27798594 TTCACTTGTTCTAATTGTTCTGCGTGAAATAGTGC
1 TTCACTTGTTCTAATTGTTCTGCGTGAAATAGTAC
* *
27798629 TTCACTTGTTCTAATTGTTCTGCGTGGAATATTAC
1 TTCACTTGTTCTAATTGTTCTGCGTGAAATAGTAC
27798664 TTCACTTGT
1 TTCACTTGT
27798673 AATGGTTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.46
Consensus pattern (35 bp):
TTCACTTGTTCTAATTGTTCTGCGTGAAATAGTAC
Found at i:27798682 original size:35 final size:35
Alignment explanation
Indices: 27798594--27798684 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 35
27798584 GAAGTAGCGT
** *
27798594 TTCACTTGTTCTAATTGTTCTGCGTGAAATAGTGC
1 TTCACTTGTAATAATTGTTCTGCGTGAAATAGTAC
** * *
27798629 TTCACTTGTTCTAATTGTTCTGCGTGGAATATTAC
1 TTCACTTGTAATAATTGTTCTGCGTGAAATAGTAC
**
27798664 TTCACTTGTAATGGTTGTTCT
1 TTCACTTGTAATAATTGTTCT
27798685 CATTGTTCTC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (35 bp):
TTCACTTGTAATAATTGTTCTGCGTGAAATAGTAC
Found at i:27800000 original size:14 final size:16
Alignment explanation
Indices: 27799981--27800013 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
27799971 AAGAAGAAGA
27799981 AAAAAAAAG-TT-ACT
1 AAAAAAAAGATTCACT
27799995 AAAAAAAAGATTCACT
1 AAAAAAAAGATTCACT
27800011 AAA
1 AAA
27800014 CCGACGTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 2 0.12
16 6 0.35
ACGTcount: A:0.67, C:0.09, G:0.06, T:0.18
Consensus pattern (16 bp):
AAAAAAAAGATTCACT
Found at i:27800697 original size:16 final size:17
Alignment explanation
Indices: 27800676--27800708 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27800666 ATAACGTGAC
*
27800676 AAAATTT-TTTATTTTA
1 AAAATTTGTTTAATTTA
27800692 AAAATTTGTTTAATTTA
1 AAAATTTGTTTAATTTA
27800709 TCACGTGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
AAAATTTGTTTAATTTA
Found at i:27801133 original size:9 final size:9
Alignment explanation
Indices: 27801119--27801143 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
27801109 GTAGCACTAC
27801119 TCTTCTCCA
1 TCTTCTCCA
27801128 TCTTCTCCA
1 TCTTCTCCA
27801137 TCTTCTC
1 TCTTCTC
27801144 TATATCACCA
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:0.08, C:0.44, G:0.00, T:0.48
Consensus pattern (9 bp):
TCTTCTCCA
Found at i:27807627 original size:54 final size:54
Alignment explanation
Indices: 27807566--27807673 Score: 171
Period size: 54 Copynumber: 2.0 Consensus size: 54
27807556 AGTTTTGGTA
* * **
27807566 TTATTTAGTTTTCATTATCCATAGGCTTTAAAAAAATTTCAATGTGTCTAGTTG
1 TTATTTAGTTTTCATTATCCATAAGCTTCAAAAAAATTTCAAAATGTCTAGTTG
*
27807620 TTATTTAGTTTTCATTATCTATAAGCTTCAAAAAAATTTCAAAATGTCTAGTTG
1 TTATTTAGTTTTCATTATCCATAAGCTTCAAAAAAATTTCAAAATGTCTAGTTG
27807674 AGGAATATGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (54 bp):
TTATTTAGTTTTCATTATCCATAAGCTTCAAAAAAATTTCAAAATGTCTAGTTG
Found at i:27812150 original size:35 final size:34
Alignment explanation
Indices: 27812087--27812160 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 34
27812077 TGTAATGTTG
* * *
27812087 TTTAAGTTGTTGTTTGGATATTTGTTTTT-AGTTA
1 TTTAAGTTGATATTTGGATATTTATTTTTGA-TTA
27812121 TTTAAGTTGATATTTGAGATATTTATTTTTGATTA
1 TTTAAGTTGATATTTG-GATATTTATTTTTGATTA
27812156 TTTAA
1 TTTAA
27812161 ATTTAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
34 14 0.40
35 20 0.57
36 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.59
Consensus pattern (34 bp):
TTTAAGTTGATATTTGGATATTTATTTTTGATTA
Found at i:27813388 original size:22 final size:23
Alignment explanation
Indices: 27813318--27813388 Score: 56
Period size: 25 Copynumber: 2.9 Consensus size: 23
27813308 ATGAACTATA
27813318 TATATATTATTTATGTTAAATTTTCT
1 TATA-ATTATTTAT-TTAAA-TTTCT
* *
27813344 TATATTTGATGTTA-TTATTATTT-T
1 TATAATT-AT-TTATTTA-AATTTCT
27813368 TATAATTATTTATTTAAATTT
1 TATAATTATTTATTTAAATTT
27813389 AAAAAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
22 7 0.19
23 5 0.14
24 7 0.19
25 8 0.22
26 7 0.19
27 3 0.08
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (23 bp):
TATAATTATTTATTTAAATTTCT
Found at i:27815644 original size:26 final size:26
Alignment explanation
Indices: 27815605--27815654 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
27815595 GACAAACTAA
* * *
27815605 AAATTAATACTTTATTTTTTAAAATT
1 AAATTAAAACTTTAATTATTAAAATT
*
27815631 AAATTAAAATTTTAATTATTAAAA
1 AAATTAAAACTTTAATTATTAAAA
27815655 AATATTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
AAATTAAAACTTTAATTATTAAAATT
Found at i:27815645 original size:19 final size:19
Alignment explanation
Indices: 27815621--27815683 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
27815611 ATACTTTATT
27815621 TTTTAAAATTAAATTAAAA
1 TTTTAAAATTAAATTAAAA
*
27815640 TTTTAATTATTAAA--AAATA
1 TTTTAA-AATTAAATTAAA-A
*
27815659 TTTTAAAATTTTAATTATAAA
1 TTTTAAAA-TTAAATTA-AAA
27815680 TTTT
1 TTTT
27815684 TAATATTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
18 4 0.11
19 17 0.49
20 6 0.17
21 6 0.17
22 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTAAAATTAAATTAAAA
Found at i:27815691 original size:22 final size:23
Alignment explanation
Indices: 27815634--27815696 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 23
27815624 TAAAATTAAA
27815634 TTAAAATTTTAATTATTAAAAAATATT
1 TTAAAATTTTAATTA-T---AAATATT
27815661 TTAAAATTTTAATTATAAAT-TT
1 TTAAAATTTTAATTATAAATATT
*
27815683 TTAATATTTTAATT
1 TTAAAATTTTAATT
27815697 TTTAAAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
22 15 0.43
23 4 0.11
26 1 0.03
27 15 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAAAATTTTAATTATAAATATT
Found at i:27835749 original size:21 final size:22
Alignment explanation
Indices: 27835725--27835769 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
27835715 ATAGATATTG
*
27835725 CTTTTATTGTTTT-CTTCTTTT
1 CTTTCATTGTTTTCCTTCTTTT
* *
27835746 CTTTCATTTTTTTCCTTTTTTT
1 CTTTCATTGTTTTCCTTCTTTT
27835768 CT
1 CT
27835770 CTCTTTCCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.76
Consensus pattern (22 bp):
CTTTCATTGTTTTCCTTCTTTT
Found at i:27847083 original size:23 final size:23
Alignment explanation
Indices: 27847049--27847095 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
27847039 AGCCTGTGAA
*
27847049 TTGGTCAAGAAAGATACAACCGT
1 TTGGTCAAGAAAGACACAACCGT
*
27847072 TTGGT-AAGGAAAGACACAGCCGT
1 TTGGTCAA-GAAAGACACAACCGT
27847095 T
1 T
27847096 CTTTTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (23 bp):
TTGGTCAAGAAAGACACAACCGT
Found at i:27860988 original size:22 final size:22
Alignment explanation
Indices: 27860878--27860989 Score: 95
Period size: 22 Copynumber: 5.1 Consensus size: 22
27860868 GTTTCAGTGG
* *
27860878 TTTTTAGGTATTGCATAA-TCGA
1 TTTTTAGATATTGCGTAACT-GA
* *
27860900 TTTTTAGATATTGTGTAACTAA
1 TTTTTAGATATTGCGTAACTGA
* *
27860922 TTTTTA-AGTATTGCGTTACTAA
1 TTTTTAGA-TATTGCGTAACTGA
* *
27860944 TTTTTA-AGTATTGCGTGATTGA
1 TTTTTAGA-TATTGCGTAACTGA
*
27860966 TTTATAGATATTGCGTAACTGA
1 TTTTTAGATATTGCGTAACTGA
27860988 TT
1 TT
27860990 GATATGACAT
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
21 1 0.01
22 72 0.96
23 2 0.03
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (22 bp):
TTTTTAGATATTGCGTAACTGA
Found at i:27861009 original size:23 final size:22
Alignment explanation
Indices: 27860953--27861053 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
27860943 ATTTTTAAGT
* * *
27860953 ATTGCGTGATTGATTTATAGAT
1 ATTGCGTGACTGATTGATAGAC
*
27860975 ATTGCGTAACTGATTGATATGAC
1 ATTGCGTGACTGATTGATA-GAC
* *
27860998 ATTGCGTGACTGGTTGATAGGC
1 ATTGCGTGACTGATTGATAGAC
* * * *
27861020 ATTACGTGACTGGTTAATAAGGC
1 ATTGCGTGACTGATTGAT-AGAC
27861043 ATTGCGTGACT
1 ATTGCGTGACT
27861054 AATTTTTAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
22 34 0.51
23 33 0.49
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.36
Consensus pattern (22 bp):
ATTGCGTGACTGATTGATAGAC
Found at i:27861027 original size:22 final size:22
Alignment explanation
Indices: 27860975--27861053 Score: 95
Period size: 23 Copynumber: 3.5 Consensus size: 22
27860965 ATTTATAGAT
* * *
27860975 ATTGCGTAACTGATTGATATGAC
