Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 104 of 121
Found at i:17661227 original size:26 final size:26
Alignment explanation
Indices: 17661191--17661251 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
17661181 TGAACATCAT
*
17661191 GGGCCTAATTGG-GCCAGGACGTCAAC
1 GGGCCTAATTGGACCCA-GACGTCAAC
*
17661217 GGGCCTAATTGGACCCAGACGTCAAT
1 GGGCCTAATTGGACCCAGACGTCAAC
17661243 GGGCCTAAT
1 GGGCCTAAT
17661252 AAGACCCGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 29 0.91
27 3 0.09
ACGTcount: A:0.25, C:0.26, G:0.31, T:0.18
Consensus pattern (26 bp):
GGGCCTAATTGGACCCAGACGTCAAC
Found at i:17661257 original size:26 final size:26
Alignment explanation
Indices: 17661208--17661258 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
17661198 ATTGGGCCAG
**
17661208 GACGTCAACGGGCCTAATTGGACCCA
1 GACGTCAACGGGCCTAATAAGACCCA
*
17661234 GACGTCAATGGGCCTAATAAGACCC
1 GACGTCAACGGGCCTAATAAGACCC
17661259 GGATATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.16
Consensus pattern (26 bp):
GACGTCAACGGGCCTAATAAGACCCA
Found at i:17665039 original size:24 final size:20
Alignment explanation
Indices: 17665012--17665059 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 20
17665002 TTTAAATTTT
17665012 TTAAAAAATTAAATTTTGACTTAA
1 TTAAAAAA-T-AA-TTTGA-TTAA
*
17665036 TTAAACAATAATTTGATTAA
1 TTAAAAAATAATTTGATTAA
17665056 TTAA
1 TTAA
17665060 TCATCTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 8 0.35
21 5 0.22
22 2 0.09
23 1 0.04
24 7 0.30
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (20 bp):
TTAAAAAATAATTTGATTAA
Found at i:17675406 original size:16 final size:17
Alignment explanation
Indices: 17675370--17675427 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 17
17675360 AAAAAATATT
*
17675370 TTAAAAATTAAACTTTAAA
1 TTAAAAA-TAAA-TCTAAA
17675389 TTAAAAAT-AATCTAAA
1 TTAAAAATAAATCTAAA
*
17675405 TT-CAAATAAATC-AAA
1 TTAAAAATAAATCTAAA
*
17675420 TAAAAAAT
1 TTAAAAAT
17675428 TATTTGAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
15 8 0.24
16 15 0.45
17 2 0.06
18 1 0.03
19 7 0.21
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAAAATAAATCTAAA
Found at i:17675812 original size:5 final size:5
Alignment explanation
Indices: 17675802--17675847 Score: 76
Period size: 5 Copynumber: 9.2 Consensus size: 5
17675792 TTGCTCATCT
17675802 TTATA TTATA TTATA TTATA TTATA TTATA TTATA -TATA TATATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T-TATA T
17675848 AGAGTAAGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.10
5 30 0.77
6 5 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:17675848 original size:10 final size:10
Alignment explanation
Indices: 17675803--17675848 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 10
17675793 TGCTCATCTT
17675803 TATAT-TATA
1 TATATATATA
17675812 T-TATAT-TA
1 TATATATATA
17675820 TAT-TATAT-
1 TATATATATA
17675828 TATAT-TATA
1 TATATATATA
17675837 TATATATATA
1 TATATATATA
17675847 TA
1 TA
17675849 GAGTAAGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
8 15 0.48
9 10 0.32
10 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TATATATATA
Found at i:17676478 original size:5 final size:5
Alignment explanation
Indices: 17676468--17676515 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
17676458 TAAATAAGAT
*