1 ATTGCGTGACTGGTTGATA-GGC
27860998 ATTGCGTGACTGGTTGATAGGC
1 ATTGCGTGACTGGTTGATAGGC
* *
27861020 ATTACGTGACTGGTTAATAAGGC
1 ATTGCGTGACTGGTTGAT-AGGC
27861043 ATTGCGTGACT
1 ATTGCGTGACT
27861054 AATTTTTAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
22 18 0.37
23 31 0.63
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (22 bp):
ATTGCGTGACTGGTTGATAGGC
Found at i:27861108 original size:22 final size:22
Alignment explanation
Indices: 27861068--27861113 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
27861058 TTTAGATAAC
** *
27861068 AAAAATCAGTCACGTAATACTT
1 AAAAATCAGTCACACAATAATT
27861090 AAAAATCAGTCACACAATAATT
1 AAAAATCAGTCACACAATAATT
27861112 AA
1 AA
27861114 GTAATGCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (22 bp):
AAAAATCAGTCACACAATAATT
Found at i:27861168 original size:23 final size:22
Alignment explanation
Indices: 27861115--27861174 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 22
27861105 AATAATTAAG
*
27861115 TAATGCAATACCTAAAAACCAG
1 TAATGCAATACCTAAAAACCAA
** *
27861137 TAACACAATATCTTAAAAACCAA
1 TAATGCAATA-CCTAAAAACCAA
27861160 TAATGCAATACCTAA
1 TAATGCAATACCTAA
27861175 TACCTAATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.52, C:0.22, G:0.05, T:0.22
Consensus pattern (22 bp):
TAATGCAATACCTAAAAACCAA
Found at i:27895503 original size:3 final size:3
Alignment explanation
Indices: 27895495--27895530 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
27895485 TTGAGTGCTG
* *
27895495 TGA TGA TGA TGA TGA TGA TGA TGG TGA TGG TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
27895531 CCATATCGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.39, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:27901820 original size:8 final size:8
Alignment explanation
Indices: 27901807--27901849 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
27901797 ATTAATATAA
27901807 TTAAAATT
1 TTAAAATT
27901815 TTAAAATT
1 TTAAAATT
27901823 TTAAAATT
1 TTAAAATT
*
27901831 TTAAAATA
1 TTAAAATT
*
27901839 TTAATATT
1 TTAAAATT
27901847 TTA
1 TTA
27901850 TTTATTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
TTAAAATT
Found at i:27901882 original size:16 final size:16
Alignment explanation
Indices: 27901798--27901882 Score: 75
Period size: 16 Copynumber: 5.3 Consensus size: 16
27901788 ATTATCAATA
*
27901798 TTAATATAATTAAAATT
1 TTAATAT-ATTAAATTT
* * *
27901815 TTAAAATTTTAAAATT
1 TTAATATATTAAATTT
*
27901831 TTAAAATATT-AATATT
1 TTAATATATTAAAT-TT
* *
27901847 TT-ATTTATTAAATTA
1 TTAATATATTAAATTT
27901862 TTAATATATTAAATTT
1 TTAATATATTAAATTT
27901878 TTAAT
1 TTAAT
27901883 GAGTATAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
15 10 0.18
16 40 0.71
17 6 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATATATTAAATTT
Found at i:27901949 original size:14 final size:14
Alignment explanation
Indices: 27901932--27901963 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
27901922 ATAATATTAA
27901932 ATTATAAATAAAAT
1 ATTATAAATAAAAT
*
27901946 ATTATTAATAAAAT
1 ATTATAAATAAAAT
27901960 ATTA
1 ATTA
27901964 ATAATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTATAAATAAAAT
Found at i:27901968 original size:14 final size:14
Alignment explanation
Indices: 27901938--27901973 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
27901928 TTAAATTATA
*
27901938 AATAAAATATTATT
1 AATAAAATATTAAT
27901952 AATAAAATATTAAT
1 AATAAAATATTAAT
*
27901966 AATTAAAT
1 AATAAAAT
27901974 TATAGTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATAAAATATTAAT
Found at i:27901975 original size:26 final size:26
Alignment explanation
Indices: 27901946--27902086 Score: 109
Period size: 26 Copynumber: 5.6 Consensus size: 26
27901936 TAAATAAAAT
*
27901946 ATTATTAATAAAATATTAATAATTAA
1 ATTATTAATAAAATATTAATATTTAA
* *
27901972 ATTA-TAGTAAAATATTGATATTTAA
1 ATTATTAATAAAATATTAATATTTAA
*
27901997 ATTATTAAT----TATTAATATTTTA
1 ATTATTAATAAAATATTAATATTTAA
*
27902019 ATTAATT-ATAAATTATTAATATTTAA
1 ATT-ATTAATAAAATATTAATATTTAA
* * * * *
27902045 AATATAAATTAAAA-ATAAATAATTAT
1 ATTATTAA-TAAAATATTAATATTTAA
27902071 A-TATATAATAAAATAT
1 ATTAT-TAATAAAATAT
27902087 ATTTTTATTT
Statistics
Matches: 91, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
22 16 0.18
23 3 0.03
25 32 0.35
26 36 0.40
27 4 0.04
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (26 bp):
ATTATTAATAAAATATTAATATTTAA
Found at i:27902011 original size:40 final size:40
Alignment explanation
Indices: 27901926--27902011 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 40
27901916 ATCATAATAA
27901926 TATTAAATTATAAATAAAATATTATTAATAAAATATTAAT
1 TATTAAATTATAAATAAAATATTATTAATAAAATATTAAT
* * * *
27901966 AATTAAATTAT-AGTAAAATATTGA-TATTTAAATTATTAAT
1 TATTAAATTATAAATAAAATATT-ATTA-ATAAAATATTAAT
27902006 TATTAA
1 TATTAA
27902012 TATTTTAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
39 12 0.31
40 27 0.69
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (40 bp):
TATTAAATTATAAATAAAATATTATTAATAAAATATTAAT
Found at i:27902055 original size:33 final size:34
Alignment explanation
Indices: 27901994--27902087 Score: 93
Period size: 33 Copynumber: 2.7 Consensus size: 34
27901984 TATTGATATT
* * * **
27901994 TAAATTATTAAT-TATTAATATTTTAATTAATTA
1 TAAATTATTAATATATTAAAATATAAATTAAAAA
27902027 TAAATTATTAATAT-TTAAAATATAAATTAAAAA
1 TAAATTATTAATATATTAAAATATAAATTAAAAA
*
27902060 TAAATAATTATATATATAATAAAATATA
1 TAAATTATTA-ATATAT--TAAAATATA
27902088 TTTTTATTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
33 35 0.70
34 5 0.10
35 1 0.02
37 9 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (34 bp):
TAAATTATTAATATATTAAAATATAAATTAAAAA
Found at i:27919986 original size:3 final size:3
Alignment explanation
Indices: 27919978--27920002 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27919968 CTAAACAGCT
27919978 CCG CCG CCG CCG CCG CCG CCG CCG C
1 CCG CCG CCG CCG CCG CCG CCG CCG C
27920003 AATAAAATCC
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:0.00, C:0.68, G:0.32, T:0.00
Consensus pattern (3 bp):
CCG
Found at i:27929152 original size:87 final size:82
Alignment explanation
Indices: 27929004--27929188 Score: 223
Period size: 82 Copynumber: 2.2 Consensus size: 82
27928994 CAAGTTGTTT
* * * *
27929004 TTATCACA-ATT-TTGTAGGTTGCAGCCAAATTGCATTTTAATGCATATTATAGTTATCTTTTTT
1 TTATCACAGATTATTGTAAGTTGCAGCCAAATTGCATATTAATGCATATTATA---A--TTATAT
*
27929067 TTTTTATAGGAGCATGTTATAA
61 TTTTTATAAGAGCATGTTATAA
* *
27929089 TTATCACAGATTATTGTAAGTTGCAGCCAAATTGCATATT-ATGCGTGTTATAATTATAATTTTT
1 TTATCACAGATTATTGTAAGTTGCAGCCAAATTGCATATTAATGCATATTATAATTAT-ATTTTT
27929153 TATAAGAGCATGTTATAA
65 TATAAGAGCATGTTATAA
*
27929171 TTATCATAGATTATTGTA
1 TTATCACAGATTATTGTA
27929189 GACTTCTATC
Statistics
Matches: 89, Mismatches: 8, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
81 3 0.03
82 39 0.44
83 1 0.01
85 8 0.09
86 13 0.15
87 25 0.28
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (82 bp):
TTATCACAGATTATTGTAAGTTGCAGCCAAATTGCATATTAATGCATATTATAATTATATTTTTT
ATAAGAGCATGTTATAA
Found at i:27950164 original size:24 final size:24
Alignment explanation
Indices: 27950128--27950174 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
27950118 AACCTCGAGG
* * *
27950128 AAAAGAAACAAAATGAAAGAAAAA
1 AAAAAAAAAAAAAGGAAAGAAAAA
27950152 AAAAAAAAAAAAAGGAAAGAAAA
1 AAAAAAAAAAAAAGGAAAGAAAA
27950175 GAGAAGAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (24 bp):
AAAAAAAAAAAAAGGAAAGAAAAA
Found at i:27957607 original size:29 final size:29
Alignment explanation
Indices: 27957565--27957668 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 29
27957555 ATTATTAGTC
* *
27957565 ATAATAGTTTATTTAATTTAAATAAAAAT
1 ATAAAAGTTTATTTAATTTAAATAAAAGT
* *
27957594 ATAAAAGTTTATTTGATTCAAAATAAAAGT
1 ATAAAAGTTTATTTAATT-TAAATAAAAGT
* * *
27957624 ATAAGAGTTTGATTAAATGT-AATAAAAGT
1 ATAAAAGTTT-ATTTAATTTAAATAAAAGT
**
27957653 ATAAAAACTTATTTAA
1 ATAAAAGTTTATTTAA
27957669 ATTCTATTGA
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 5 0.08
29 32 0.53
30 18 0.30
31 5 0.08
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (29 bp):
ATAAAAGTTTATTTAATTTAAATAAAAGT
Found at i:27972573 original size:45 final size:45
Alignment explanation
Indices: 27972522--27972614 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
27972512 GGCTATTGTG
27972522 CAGAATGATACTTGGAAATCCCTGGAAGAAAACCAATTACTCACT
1 CAGAATGATACTTGGAAATCCCTGGAAGAAAACCAATTACTCACT
*
27972567 CAGAATGATACTTGGAAATCCCTGGAAGAAGACCAATTACTCACT
1 CAGAATGATACTTGGAAATCCCTGGAAGAAAACCAATTACTCACT
27972612 CAG
1 CAG
27972615 CCCCAGGTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.22
Consensus pattern (45 bp):
CAGAATGATACTTGGAAATCCCTGGAAGAAAACCAATTACTCACT
Found at i:27974893 original size:2 final size:2
Alignment explanation
Indices: 27974888--27974920 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
27974878 ATATTTTTTC
27974888 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
27974921 ACTATAATAT
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:27981341 original size:18 final size:18
Alignment explanation
Indices: 27981320--27981368 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
27981310 GGGTACTTCC
27981320 CCTCACA-GTGATAGCCCT
1 CCTCACATG-GATAGCCCT
*
27981338 CCTCACATGGATAGTCCT
1 CCTCACATGGATAGCCCT
*
27981356 CCTCACATAGATA
1 CCTCACATGGATA
27981369 TCCGCCAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (18 bp):
CCTCACATGGATAGCCCT
Found at i:27986639 original size:114 final size:111
Alignment explanation
Indices: 27986500--27986744 Score: 314
Period size: 114 Copynumber: 2.2 Consensus size: 111
27986490 TAGGAATAAT
* * * *
27986500 TATAATA-TTTT-TTTTACGTGCAGTTGAAAATGTATTACTTGTTAATACCTATATTTTTATAAT
1 TATAATACTTTTCTTTTATGTGCAGTTGAAAATGCATTACTTGTTAACACCTATATTTTCATAAT
*** * *
27986563 TTTAGATTTTTATTAGATTCAATAAATTGAGATTTTCTTTTCTGCTAAC
66 ACAAGATTTCTATTAGATTCAATAAATTGAAATTTTC---TCTGCTAAC
* * *
27986612 TATAATACTTTTCTTTTATGTGTAGTTGAAAATGCATTGCTTGTTAACACGTATATTTTCATAAT
1 TATAATACTTTTCTTTTATGTGCAGTTGAAAATGCATTACTTGTTAACACCTATATTTTCATAAT
* *
27986677 ACAAGATTTCTATTAGATTCAATAGATTGAAATTTTCTCTTCTAAC
66 ACAAGATTTCTATTAGATTCAATAAATTGAAATTTTCTCTGCTAAC
*
27986723 TATAATACTTTTCTTTTGTGTG
1 TATAATACTTTTCTTTTATGTG
27986745 ATGAATATTC
Statistics
Matches: 116, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
111 29 0.25
112 7 0.06
113 4 0.03
114 76 0.66
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (111 bp):
TATAATACTTTTCTTTTATGTGCAGTTGAAAATGCATTACTTGTTAACACCTATATTTTCATAAT
ACAAGATTTCTATTAGATTCAATAAATTGAAATTTTCTCTGCTAAC
Found at i:27988299 original size:26 final size:24
Alignment explanation
Indices: 27988270--27988366 Score: 110
Period size: 23 Copynumber: 4.0 Consensus size: 24
27988260 TTGATTTTTT
27988270 AAATATTAATAATTTATAATTAATTA
1 AAATATTAAT-ATTT-TAATTAATTA
*
27988296 AAATATTAATA-ATTAA-TAATTTA
1 AAATATTAATATTTTAATTAA-TTA
*
27988319 AAATATTAATATTTTAATATAATTT
1 AAATATTAATATTTTAAT-TAATTA
*
27988344 AATTATTAATA-TTTAATTAATTA
1 AAATATTAATATTTTAATTAATTA
27988367 TATTTTTATA
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
22 3 0.05
23 22 0.35
24 11 0.18
25 13 0.21
26 13 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AAATATTAATATTTTAATTAATTA
Found at i:27988328 original size:16 final size:16
Alignment explanation
Indices: 27988270--27988560 Score: 69
Period size: 16 Copynumber: 18.2 Consensus size: 16
27988260 TTGATTTTTT
27988270 AAATATTAATAATTTA
1 AAATATTAATAATTTA
*
27988286 TAATTAATTAA-AATATTA
1 -AAAT-ATTAATAAT-TTA
*
27988304 ATA-ATTAATAATTTA
1 AAATATTAATAATTTA
*
27988319 AAATATTAATATTTTA
1 AAATATTAATAATTTA
* *
27988335 ATATAATTTAATTA-TTA
1 AAAT-A-TTAATAATTTA
*
27988352 ATAT-TTAATTAA-TT-
1 AAATATTAA-TAATTTA
* * *
27988366 ATATTTTTATAATTTA
1 AAATATTAATAATTTA
* * *
27988382 ATATTATT-TTGA-TTA
1 A-AATATTAATAATTTA
27988397 AAATATTAATAAATTTTA
1 AAATATTAAT-AA-TTTA
*** * *
27988415 TTTTTATTTATACTCATTA
1 -AAATATTAATAAT--TTA
*
27988434 AAATTTTAAT-ATATTA
1 AAATATTAATAAT-TTA
*
27988450 ATAAT-TTAATAA-ATA
1 A-AATATTAATAATTTA
* *
27988465 AAACATTAATAGTTTA
1 AAATATTAATAATTTA
*
27988481 AAATATTAATATTTTA
1 AAATATTAATAATTTA
*
27988497 ATAAT-TTAATCATATT-
1 A-AATATTAATAAT-TTA
27988513 -AATATTAATAATGTT-
1 AAATATTAATAAT-TTA
* *
27988528 TAA-ATT-AT-ATATA
1 AAATATTAATAATTTA
*
27988541 AAATATTAATATTTTA
1 AAATATTAATAATTTA
27988557 AAAT
1 AAAT
27988561 TTACAAATAA
Statistics
Matches: 201, Mismatches: 43, Indels: 61
0.66 0.14 0.20
Matches are distributed among these distances:
12 1 0.00
13 4 0.02
14 26 0.13
15 47 0.23
16 63 0.31
17 29 0.14
18 22 0.11
19 9 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (16 bp):
AAATATTAATAATTTA
Found at i:27988341 original size:33 final size:34
Alignment explanation
Indices: 27988266--27988342 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 34
27988256 TTATTTGATT
*
27988266 TTTTAAAT-ATTAATAATTTATAATTAATTAAAA
1 TTTTAAATAATTAATAATTTATAAATAATTAAAA
* *
27988299 TATT-AATAATTAATAATTTA-AAAT-ATTAATA
1 TTTTAAATAATTAATAATTTATAAATAATTAAAA
27988330 TTTTAATATAATT
1 TTTTAA-ATAATT
27988343 TAATTATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
31 9 0.24
32 7 0.19
33 21 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (34 bp):
TTTTAAATAATTAATAATTTATAAATAATTAAAA
Found at i:27988380 original size:23 final size:23
Alignment explanation
Indices: 27988354--27988421 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
27988344 AATTATTAAT
27988354 ATTTAATTAATTATATTTTTATA
1 ATTTAATTAATTATATTTTTATA
*
27988377 ATTTAA-T-ATTAT-TTTGATTAAA
1 ATTTAATTAATTATATTT--TTATA
* *
27988399 ATATTAATAAATTTTATTTTTAT
1 AT-TTAATTAATTATATTTTTAT
27988422 TTATACTCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
20 3 0.09
21 5 0.14
22 7 0.20
23 10 0.29
24 3 0.09
25 4 0.11
26 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (23 bp):
ATTTAATTAATTATATTTTTATA
Found at i:27988450 original size:8 final size:8
Alignment explanation
Indices: 27988439--27988557 Score: 50
Period size: 8 Copynumber: 14.5 Consensus size: 8
27988429 CATTAAAATT
27988439 TTAATATA
1 TTAATATA
27988447 TTAATA-A
1 TTAATATA
27988454 TTTAATA-A
1 -TTAATATA
* * *
27988462 ATAAAACA
1 TTAATATA
27988470 TTAATAGT-
1 TTAATA-TA
*
27988478 TTAAAATA
1 TTAATATA
*
27988486 TTAATATT
1 TTAATATA
27988494 TTAATA-A
1 TTAATATA
27988501 TTTAATCATA
1 -TTAAT-ATA
27988511 TTAATATTA
1 TTAATA-TA
* *
27988520 ATAATGT-
1 TTAATATA
27988527 TTAAATTATA
1 TT-AA-TATA
*
27988537 TATAAAATA
1 T-TAATATA
*
27988546 TTAATATT
1 TTAATATA
27988554 TTAA
1 TTAA
27988558 AATTTACAAA
Statistics
Matches: 83, Mismatches: 16, Indels: 24
0.67 0.13 0.20
Matches are distributed among these distances:
7 7 0.08
8 53 0.64
9 18 0.22
10 4 0.05
11 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (8 bp):
TTAATATA
Found at i:27988520 original size:47 final size:49
Alignment explanation
Indices: 27988431--27988557 Score: 134
Period size: 47 Copynumber: 2.6 Consensus size: 49
27988421 TTTATACTCA
*
27988431 TTAAAATTTTAATATATTAATAATTTAATAAATAAAACATTAAT-A-GT
1 TTAAAATATTAATATATTAATAATTTAATAAATAAAACATTAATAATGT
* * * *
27988478 TTAAAATATTAATATTTTAATAATTTAAT-CATATTAATATTAATAATGT
1 TTAAAATATTAATATATTAATAATTTAATAAATA-AAACATTAATAATGT
* *
27988527 TTAAATTATATATAAAATATTAATATTTTAA
1 TTAAA--ATAT-TAATATATTAATAATTTAA
27988558 AATTTACAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
46 3 0.05
47 35 0.53
48 1 0.02
49 7 0.11
51 4 0.06
52 16 0.24
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (49 bp):
TTAAAATATTAATATATTAATAATTTAATAAATAAAACATTAATAATGT
Found at i:27988524 original size:23 final size:22
Alignment explanation
Indices: 27988444--27988524 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 22
27988434 AAATTTTAAT
* *
27988444 ATATTAATAATTTAATAAATAAA
1 ATATTAATAATTTAATATAT-TA
* * *
27988467 ACATTAATAGTTTAAAATATTA
1 ATATTAATAATTTAATATATTA
27988489 ATATTTTAATAATTTAATCATATTA
1 ATA--TTAATAATTTAAT-ATATTA