17676468 TATGA TATGA TA-G- GATGA TATGA TATGA TATGA TAT-- TATGAA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATG-A TATGA
17676515 T
1 T
17676516 TAAATTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.11
4 2 0.06
5 26 0.72
6 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.40
Consensus pattern (5 bp):
TATGA
Found at i:17676491 original size:18 final size:18
Alignment explanation
Indices: 17676466--17676515 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
17676456 GATAAATAAG
17676466 ATTATGATATGATAGGAT
1 ATTATGATATGATAGGAT
*
17676484 GA-TATGATATGATATGAT
1 -ATTATGATATGATAGGAT
17676502 ATTATGAATATGAT
1 ATTATG-ATATGAT
17676516 TAAATTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 1 0.04
18 19 0.68
19 8 0.29
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (18 bp):
ATTATGATATGATAGGAT
Found at i:17676507 original size:13 final size:13
Alignment explanation
Indices: 17676466--17676515 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
17676456 GATAAATAAG
17676466 ATTATGATATGAT
1 ATTATGATATGAT
**
17676479 AGGATGATATG--
1 ATTATGATATGAT
17676490 A-TATGATATGAT
1 ATTATGATATGAT
17676502 ATTATGAATATGAT
1 ATTATG-ATATGAT
17676516 TAAATTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
10 8 0.27
11 1 0.03
12 1 0.03
13 13 0.43
14 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (13 bp):
ATTATGATATGAT
Found at i:17677507 original size:23 final size:23
Alignment explanation
Indices: 17677472--17677574 Score: 102
Period size: 23 Copynumber: 4.4 Consensus size: 23
17677462 TGATAGTCAG
17677472 TTGCATGATTTTATTATGATACTT
1 TTGCATGA-TTTATTATGATACTT
* *
17677496 TTGTATGATTTATTATGATATTT
1 TTGCATGATTTATTATGATACTT
* *
17677519 TTGCATGATTTATTATTAT-GTT
1 TTGCATGATTTATTATGATACTT
** *
17677541 TTATTATGCTTCTA-TATGATACTT
1 TT-GCATGATT-TATTATGATACTT
17677565 TTGCATGATT
1 TTGCATGATT
17677575 ATTTGCATGA
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
22 4 0.06
23 46 0.73
24 13 0.21
ACGTcount: A:0.24, C:0.07, G:0.13, T:0.56
Consensus pattern (23 bp):
TTGCATGATTTATTATGATACTT
Found at i:17677628 original size:31 final size:31
Alignment explanation
Indices: 17677564--17677628 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
17677554 ATATGATACT
**
17677564 TTTGCATGATTATTTGCATGAATTTTATTTA
1 TTTGCATGATTATTTGCATGAATTTTACCTA
* *
17677595 TTTGCATGATTTTTTTGCAT-ATTTTTACCTA
1 TTTGCATGA-TTATTTGCATGAATTTTACCTA
17677626 TTT
1 TTT
17677629 TAATTATGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 20 0.69
32 9 0.31
ACGTcount: A:0.22, C:0.09, G:0.11, T:0.58
Consensus pattern (31 bp):
TTTGCATGATTATTTGCATGAATTTTACCTA
Found at i:17678682 original size:28 final size:29
Alignment explanation
Indices: 17678640--17678699 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
17678630 ACTACTTAAA
17678640 TTATTTTTTACATTGAA-TTT-TATTTGT
1 TTATTTTTTACATTGAATTTTGTATTTGT
*
17678667 TTATTTCTTTATATTGAATTTTGTATTTGT
1 TTATTT-TTTACATTGAATTTTGTATTTGT
17678697 TTA
1 TTA
17678700 AATATAACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 6 0.21
28 10 0.34
29 3 0.10
30 10 0.34
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.67
Consensus pattern (29 bp):
TTATTTTTTACATTGAATTTTGTATTTGT
Found at i:17679044 original size:52 final size:52
Alignment explanation
Indices: 17678982--17679106 Score: 169