27988514 ATATTAATAAT
1 ATATTAATAAT
27988525 GTTTAAATTA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
22 3 0.06
23 24 0.51
24 11 0.23
25 9 0.19
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (22 bp):
ATATTAATAATTTAATATATTA
Found at i:27988592 original size:19 final size:19
Alignment explanation
Indices: 27988570--27988607 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
27988560 TTTACAAATA
27988570 ATTTATT-CTTTTTTATTTT
1 ATTTATTCCTTTTTT-TTTT
*
27988589 ATTTTTTCCTTTTTTTTTT
1 ATTTATTCCTTTTTTTTTT
27988608 CATGGGTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.82
Consensus pattern (19 bp):
ATTTATTCCTTTTTTTTTT
Found at i:28013812 original size:2 final size:2
Alignment explanation
Indices: 28013805--28013841 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
28013795 GAATTCTCAA
28013805 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 A
28013842 AATACAGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:28015922 original size:2 final size:2
Alignment explanation
Indices: 28015915--28015994 Score: 126
Period size: 2 Copynumber: 40.5 Consensus size: 2
28015905 TGTTTTGTTT
** *
28015915 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA NG TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
28015957 TA T- 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 TA TA T
28015995 GGAAGGCAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
1 1 0.01
2 71 0.99
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
TA
Found at i:28018387 original size:2 final size:2
Alignment explanation
Indices: 28018380--28018409 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
28018370 CAGAAGTCTT
28018380 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
28018410 ATACTTTGAT
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:28028728 original size:19 final size:19
Alignment explanation
Indices: 28028687--28028759 Score: 60
Period size: 18 Copynumber: 3.9 Consensus size: 19
28028677 ATGGAATTGC
*
28028687 AGAGAAAAGACAGAGAAAA
1 AGAGAAAAGAAAGAGAAAA
* * *
28028706 AGAGAAAAGAAAGTGAGAG
1 AGAGAAAAGAAAGAGAAAA
* * *
28028725 AGAG-AGAGAGAGAGAGAA
1 AGAGAAAAGAAAGAGAAAA
*
28028743 AGA-AAAAGAAAAAGAAA
1 AGAGAAAAGAAAGAGAAA
28028760 GCTTTTTGTT
Statistics
Matches: 41, Mismatches: 12, Indels: 3
0.73 0.21 0.05
Matches are distributed among these distances:
18 22 0.54
19 19 0.46
ACGTcount: A:0.66, C:0.01, G:0.32, T:0.01
Consensus pattern (19 bp):
AGAGAAAAGAAAGAGAAAA
Found at i:28033717 original size:2 final size:2
Alignment explanation
Indices: 28033710--28033755 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
28033700 AATATGTGAC
*
28033710 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28033752 AT AT
1 AT AT
28033756 TTACCCAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:28057310 original size:7 final size:7
Alignment explanation
Indices: 28057295--28057337 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
28057285 TATTGGACCC
*
28057295 CTAAAGG
1 CTAACGG
28057302 CTAACGG
1 CTAACGG
28057309 CTAACGG
1 CTAACGG
28057316 CTAACGG
1 CTAACGG
*
28057323 CTAAAGG
1 CTAACGG
*
28057330 TTAACGG
1 CTAACGG
28057337 C
1 C
28057338 CATTCCCGCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.33, C:0.23, G:0.28, T:0.16
Consensus pattern (7 bp):
CTAACGG
Found at i:28057317 original size:14 final size:14
Alignment explanation
Indices: 28057295--28057337 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
28057285 TATTGGACCC
28057295 CTAAAGGCTAACGG
1 CTAAAGGCTAACGG
*
28057309 CTAACGGCTAACGG
1 CTAAAGGCTAACGG
*
28057323 CTAAAGGTTAACGG
1 CTAAAGGCTAACGG
28057337 C
1 C
28057338 CATTCCCGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.28, T:0.16
Consensus pattern (14 bp):
CTAAAGGCTAACGG
Found at i:28057833 original size:35 final size:35
Alignment explanation
Indices: 28057789--28057861 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
28057779 TTTTCATCTT
*
28057789 TTTCATTTTACCCAATTATTCAATTCATTGATTTC
1 TTTCATTTTACCCAATTATTCAATTCACTGATTTC
* * * * *
28057824 TTTCTTTTTACCTAATTGTTTAGTTCACTGATTTC
1 TTTCATTTTACCCAATTATTCAATTCACTGATTTC
28057859 TTT
1 TTT
28057862 ATCATCTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.21, C:0.18, G:0.05, T:0.56
Consensus pattern (35 bp):
TTTCATTTTACCCAATTATTCAATTCACTGATTTC
Found at i:28062900 original size:28 final size:27
Alignment explanation
Indices: 28062861--28062927 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 27
28062851 AGAAAAAAAG
28062861 AAAAAAAAAACCCACCCTGAGATTTGA
1 AAAAAAAAAACCCACCCTGAGATTTGA
28062888 AAAAAAAAGAACCCACCCTGAGATTTGA
1 AAAAAAAA-AACCCACCCTGAGATTTGA
28062916 AAAAAAAAAACC
1 AAAAAAAAAACC
28062928 ACTTCAGCAG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 12 0.31
28 27 0.69
ACGTcount: A:0.57, C:0.21, G:0.10, T:0.12
Consensus pattern (27 bp):
AAAAAAAAAACCCACCCTGAGATTTGA
Found at i:28074353 original size:23 final size:22
Alignment explanation
Indices: 28074319--28074361 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
28074309 CTAGATACCA
*
28074319 ATAAACTCAAGAATTTGAAATTT
1 ATAAACTCAAG-ATTTCAAATTT
28074342 ATAAAC-CTAAGATTTCAAAT
1 ATAAACTC-AAGATTTCAAAT
28074362 AGATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.33
Consensus pattern (22 bp):
ATAAACTCAAGATTTCAAATTT
Found at i:28084555 original size:18 final size:18
Alignment explanation
Indices: 28084528--28084583 Score: 94
Period size: 18 Copynumber: 3.1 Consensus size: 18
28084518 AGAGCCCCAT
28084528 CTGGAGTAATCACTAGGC
1 CTGGAGTAATCACTAGGC
* *
28084546 CTGGAATAATCACTGGGC
1 CTGGAGTAATCACTAGGC
28084564 CTGGAGTAATCACTAGGC
1 CTGGAGTAATCACTAGGC
28084582 CT
1 CT
28084584 ATTACCCCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (18 bp):
CTGGAGTAATCACTAGGC
Found at i:28085871 original size:31 final size:31
Alignment explanation
Indices: 28085821--28085879 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
28085811 AGGGAGATTG
*
28085821 TTCTCTTTCCTTTTCTTTTCACAACAAAATA
1 TTCTCTTTCCTTATCTTTTCACAACAAAATA
*
28085852 TTCTCTTTCCTTCAT-TTTTCACAGCAAA
1 TTCTCTTTCCTT-ATCTTTTCACAACAAA
28085880 GAACCAGCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.24, C:0.27, G:0.02, T:0.47
Consensus pattern (31 bp):
TTCTCTTTCCTTATCTTTTCACAACAAAATA
Found at i:28087324 original size:2 final size:2
Alignment explanation
Indices: 28087317--28087353 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
28087307 GTCTCTTTCA
28087317 TC TC TC TC TC 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 TC TC TC TC TC T
28087354 TTGATTTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:28089314 original size:18 final size:18
Alignment explanation
Indices: 28089280--28089312 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
28089270 TGGAAATATT
28089280 CTTTTTTCTTTTCTTTTC
1 CTTTTTTCTTTTCTTTTC
28089298 CTTTTTT-TTTT-TTTT
1 CTTTTTTCTTTTCTTTT
28089313 TTTTTTAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 4 0.27
18 7 0.47
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (18 bp):
CTTTTTTCTTTTCTTTTC
Found at i:28097220 original size:19 final size:19
Alignment explanation
Indices: 28097188--28097225 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
28097178 ATGTCAAAAC
*
28097188 ACTAGTTTTTCTTCTGTCTT
1 ACTAGTTTTACTTCT-TCTT
28097208 ACTA-TTTTACTTCTTCTT
1 ACTAGTTTTACTTCTTCTT
28097226 TGTCTTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.13, C:0.21, G:0.05, T:0.61
Consensus pattern (19 bp):
ACTAGTTTTACTTCTTCTT
Found at i:28103973 original size:101 final size:101
Alignment explanation
Indices: 28103798--28104000 Score: 334
Period size: 101 Copynumber: 2.0 Consensus size: 101
28103788 CTCTTTAGGG
*
28103798 ATACTTCTTGTTCTTATAAAAATCCTTGTTGCATGAAATCAAGTTTATTGGTCAGAAGGGCAGAA
1 ATACTTCTTGTTCTTATAAAAATCCTTGTTGCATGAAATCAAGTTTATTGATCAGAAGGGCAGAA
*
28103863 ATGTATCAGGAATATACGAAGCAATTGCCCATCCCA
66 ATGTATCAGGAATATACGAAGCAATTACCCATCCCA
* * * * *
28103899 ATACTTCTTGTTCTTATAAAAATCCTTGTTTCCTGAGATCAGGTTTGTTGATCAGAAGGGCAGAA
1 ATACTTCTTGTTCTTATAAAAATCCTTGTTGCATGAAATCAAGTTTATTGATCAGAAGGGCAGAA
*
28103964 ATGTATCAGGAATATATGAAGCAATTACCCATCCCA
66 ATGTATCAGGAATATACGAAGCAATTACCCATCCCA
28104000 A
1 A
28104001 CACAGCGTGG
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 94 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (101 bp):
ATACTTCTTGTTCTTATAAAAATCCTTGTTGCATGAAATCAAGTTTATTGATCAGAAGGGCAGAA
ATGTATCAGGAATATACGAAGCAATTACCCATCCCA
Found at i:28114241 original size:18 final size:17
Alignment explanation
Indices: 28114218--28114259 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
28114208 GAGTTCATAT
28114218 CAAGCCAAACAG-TTGAG
1 CAAGCCAAACAGCTT-AG
28114235 ACAAGCCAAACAGCTTAG
1 -CAAGCCAAACAGCTTAG
28114253 CAAGCCA
1 CAAGCCA
28114260 GACATAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.30
18 14 0.61
19 2 0.09
ACGTcount: A:0.43, C:0.29, G:0.19, T:0.10
Consensus pattern (17 bp):
CAAGCCAAACAGCTTAG
Found at i:28115980 original size:4 final size:4
Alignment explanation
Indices: 28115971--28115997 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
28115961 AGCCAATTAT
28115971 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
28115998 CTTGACTGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:28126372 original size:115 final size:118
Alignment explanation
Indices: 28126165--28126394 Score: 369
Period size: 115 Copynumber: 2.0 Consensus size: 118
28126155 ATTTATTTAA
* * *
28126165 TATATATATATATTATTCTTTTGTACAACCCTAGCCATTAATGTTTAAGTCAAGGTTAGATTCAA
1 TATATATATATATTATTCTTTTGTACAACCATAGCCATGAATGTTCAAGTCAAGGTTAGATTCAA
28126230 CATTGAATTTGTTTCCACAGTAAAAAGTCAAGTAGGCAAAATGTAGCATGCTG
66 CATTGAATTTGTTTCCACAGTAAAAAGTCAAGTAGGCAAAATGTAGCATGCTG
*
28126283 TATATA-AT-TATTATTC-TTTGTA-AATCCATAGCCATGAATGTTCAAGTCAAGGTTAGATTTA
1 TATATATATATATTATTCTTTTGTACAA-CCATAGCCATGAATGTTCAAGTCAAGGTTAGATTCA
* *
28126344 ACATTGAATTTGTTTCCACTGTACAAAGTCAAGTAGGCAAAATGTAGCATG
65 ACATTGAATTTGTTTCCACAGTAAAAAGTCAAGTAGGCAAAATGTAGCATG
28126395 GTCCATTTGG
Statistics
Matches: 105, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
114 2 0.02
115 87 0.83
116 8 0.08
117 2 0.02
118 6 0.06
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.36
Consensus pattern (118 bp):
TATATATATATATTATTCTTTTGTACAACCATAGCCATGAATGTTCAAGTCAAGGTTAGATTCAA
CATTGAATTTGTTTCCACAGTAAAAAGTCAAGTAGGCAAAATGTAGCATGCTG
Found at i:28129162 original size:2 final size:2
Alignment explanation
Indices: 28129155--28129205 Score: 56
Period size: 2 Copynumber: 27.0 Consensus size: 2
28129145 ATATCAAAGT
*
28129155 TA TA TA TA CTA TA -A TA -A T- TA TA TT TA T- TA TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
28129194 TA TA TA TA TA TA
1 TA TA TA TA TA TA
28129206 CTAGCTTGAC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
1 4 0.10
2 36 0.86
3 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:28141819 original size:2 final size:2
Alignment explanation
Indices: 28141814--28141864 Score: 63
Period size: 2 Copynumber: 27.0 Consensus size: 2
28141804 TTCTTTTTTA
*
28141814 CT CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT AT C- CT -T CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
28141853 CT CT CT AT CT CT
1 CT CT CT CT CT CT
28141865 GCCAAATCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.04, C:0.45, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:28153516 original size:26 final size:28
Alignment explanation
Indices: 28153457--28153518 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 28
28153447 TTATAAAAAT
*
28153457 TTAAAT-AAATTTTAATTTTTTATTATA
1 TTAAATCAAATTTTAATTATTTATTATA
* *
28153484 TTCAATCAAATTTTTA-TATTT-TTATA
1 TTAAATCAAATTTTAATTATTTATTATA
28153510 TTAAATCAA
1 TTAAATCAA
28153519 TTAAGTCCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 13 0.43
27 9 0.30
28 8 0.27
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (28 bp):
TTAAATCAAATTTTAATTATTTATTATA
Found at i:28160335 original size:2 final size:2
Alignment explanation
Indices: 28160328--28160361 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
28160318 GTTCATTATT
28160328 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
28160362 NGGGGGGGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:28173404 original size:2 final size:2
Alignment explanation
Indices: 28173397--28173431 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
28173387 CGTTTTTGGA
28173397 TC TC TC TC -C TC TC TC TC TC TC TC -C TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
28173432 ACATGCTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:28173415 original size:13 final size:12
Alignment explanation
Indices: 28173397--28173431 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
28173387 CGTTTTTGGA
28173397 TCTCTCTC-CTC
1 TCTCTCTCTCTC
28173408 TCTCTCTCTCTC
1 TCTCTCTCTCTC
28173420 -CTCTCTCTCTC
1 TCTCTCTCTCTC
28173431 T
1 T
28173432 ACATGCTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.86
12 3 0.14
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (12 bp):
TCTCTCTCTCTC
Found at i:28173417 original size:15 final size:15
Alignment explanation
Indices: 28173397--28173431 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
28173387 CGTTTTTGGA
28173397 TCTCTCTCCTCTCTC
1 TCTCTCTCCTCTCTC
28173412 TCTCTCTCCTCTCTC
1 TCTCTCTCCTCTCTC
28173427 TCTCT
1 TCTCT
28173432 ACATGCTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (15 bp):
TCTCTCTCCTCTCTC
Found at i:28181337 original size:40 final size:41
Alignment explanation
Indices: 28181284--28181369 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 41
28181274 AAACCGCGTG
*
28181284 GGTTTTTAAGAAACCCTTGAATTTTTC-AAACCCTTAAACC
1 GGTTTTTAAGAAACCCTCGAATTTTTCAAAACCCTTAAACC
** * *
28181324 GGTTTTTTCGAAACCCTCGAATTTTTCAAAAGCTTTAAACC
1 GGTTTTTAAGAAACCCTCGAATTTTTCAAAACCCTTAAACC
28181365 GGTTT
1 GGTTT
28181370 CTCAAAAACC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 24 0.60
41 16 0.40
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (41 bp):
GGTTTTTAAGAAACCCTCGAATTTTTCAAAACCCTTAAACC
Found at i:28181379 original size:41 final size:40
Alignment explanation
Indices: 28181294--28181381 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
28181284 GGTTTTTAAG
* * *
28181294 AAACCCTTGAATTTTTCAAACCCTTAAACCGGTTTTTTCG
1 AAACCCTCGAATTTTTCAAACCCTTAAACCGGTTTTCTCA
* *
28181334 AAACCCTCGAATTTTTCAAAAGCTTTAAACCGG-TTTCTCAA
1 AAACCCTCGAATTTTTC-AAACCCTTAAACCGGTTTTCTC-A
28181375 AAACCCT
1 AAACCCT
28181382 TTAACCGTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 21 0.51
41 20 0.49
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.33
Consensus pattern (40 bp):
AAACCCTCGAATTTTTCAAACCCTTAAACCGGTTTTCTCA
Found at i:28181407 original size:14 final size:15
Alignment explanation
Indices: 28181384--28181416 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
28181374 AAAACCCTTT
*
28181384 AACCGTTTTTTTAA-
1 AACCGGTTTTTTAAC
28181398 AACCGGTTTTTTAAC
1 AACCGGTTTTTTAAC
28181413 AACC
1 AACC
28181417 CCCCAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.39
Consensus pattern (15 bp):
AACCGGTTTTTTAAC
Found at i:28189058 original size:28 final size:29
Alignment explanation
Indices: 28189026--28189083 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
28189016 TTAGAAAATA
*
28189026 TCATTATTAA-TTTTTCTTATTT-TCATTT
1 TCATTACTAATTTTTTC-TATTTATCATTT
*
28189054 TCATTCCTAATTTTTTCTATTTATCATTT
1 TCATTACTAATTTTTTCTATTTATCATTT
28189083 T
1 T
28189084 AATACCCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.66
Consensus pattern (29 bp):
TCATTACTAATTTTTTCTATTTATCATTT
Found at i:28192837 original size:117 final size:119
Alignment explanation
Indices: 28192600--28192841 Score: 332
Period size: 117 Copynumber: 2.0 Consensus size: 119
28192590 TTCCAGAAAC
* * * * *
28192600 CATACCTTCAGAACCGAAATGGCTGATTCCATTGATAAATGCAGTTCATCTGTGAATCATCATGC
1 CATACCTTCAAAACCAAAATGGCTGAATCCATCGATAAATGCAGTTCACCTGTGAA-CATCATGC