Period size: 52 Copynumber: 2.4 Consensus size: 52
17678972 AGAGAAACAA
* * *
17678982 GATTTTTAATAGGTAAATTTGACTTACAAGAAAAGAATTCTAAAAGGAAACG
1 GATTCTTAATAGGCAAATTTGACTTACAAGAAAAGAATTCTAAAAGAAAACG
* * * * *
17679034 GATTCTTAATAGGCAAATTTGACTTATACGAGAAGAATTCTAAGAGAAAAGG
1 GATTCTTAATAGGCAAATTTGACTTACAAGAAAAGAATTCTAAAAGAAAACG
*
17679086 GATTCTTAATGGGCAAATTTG
1 GATTCTTAATAGGCAAATTTG
17679107 TATTATTATA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.30
Consensus pattern (52 bp):
GATTCTTAATAGGCAAATTTGACTTACAAGAAAAGAATTCTAAAAGAAAACG
Found at i:17682109 original size:29 final size:29
Alignment explanation
Indices: 17682077--17682136 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
17682067 AATTAATAAA
*
17682077 TTTATAATACAAG-TATTATATTAAATATT
1 TTTAAAAT-CAAGATATTATATTAAATATT
** *
17682106 TTTAAAATTTAGATATTATATTGAATATT
1 TTTAAAATCAAGATATTATATTAAATATT
17682135 TT
1 TT
17682137 ATTATAATTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (29 bp):
TTTAAAATCAAGATATTATATTAAATATT
Found at i:17683157 original size:8 final size:8
Alignment explanation
Indices: 17683132--17683164 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
17683122 TAAATAATAT
17683132 TATATTAA
1 TATATTAA
*
17683140 TA-AATAA
1 TATATTAA
17683147 TATATTAA
1 TATATTAA
17683155 TATATTAA
1 TATATTAA
17683163 TA
1 TA
17683165 AATAATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TATATTAA
Found at i:17683170 original size:15 final size:15
Alignment explanation
Indices: 17683127--17683156 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17683117 ACTTATAAAT
*
17683127 AATATTATATTAATA
1 AATAATATATTAATA
17683142 AATAATATATTAATA
1 AATAATATATTAATA
17683157 TATTAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATAATATATTAATA
Found at i:17683182 original size:23 final size:23
Alignment explanation
Indices: 17683121--17683170 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
17683111 AATTTTACTT
*
17683121 ATAA-ATAATATTATATTAATAA
1 ATAATATAATAATATATTAATAA
*
17683143 ATAATATATTAATATATTAATAA
1 ATAATATAATAATATATTAATAA
17683166 ATAAT
1 ATAAT
17683171 TTACATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
ATAATATAATAATATATTAATAA
Found at i:17684444 original size:8 final size:8
Alignment explanation
Indices: 17684431--17684455 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17684421 TTTTTGAATC
17684431 TATGTATA
1 TATGTATA
17684439 TATGTATA
1 TATGTATA
17684447 TATGTATA
1 TATGTATA
17684455 T
1 T
17684456 TTTTAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (8 bp):
TATGTATA
Found at i:17684874 original size:16 final size:16
Alignment explanation
Indices: 17684849--17684882 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17684839 ACAAATAATA
*
17684849 ATGATGATTTAAGATG
1 ATGATAATTTAAGATG
*
17684865 ATGATAATTTATGATG
1 ATGATAATTTAAGATG
17684881 AT
1 AT
17684883 TTTTAATGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (16 bp):
ATGATAATTTAAGATG
Found at i:17685519 original size:63 final size:61
Alignment explanation
Indices: 17685452--17685658 Score: 199
Period size: 60 Copynumber: 3.4 Consensus size: 61
17685442 TGTTAGAGTG
* * *
17685452 TAATAATATTAATAAATAATATTATAGTATTAATA-AATAATATTATATTAACAAATAATATAA
1 TAATAATATTAATAAATAATATTA-A-TA-TAATATAATAATAATATATTAATAAATAATATAT
* * * * *
17685515 TAATAAATATTATTAATTTA-ATTAATA-AATATTATAATAATATATGAATAAATAATATAT