28192665 ACATGTCTTCAAGACAGACCTTCCCATTTAGCTCTCTTAGGTTGGGCAGCAGAAAGT
65 ACATGTCTTCAAGAC--ACCTTCCCATTTAGCTCTCTTAGGTTGGGCAGCAGAAAGT
28192722 CATACCTTCAAAACCCAAAATGGCT-AATCCTATCGATAAATGCAGTTCACCTGTG-A-ATCATG
1 CATACCTTCAAAA-CCAAAATGGCTGAATCC-ATCGATAAATGCAGTTCACCTGTGAACATCATG
* *
28192784 CACATGTCTTCAAGAC-CCTTCCCATTCT-GCTCTCTTCGGTTGGGCAGCCGAAAGT
64 CACATGTCTTCAAGACACCTTCCCATT-TAGCTCTCTTAGGTTGGGCAGCAGAAAGT
28192839 CAT
1 CAT
28192842 TTATTAGGCA
Statistics
Matches: 110, Mismatches: 7, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
117 38 0.35
118 1 0.01
120 22 0.20
122 17 0.15
123 32 0.29
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (119 bp):
CATACCTTCAAAACCAAAATGGCTGAATCCATCGATAAATGCAGTTCACCTGTGAACATCATGCA
CATGTCTTCAAGACACCTTCCCATTTAGCTCTCTTAGGTTGGGCAGCAGAAAGT
Found at i:28207535 original size:20 final size:21
Alignment explanation
Indices: 28207498--28207537 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
28207488 TTCAGTTGTC
*
28207498 AATTTTTAATATTTTTAATTA
1 AATTTTTAATATTATTAATTA
*
28207519 AATTTTT-ATGTTATTAATT
1 AATTTTTAATATTATTAATT
28207538 TGAGTCAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
AATTTTTAATATTATTAATTA
Found at i:28207824 original size:23 final size:22
Alignment explanation
Indices: 28207798--28207841 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
28207788 TATAAGATTT
*
28207798 ATTTGATAAAAAATATATAAAAA
1 ATTTAATAAAAAATA-ATAAAAA
* *
28207821 ATTTAATTAAACATAATAAAA
1 ATTTAATAAAAAATAATAAAA
28207842 TAATAAAGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (22 bp):
ATTTAATAAAAAATAATAAAAA
Found at i:28215231 original size:42 final size:41
Alignment explanation
Indices: 28215172--28215261 Score: 153
Period size: 42 Copynumber: 2.2 Consensus size: 41
28215162 ATTCAAGAGG
*
28215172 ATGTTGAATGCTATATACTTCGATGATTTTTGGTTTTCTTGA
1 ATGTTGAATCCTATATACTTCGATGATTTTTGGTTTTCTT-A
*
28215214 ATGTTGAATCCTATATACTTTGATGATTTTTGGTTTTCTTA
1 ATGTTGAATCCTATATACTTCGATGATTTTTGGTTTTCTTA
28215255 ATGTTGA
1 ATGTTGA
28215262 TATTGTCTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 8 0.17
42 38 0.83
ACGTcount: A:0.22, C:0.09, G:0.18, T:0.51
Consensus pattern (41 bp):
ATGTTGAATCCTATATACTTCGATGATTTTTGGTTTTCTTA
Found at i:28228629 original size:7 final size:7
Alignment explanation
Indices: 28228617--28228647 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
28228607 TTGGATGGAA
28228617 GCAGCAG
1 GCAGCAG
28228624 GCAGCAG
1 GCAGCAG
28228631 GCAGCAG
1 GCAGCAG
28228638 GCAGCAG
1 GCAGCAG
28228645 GCA
1 GCA
28228648 CCCGTGTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.42, T:0.00
Consensus pattern (7 bp):
GCAGCAG
Found at i:28256029 original size:12 final size:12
Alignment explanation
Indices: 28256012--28256039 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
28256002 GTTGATTAAG
28256012 TTTGTACTTAGT
1 TTTGTACTTAGT
28256024 TTTGTACTTAGT
1 TTTGTACTTAGT
28256036 TTTG
1 TTTG
28256040 AAGGAGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.18, T:0.61
Consensus pattern (12 bp):
TTTGTACTTAGT
Found at i:28268356 original size:24 final size:23
Alignment explanation
Indices: 28268329--28268373 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
28268319 ATCTAGTTAG
28268329 ATTAGAATAACAATTTCTAATTCT
1 ATTAGAATAA-AATTTCTAATTCT
* *
28268353 ATTAGGATAAGATTTCTAATT
1 ATTAGAATAAAATTTCTAATT
28268374 AAATTAGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (23 bp):
ATTAGAATAAAATTTCTAATTCT
Found at i:28268371 original size:23 final size:23
Alignment explanation
Indices: 28268341--28268386 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
28268331 TAGAATAACA
**
28268341 ATTTCTAATTCTATTAGGATAAG
1 ATTTCTAATTAAATTAGGATAAG
28268364 ATTTCTAATTAAATTAGGATAAG
1 ATTTCTAATTAAATTAGGATAAG
28268387 GTTATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (23 bp):
ATTTCTAATTAAATTAGGATAAG
Found at i:28286996 original size:19 final size:20
Alignment explanation
Indices: 28286958--28287009 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
28286948 ACATATAAAC
*
28286958 AAATAAAATTAAAATGAAAAA
1 AAAT-AAATAAAAATGAAAAA
28286979 AAATAAATAAAAAT-AAAAA
1 AAATAAATAAAAATGAAAAA
*
28286998 TAATAATATAAA
1 AAATAA-ATAAA
28287010 TTGAAATGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 10 0.36
20 14 0.50
21 4 0.14
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (20 bp):
AAATAAATAAAAATGAAAAA
Found at i:28293169 original size:8 final size:8
Alignment explanation
Indices: 28293156--28293212 Score: 73
Period size: 8 Copynumber: 7.4 Consensus size: 8
28293146 TAATGTGTGT
28293156 GTGCGTGC
1 GTGCGTGC
28293164 GTGCGTGC
1 GTGCGTGC
28293172 GTGCGTGC
1 GTGCGTGC
*
28293180 GTGCGTGT
1 GTGCGTGC
* *
28293188 GTGTGTGT
1 GTGCGTGC
28293196 GTGC--GC
1 GTGCGTGC
28293202 GTGCGTGC
1 GTGCGTGC
28293210 GTG
1 GTG
28293213 TGTGTGCATG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 5 0.12
8 38 0.88
ACGTcount: A:0.00, C:0.19, G:0.51, T:0.30
Consensus pattern (8 bp):
GTGCGTGC
Found at i:28293229 original size:34 final size:34
Alignment explanation
Indices: 28293152--28293232 Score: 72
Period size: 38 Copynumber: 2.3 Consensus size: 34
28293142 CTGATAATGT
* * *
28293152 GTGTGTGCGTGCGTGCGTGCGTGCGTGCGTGCGTGTGT
1 GTGTGTGTGCGCGTGCGTGCGTGCGTGC--GC--ATGT
* *
28293190 GTGTGTGTGCGCGTGCGTGCGTGTGTGTGCATGT
1 GTGTGTGTGCGCGTGCGTGCGTGCGTGCGCATGT
*
28293224 TTGTGTGTG
1 GTGTGTGTG
28293233 TTTGTGTGGA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
34 11 0.30
36 2 0.05
38 24 0.65
ACGTcount: A:0.01, C:0.15, G:0.48, T:0.36
Consensus pattern (34 bp):
GTGTGTGTGCGCGTGCGTGCGTGCGTGCGCATGT
Found at i:28300802 original size:2 final size:2
Alignment explanation
Indices: 28300795--28300884 Score: 157
Period size: 2 Copynumber: 46.0 Consensus size: 2
28300785 ATATTTACAG
28300795 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
28300836 AT -T AT NT 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 AT AT AT
28300877 AT AT AT AT
1 AT AT AT AT
28300885 TTATTATAAT
Statistics
Matches: 84, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
1 2 0.02
2 82 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:28304595 original size:2 final size:2
Alignment explanation
Indices: 28304583--28304611 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
28304573 GAAAATGTTG
28304583 TC TC T- 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
28304612 CCTGAGGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:28306801 original size:33 final size:34
Alignment explanation
Indices: 28306754--28306828 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
28306744 GTAGCCAGTA
* *
28306754 GGGCTTCTTTGGGTGCAT-AAACAATCAAAATTT
1 GGGCTTCTTGGGGTGCATGAAACAATCAAAACTT
*
28306787 GGGCTTCTTGGGGTGCATGAAACAGTCAAAACTT
1 GGGCTTCTTGGGGTGCATGAAACAATCAAAACTT
28306821 GGGCTTCT
1 GGGCTTCT
28306829 ACCTTGCTGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 17 0.45
34 21 0.55
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (34 bp):
GGGCTTCTTGGGGTGCATGAAACAATCAAAACTT
Found at i:28316474 original size:16 final size:18
Alignment explanation
Indices: 28316455--28316497 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 18
28316445 AAGAAAATAA
28316455 AAAGAGAGAGAG-AAGT-
1 AAAGAGAGAGAGTAAGTG
*
28316471 AAAGAGAGAGAGTGAGTG
1 AAAGAGAGAGAGTAAGTG
28316489 AAAGAGAGA
1 AAAGAGAGA
28316498 TGATGATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 12 0.50
17 3 0.12
18 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.40, T:0.07
Consensus pattern (18 bp):
AAAGAGAGAGAGTAAGTG
Found at i:28330230 original size:15 final size:15
Alignment explanation
Indices: 28330212--28330250 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
28330202 TTTACAATAC
*
28330212 AATATGATTACAGGT
1 AATATGATTACAAGT
28330227 AATATGATTACAAGT
1 AATATGATTACAAGT
*
28330242 AATGTGATT
1 AATATGATT
28330251 GTAGAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (15 bp):
AATATGATTACAAGT
Found at i:28330494 original size:33 final size:32
Alignment explanation
Indices: 28330451--28330514 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
28330441 TCATCTCTTA
28330451 AATATATTTTTAATATCATATATTTTATTTTT
1 AATATATTTTTAATATCATATATTTTATTTTT
* *
28330483 AATATAATTTTTTATATTATATATTTTATTTT
1 AATAT-ATTTTTAATATCATATATTTTATTTT
28330515 AATTTCTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (32 bp):
AATATATTTTTAATATCATATATTTTATTTTT
Found at i:28330500 original size:21 final size:22
Alignment explanation
Indices: 28330453--28330500 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
28330443 ATCTCTTAAA
*
28330453 TATATTTTTAATATCATATATT
1 TATATTTTTAATATAATATATT
*
28330475 T-TATTTTTAATATAAT-TTTT
1 TATATTTTTAATATAATATATT
28330495 TATATT
1 TATATT
28330501 ATATATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 18 0.78
22 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TATATTTTTAATATAATATATT
Found at i:28330568 original size:26 final size:26
Alignment explanation
Indices: 28330458--28330601 Score: 98
Period size: 26 Copynumber: 5.3 Consensus size: 26
28330448 TTAAATATAT
* *
28330458 TTTTAATATCATATATTTTATTTTTAA
1 TTTTAATTTCTTATATTTTA-TTTTAA
* *
28330485 -TATAATTTTTTATATTATATATTTT-A
1 TTTTAATTTCTTATATT-T-TATTTTAA
* * *
28330511 TTTTAATTTCTTTTACCTATATTATATAAA
1 TTTTAATTTC--TTA--TATTTTATTTTAA
28330541 TTTTAATTTCTTATATTTTATTTTAA
1 TTTTAATTTCTTATATTTTATTTTAA
*
28330567 TTTTTAA-ATCTTATATTATATATTTT-A
1 -TTTTAATTTCTTATATT-T-TATTTTAA
28330594 TTTTAATT
1 TTTTAATT
28330602 ATAATATTAT
Statistics
Matches: 91, Mismatches: 14, Indels: 24
0.71 0.11 0.19
Matches are distributed among these distances:
26 38 0.42
27 20 0.22
28 11 0.12
29 7 0.08
30 12 0.13
31 3 0.03
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTTAATTTCTTATATTTTATTTTAA
Found at i:28349036 original size:21 final size:21
Alignment explanation
Indices: 28349010--28349049 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
28349000 AATATAAAAA
28349010 TATTATATTATT-TTTTAATGT
1 TATTAT-TTATTATTTTAATGT
28349031 TATTATTTATTATTTTAAT
1 TATTATTTATTATTTTAAT
28349050 TACTTAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
TATTATTTATTATTTTAATGT
Found at i:28349277 original size:15 final size:15
Alignment explanation
Indices: 28349257--28349327 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
28349247 ATAAAGTTAT
28349257 ATTTTCAGCAATCAC
1 ATTTTCAGCAATCAC
*
28349272 ATTTTCAGCAATCAT
1 ATTTTCAGCAATCAC
*** *
28349287 ATACCCAGTAATCAC
1 ATTTTCAGCAATCAC
* *
28349302 ATTTTCAACAATTAC
1 ATTTTCAGCAATCAC
28349317 ATTTTCAGCAA
1 ATTTTCAGCAA
28349328 CGTACCAAAC
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (15 bp):
ATTTTCAGCAATCAC
Found at i:28351188 original size:9 final size:9
Alignment explanation
Indices: 28351159--28351195 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
28351149 GATCAAACTA
*
28351159 ATATTTTAT
1 ATATATTAT
28351168 ATATATTAAT
1 ATATATT-AT
28351178 ATATATTAT
1 ATATATTAT
28351187 ATATATTAT
1 ATATATTAT
28351196 TTTTAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 17 0.65
10 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
ATATATTAT
Found at i:28353746 original size:3 final size:3
Alignment explanation
Indices: 28353738--28353770 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
28353728 ACCAACAAAG
*
28353738 GAA GAA GAA GAC GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
28353771 CCAAAACCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.03, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:28364351 original size:2 final size:2
Alignment explanation
Indices: 28364344--28364369 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
28364334 ATTTGAAAAT
28364344 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
28364370 GCTTAATATG
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):
TA
Found at i:28365900 original size:30 final size:29
Alignment explanation
Indices: 28365828--28365928 Score: 139
Period size: 30 Copynumber: 3.4 Consensus size: 29
28365818 TAAAAAATTT
* *
28365828 AAATAAATTTTTATATTTTTATTATATTC
1 AAATAAATTTTTATATTTTTATTTTAATC
* *
28365857 AATTAAGTTTTTATATTTTTATTTTGAATC
1 AAATAAATTTTTATATTTTTATTTT-AATC
28365887 AAATAAATTTTTATATTTTTATTTTAAATC
1 AAATAAATTTTTATATTTTTATTTT-AATC
28365917 AAATAAGATTTT
1 AAATAA-ATTTT
28365929 GTGATTAATG
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
29 22 0.35
30 36 0.57
31 5 0.08
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (29 bp):
AAATAAATTTTTATATTTTTATTTTAATC
Found at i:28367034 original size:17 final size:19
Alignment explanation
Indices: 28367014--28367053 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
28367004 AGAAATTTTA
28367014 AAAAATTT-AAA-AAAAAT
1 AAAAATTTAAAATAAAAAT
28367031 AAAAATTTAAAATAAAAAT
1 AAAAATTTAAAATAAAAAT
28367050 AAAA
1 AAAA
28367054 TTATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.38
18 3 0.14
19 10 0.48
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAATTTAAAATAAAAAT
Found at i:28367035 original size:19 final size:20
Alignment explanation
Indices: 28367012--28367053 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 20
28367002 AGAGAAATTT
28367012 TAAAAAATTT-AAA-AAAAA
1 TAAAAAATTTAAAATAAAAA
28367030 T-AAAAATTTAAAATAAAAA
1 TAAAAAATTTAAAATAAAAA
28367049 TAAAA
1 TAAAA
28367054 TTATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 6 0.29
20 3 0.14
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAAAAATTTAAAATAAAAA
Found at i:28373250 original size:534 final size:540
Alignment explanation
Indices: 28372220--28373280 Score: 1473
Period size: 534 Copynumber: 2.0 Consensus size: 540
28372210 TATAGTTTTA
* * *
28372220 TCAACGAATTGGAGTGGAAAGTACCATGTTAGAGAATATAAATTAGTATATTTTAGAGCTAGCTG
1 TCAACGAATTGGAGTGGAAACTACCATGTTAGAGAATATAAATTAGTACATTTAAGAGCTAGCTG
* *
28372285 ATCAAATTAATTACATAATACTACAAAGCTTAGCACAAATATGAAGTTTAGGGAAGGCACATCAT
66 ATCAAATTAATTACATAATACCACAAAGCTTAGCACAAATATGAAGTTTAGGGAAGGCACACCAT
* * * *
28372350 GATCAATTTCTCTGAAAATTTAGTTCAATATTAATATTTAATTTTTTTTGTTTTATAATTGAGAG
131 GATCAATTTCTCTGAAAATTTAGTTCAACATTAATATCTAA-TTTTTTTGTTTTATAATTGAAAA
* * * * *
28372415 AAAGAAAATTCGAACTCTATTCTTTATATAAAAAAATTATGTACCAATTAATGAATTAAACGTTC
195 AAAAAAAATTCAAACTCTATTCTTTATATAAAAAAATTATATACCAATCAATGAATCAAACGTTC
* * * *
28372480 GGGTGTCATTTTCTTTTTGAATAGTATAATATTCGATTCTTGAAGGCTTAAAAAAAGTAATAAGC
260 -GGAGT-ATTTTCTTTTTGAATAATATAATATTCGATTCTTGAAAGCTAAAAAAAAGTAAT-A-C
** *
28372545 TTTTGTGAACTTTGAATTGGATTCGTGTTTGAATGACAAAAAGGAAACACTAGGAACTGGACAGG
321 TTTCATGAACTTTGAATTGGATTCGTGTTTGAATGACAAAAAGGAAACACTAGGAACTAGACAGG
* * **
28372610 AGAAACGGGTGGAAGCTAGGAATTAGATTCCACATGAAAATGAGGAGAAAAGCTCCAACTGTAAT
386 AAAAAAGGGTGGAAGCTAGGAATTAGATTCCACATGAAAATGAAAAGAAAAGCTCCAACTGTAAT
*
28372675 GGTGGGAGTAGCCCAACTTACACAAAATAATTAGTCCTGGTAATTTAACTATGAGGGCACACATT
451 GGTGGGAGTAGCCCAACTTACACAAAATAATTAGTCCTGGTAATTTAACTATGAGGGAACACATT
28372740 AAATCTGTGCACCCAGTTCCGCTTG
516 AAATCTGTGCACCCAGTTCCGCTTG
* * *
28372765 TCAATGAATTTGAGTGGAAACTACCATGTTGGAGAATATAAATTAGTACATTTAAGAGCTAGCTG
1 TCAACGAATTGGAGTGGAAACTACCATGTTAGAGAATATAAATTAGTACATTTAAGAGCTAGCTG
*
28372830 ATCAAATTAATTACATAATACCACACAAAGCTTAGCACAAATATGTAGTTTAGGGAAGGCACACC
66 ATCAAATTAATTACATAATA-C-CACAAAGCTTAGCACAAATATGAAGTTTAGGGAAGGCACACC
* * *
28372895 CTGATCAA-TTCTTCTGAAACTTTAGTTCAACATTAATATCTGA-TTTTTT-TTTTATAATTGAA
129 ATGATCAATTTC-TCTGAAAATTTAGTTCAACATTAATATCTAATTTTTTTGTTTTATAATTGAA
* * * * * * *
28372957 AAAAAAAACAATTTAAACTTTATTCTTTA-AGTAGAGAAATTATATACTAATCAATGAGTCAAAT
193 AAAAAAAA-AATTCAAACTCTATTCTTTATA-TAAAAAAATTATATACCAATCAATGAATCAAAC
* *
28373021 GTTC-GAGT-TTTT-TTTTT-AA-AATATAATATTTGATTTTTGAAAGCTAAAAGAAAAGT-AT-
256 GTTCGGAGTATTTTCTTTTTGAATAATATAATATTCGATTCTTGAAAGCTAAAA-AAAAGTAATA
* * *
28373079 C-TTCATGAACTTTGAATTTGATTCGTGTTTGAATGACATAAAGGAAACACTAGGAATTAGACAG
320 CTTTCATGAACTTTGAATTGGATTCGTGTTTGAATGACAAAAAGGAAACACTAGGAACTAGACAG
* *