1 TAAT-AATATTAATAAATAATATTAATATAATATAATAATAATATATTAATAAATAATATAT
* * * *
17685575 TATTAATA-AAATAATATACTATTAATATAATATATTAATAAATATTATTAATAAATAATATAT
1 TAATAATATTAATAA-ATAATATTAATATAATATAATAAT-AATA-TATTAATAAATAATATAT
*
17685638 TAAT-ATATTAACAAATAATAT
1 TAATAATATTAATAAATAATAT
17685659 AAAGAATAAT
Statistics
Matches: 115, Mismatches: 21, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
58 4 0.03
59 9 0.08
60 33 0.29
61 11 0.10
62 14 0.12
63 32 0.28
64 12 0.10
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (61 bp):
TAATAATATTAATAAATAATATTAATATAATATAATAATAATATATTAATAAATAATATAT
Found at i:17685577 original size:28 final size:27
Alignment explanation
Indices: 17685452--17685642 Score: 98
Period size: 28 Copynumber: 7.5 Consensus size: 27
17685442 TGTTAGAGTG
*
17685452 TAATAATATTAATAAATA-ATATTATAG
1 TAAT-ATATTAATAAATATATATTATAA
* *
17685479 TATTA-ATAAAT-AATATTATATTA-ACA
1 TAATATATTAATAAATA-TATATTATA-A
*
17685505 -AATA-ATATAAT-AATAAATATTAT--
1 TAATATAT-TAATAAATATATATTATAA
* *
17685528 T-A-AT-TTAATTAATAAATATTATAA
1 TAATATATTAATAAATATATATTATAA
*
17685552 TAATATATGAATAAATAATATATTAT--
1 TAATATATTAATAAAT-ATATATTATAA
17685578 TAATA-A--AAT-AATATACTATTA-ATA
1 TAATATATTAATAAATATA-TATTATA-A
17685602 TAATATATTAATAAATAT-TATTAATAAA
1 TAATATATTAATAAATATATATT-AT-AA
17685630 TAATATATTAATA
1 TAATATATTAATA
17685643 TATTAACAAA
Statistics
Matches: 130, Mismatches: 9, Indels: 49
0.69 0.05 0.26
Matches are distributed among these distances:
21 7 0.05
22 22 0.17
23 4 0.03
24 10 0.08
25 20 0.15
26 25 0.19
27 14 0.11
28 27 0.21
29 1 0.01
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (27 bp):
TAATATATTAATAAATATATATTATAA
Found at i:17685581 original size:45 final size:44
Alignment explanation
Indices: 17685452--17685659 Score: 126
Period size: 43 Copynumber: 4.5 Consensus size: 44
17685442 TGTTAGAGTG
*
17685452 TAATAATAT-TAATAAATAATAT-TATAGT-ATTAATAAATAATA
1 TAATAATATATAATAAATAATATAT-TATTAATTAATAAATAATA
* * *
17685494 TTATATTAACAAATAATATAATAATAAATATTATTAATTTAATTAATAAATATTA
1 -TA-A-TAATATATAATA-AATAAT--ATATTATT-----AATTAATAAATAATA
17685549 TAATAATATATGAATAAATAATATATTATTAA-T-A-AAATAATA
1 TAATAATATAT-AATAAATAATATATTATTAATTAATAAATAATA
* * * *
17685591 TACTATTAATATAATATATTAATA-AATATT-ATTAATAAATAATA
1 TAATAAT-ATATAATA-AATAATATATTATTAATTAATAAATAATA
* *
17685635 TATTAATATATTAACAAATAATATA
1 TAATAATATA-TAATAAATAATATA
17685660 AAGAATAATA
Statistics
Matches: 129, Mismatches: 15, Indels: 41
0.70 0.08 0.22
Matches are distributed among these distances:
41 1 0.01
42 22 0.17
43 23 0.18
44 20 0.16
45 6 0.05
46 5 0.04
47 6 0.05
49 5 0.04
50 9 0.07
52 12 0.09
53 5 0.04
54 2 0.02
55 13 0.10
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (44 bp):
TAATAATATATAATAAATAATATATTATTAATTAATAAATAATA
Found at i:17685653 original size:23 final size:24
Alignment explanation
Indices: 17685615--17685659 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
17685605 TATATTAATA
*
17685615 AATATTATTAATAAATAATATATT
1 AATATTATTAACAAATAATATATT
17685639 AATA-TATTAACAAATAATATA
1 AATATTATTAACAAATAATATA
17685660 AAGAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
AATATTATTAACAAATAATATATT
Found at i:17685661 original size:45 final size:44
Alignment explanation
Indices: 17685505--17685661 Score: 135