28373143 GAAAAAAGGGTGGAAGCTATGAATTAGATTCCACATGAAGATGAAAAGAAAAGCTCCAA-TAGTA
385 GAAAAAAGGGTGGAAGCTAGGAATTAGATTCCACATGAAAATGAAAAGAAAAGCTCCAACT-GTA
* * *
28373207 ATGGTGGGAGTAGCCCAACTTACTCAAATTAGTTAGTCCTGGTAATTTAACTATGAGGGAACACA
449 ATGGTGGGAGTAGCCCAACTTACACAAAATAATTAGTCCTGGTAATTTAACTATGAGGGAACACA
28373272 TTAAATCTG
514 TTAAATCTG
28373281 CAGCTGAATA
Statistics
Matches: 459, Mismatches: 50, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
533 1 0.00
534 183 0.40
535 1 0.00
538 27 0.06
539 8 0.02
540 5 0.01
541 4 0.01
543 3 0.01
544 19 0.04
545 131 0.29
546 4 0.01
547 73 0.16
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.32
Consensus pattern (540 bp):
TCAACGAATTGGAGTGGAAACTACCATGTTAGAGAATATAAATTAGTACATTTAAGAGCTAGCTG
ATCAAATTAATTACATAATACCACAAAGCTTAGCACAAATATGAAGTTTAGGGAAGGCACACCAT
GATCAATTTCTCTGAAAATTTAGTTCAACATTAATATCTAATTTTTTTGTTTTATAATTGAAAAA
AAAAAAATTCAAACTCTATTCTTTATATAAAAAAATTATATACCAATCAATGAATCAAACGTTCG
GAGTATTTTCTTTTTGAATAATATAATATTCGATTCTTGAAAGCTAAAAAAAAGTAATACTTTCA
TGAACTTTGAATTGGATTCGTGTTTGAATGACAAAAAGGAAACACTAGGAACTAGACAGGAAAAA
AGGGTGGAAGCTAGGAATTAGATTCCACATGAAAATGAAAAGAAAAGCTCCAACTGTAATGGTGG
GAGTAGCCCAACTTACACAAAATAATTAGTCCTGGTAATTTAACTATGAGGGAACACATTAAATC
TGTGCACCCAGTTCCGCTTG
Found at i:28377363 original size:306 final size:303
Alignment explanation
Indices: 28376544--28377487 Score: 1457
Period size: 306 Copynumber: 3.1 Consensus size: 303
28376534 AGCGGCAGAA
* *
28376544 CCTCATGATGACAACCAGAAACAGGATGAGAAAGGTTAGTCAGTACAGCATTTTCTTGCCATTAT
1 CCTCATGTTGACAACCAGAAACAGGATGAGAAAGGTTAGTCAGTAAAGCATTTTCTTGCCATTAT
* *
28376609 ATAGTTGGCTATTTACAATCCCAATGATTGCT-AAATTGTTTTTTCTATG-TATAATGATGGACT
66 ATAGTTGTCTATTTACAATCCCAATGATTGCTAAAATTG-TTTTTCTATGATATGATGATGGACT
*
28376672 GGCGCAGAAGACCATAGTAACATAATTCCTGAAGCCAAAGAAAAATCCTTGCAAGAAGCTGCTTA
130 GGCGCAGAAGACCATAGTAACATAATTCCTGAAGCTAAAGAAAAATCCTTGCAAGAAGCTGCTTA
* *
28376737 CACAGAAGAGGCAACAGGACAAGATTGTTTAGTTCCTGCAGCTGAAGATAAAAATATTCATGGAA
195 CACAGATGAGGCAACAGGACAAGATTGTTTAGTTCCTGCAGCTGAAGATAAAAATACTCATGGAA
* * *
28376802 ATGAGACAGATTTAGTTTCGAGTGAACCTGATGGAATAGCATCG
260 ATGAGACAGATTTGGTTTCTAGTGAACCTGATGGAATAGCATCT
28376846 CCTCATGTTGACAACCAGAAACAGGATGAG-AA----AG---GTAAAGCATTTTCTTGCCATTAT
1 CCTCATGTTGACAACCAGAAACAGGATGAGAAAGGTTAGTCAGTAAAGCATTTTCTTGCCATTAT
* *
28376903 AT-GCTTGTCTATTTCCAA-CCCGAATGATTGCTAAAATT-TTTTTCTATGTATAATGACGATGG
66 ATAG-TTGTCTATTTACAATCCC-AATGATTGCTAAAATTGTTTTTCTATG-AT-ATGATGATGG
*
28376965 ACTGGCGCAGAAGACCATAGTAACATAATTCCTGAAGCTAAGGAAAAATCCTTGCAAGAAGCTGC
127 ACTGGCGCAGAAGACCATAGTAACATAATTCCTGAAGCTAAAGAAAAATCCTTGCAAGAAGCTGC
* *
28377030 TTACACAGATGAGGCAACAGGACAAGATTGTTTGGTTCCTGCAGCTGAAAATAAAAATACTCATG
192 TTACACAGATGAGGCAACAGGACAAGATTGTTTAGTTCCTGCAGCTGAAGATAAAAATACTCATG
* *
28377095 GAAATAAGACAGATTTGGTTTTTAGTGAACCTGATGGAATAGCATCT
257 GAAATGAGACAGATTTGGTTTCTAGTGAACCTGATGGAATAGCATCT
* *
28377142 CCTCATGTTGACAACCAGAAACAGGATAAGAAAGGTTAGTCAGTAAAGCATTTTCTTGCCACTAT
1 CCTCATGTTGACAACCAGAAACAGGATGAGAAAGGTTAGTCAGTAAAGCATTTTCTTGCCATTAT
28377207 ATAGTTGTCTATTTACAATCCCAATGATTGCTAAAATATGTTTTTCTATGCATGATGATGATGGA
66 ATAGTTGTCTATTTACAATCCCAATGATTGCTAAAAT-TGTTTTTCTATG-AT-ATGATGATGGA
* * *
28377272 CTGGCTCAGAAGA-CAGTAGTAACATAATTCCTGAAGCTAATGAAAAATCCTTGCAAGGAGCTGC
128 CTGGCGCAGAAGACCA-TAGTAACATAATTCCTGAAGCTAAAGAAAAATCCTTGCAAGAAGCTGC
* ** *
28377336 TTACTCAGATGAGGCAACAGGACAAGATAATTTAGTTCCTGCAGCTGAAGATAAAAATTCTCATG
192 TTACACAGATGAGGCAACAGGACAAGATTGTTTAGTTCCTGCAGCTGAAGATAAAAATACTCATG
*
28377401 GAAATGAGCCAGATTTGGTTTCTAGTGAACCTGATGGAATAGCATCT
257 GAAATGAGACAGATTTGGTTTCTAGTGAACCTGATGGAATAGCATCT
*
28377448 CCTCATGTTGACAACCAGAAGCAGGATGAGAAAGGTTAGT
1 CCTCATGTTGACAACCAGAAACAGGATGAGAAAGGTTAGT
28377488 TCATAGCGTA
Statistics
Matches: 586, Mismatches: 37, Indels: 34
0.89 0.06 0.05
Matches are distributed among these distances:
293 14 0.02
294 46 0.08
295 6 0.01
296 203 0.35
297 4 0.01
301 4 0.01
302 29 0.05
304 52 0.09
305 7 0.01
306 221 0.38
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (303 bp):
CCTCATGTTGACAACCAGAAACAGGATGAGAAAGGTTAGTCAGTAAAGCATTTTCTTGCCATTAT
ATAGTTGTCTATTTACAATCCCAATGATTGCTAAAATTGTTTTTCTATGATATGATGATGGACTG
GCGCAGAAGACCATAGTAACATAATTCCTGAAGCTAAAGAAAAATCCTTGCAAGAAGCTGCTTAC
ACAGATGAGGCAACAGGACAAGATTGTTTAGTTCCTGCAGCTGAAGATAAAAATACTCATGGAAA
TGAGACAGATTTGGTTTCTAGTGAACCTGATGGAATAGCATCT
Found at i:28401150 original size:21 final size:22
Alignment explanation
Indices: 28401124--28401167 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
28401114 ACTTTTTTGC
*
28401124 TATTGTCTTT-TGT-TTTCCTTT
1 TATTGT-TTTATGTCTTGCCTTT
28401145 TATTGTTTTATGTCTTGCCTTT
1 TATTGTTTTATGTCTTGCCTTT
28401167 T
1 T
28401168 GCTTTCTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 3 0.15
21 9 0.45
22 8 0.40
ACGTcount: A:0.07, C:0.14, G:0.11, T:0.68
Consensus pattern (22 bp):
TATTGTTTTATGTCTTGCCTTT
Found at i:28410569 original size:2 final size:2
Alignment explanation
Indices: 28410557--28410627 Score: 85
Period size: 2 Copynumber: 37.0 Consensus size: 2
28410547 ACAAGGCAAG
* * *
28410557 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A T- TG TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
28410597 NA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
28410628 AATTTGTGGG
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
1 3 0.05
2 59 0.95
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:28418174 original size:2 final size:2
Alignment explanation
Indices: 28418167--28418202 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
28418157 TTTCTATGAG
28418167 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
28418203 TATTTTTGAG
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:28429880 original size:19 final size:20
Alignment explanation
Indices: 28429856--28429893 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
28429846 ACTGAGGCCG
*
28429856 GGACGTTGT-AAAGACACCT
1 GGACGTTATGAAAGACACCT
28429875 GGACGTTATGAAAGACACC
1 GGACGTTATGAAAGACACC
28429894 AATTGTGGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.18
Consensus pattern (20 bp):
GGACGTTATGAAAGACACCT
Found at i:28432592 original size:40 final size:40
Alignment explanation
Indices: 28432548--28432626 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
28432538 TTATGAAAGA
* *
28432548 CACCAATCGTGGCGAGGTTGAAAACCCCACTAAGGTGAAT
1 CACCAATCGTGACAAGGTTGAAAACCCCACTAAGGTGAAT
* *
28432588 CACCAATCTTGACAAGGTTGAAAACTCCACTAAGGTGAA
1 CACCAATCGTGACAAGGTTGAAAACCCCACTAAGGTGAA
28432627 AAATAGCCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (40 bp):
CACCAATCGTGACAAGGTTGAAAACCCCACTAAGGTGAAT
Found at i:28433387 original size:2 final size:2
Alignment explanation
Indices: 28433380--28433447 Score: 118
Period size: 2 Copynumber: 33.5 Consensus size: 2
28433370 CAACTAAATC
28433380 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT 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 AT AT
*
28433423 AT AT AT AT AT AT AA AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
28433448 AAGGATCATT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 61 0.97
3 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:28435116 original size:17 final size:17
Alignment explanation
Indices: 28435094--28435126 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
28435084 ATCAAGTTGC
28435094 AGATTTGGTGAGTTTTG
1 AGATTTGGTGAGTTTTG
*
28435111 AGATTTGGTTAGTTTT
1 AGATTTGGTGAGTTTT
28435127 TCTCTTTTTT
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:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (17 bp):
AGATTTGGTGAGTTTTG
Found at i:28438714 original size:17 final size:17
Alignment explanation
Indices: 28438688--28438721 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
28438678 GTAACATTTT
* *
28438688 AAATTTTTTTATTTTAA
1 AAATTATTTTAATTTAA
28438705 AAATTATTTTAATTTAA
1 AAATTATTTTAATTTAA
28438722 TTTTTCTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AAATTATTTTAATTTAA
Done.