Period size: 45 Copynumber: 3.6 Consensus size: 44
17685495 TATATTAACA
* * * *
17685505 AATAATATAATAATAAATATTATTAAT-TTAATTAATAAATATTAT
1 AATAATATATTAATAAATA-AATAAATATT-ATTAATAAATAATAT
*
17685550 AATAATATATGAATAAAT-AAT--ATATTATTAATAAAATAATAT
1 AATAATATATTAATAAATAAATAAATATTATTAAT-AAATAATAT
* * * *
17685592 ACTATTA-ATATAATATATTAATAAATATTATTAATAAATAATAT
1 AATAATATAT-TAATAAATAAATAAATATTATTAATAAATAATAT
* *
17685636 ATTAATATATTAACAAATAATATAAA
1 AATAATATATTAATAAATAA-ATAAA
17685662 GAATAATAAA
Statistics
Matches: 91, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
41 10 0.11
42 21 0.23
43 5 0.05
44 21 0.23
45 34 0.37
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (44 bp):
AATAATATATTAATAAATAAATAAATATTATTAATAAATAATAT
Found at i:17685817 original size:25 final size:25
Alignment explanation
Indices: 17685753--17685820 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 25
17685743 TTTTTGAATA
17685753 TTAATAATTTTAATAATAAATAATTT
1 TTAAT-ATTTTAATAATAAATAATTT
**
17685779 CAACATATTTTAATAATAAATAATTT
1 TTA-ATATTTTAATAATAAATAATTT
17685805 TTAATATTTTAATAAT
1 TTAATATTTTAATAAT
17685821 TATATTAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 13 0.35
26 22 0.59
27 2 0.05
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (25 bp):
TTAATATTTTAATAATAAATAATTT
Found at i:17685877 original size:33 final size:32
Alignment explanation
Indices: 17685840--17685917 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
17685830 ATTATTTGAA
*
17685840 AAAAATAAATTTTTTTTAAAAT-AATCAAATAAC
1 AAAAA-AAATTTTTATT-AAATCAATCAAATAAC
* * *
17685873 AAAAAAATATTTTTATTAACTCATTCAAATAAT
1 AAAAAAA-ATTTTTATTAAATCAATCAAATAAC
17685906 AAAAAAAATTTT
1 AAAAAAAATTTT
17685918 AATTCAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
32 10 0.26
33 29 0.74
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.37
Consensus pattern (32 bp):
AAAAAAAATTTTTATTAAATCAATCAAATAAC
Found at i:17685953 original size:14 final size:14
Alignment explanation
Indices: 17685934--17685974 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
17685924 AAAAAATAAA
*
17685934 TATTTTTGACAAAT
1 TATTTTTAACAAAT
*
17685948 TATTTTTAAAAAAT
1 TATTTTTAACAAAT
*
17685962 TATTTTTTACAAA
1 TATTTTTAACAAA
17685975 ATAGCGACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (14 bp):
TATTTTTAACAAAT
Found at i:17685975 original size:15 final size:15
Alignment explanation
Indices: 17685934--17685976 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
17685924 AAAAAATAAA
*
17685934 TATTTTTGAC-AAAT
1 TATTTTTTACAAAAT
*
17685948 TA-TTTTTAAAAAAT
1 TATTTTTTACAAAAT
17685962 TATTTTTTACAAAAT
1 TATTTTTTACAAAAT
17685977 AGCGACAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 5 0.21
14 8 0.33
15 11 0.46
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (15 bp):
TATTTTTTACAAAAT
Found at i:17686288 original size:31 final size:31
Alignment explanation
Indices: 17686252--17686312 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
17686242 AATAAAATTT
* *
17686252 TTATAT-TTATAATATAT-TTTATATAAAAA
1 TTATATATTAGAATATATATTAATATAAAAA
*
17686281 TTATATATTAGAATTTATATTAATATAAAAA
1 TTATATATTAGAATATATATTAATATAAAAA
17686312 T
1 T
17686313 ATAAAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 6 0.22
30 9 0.33
31 12 0.44
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (31 bp):
TTATATATTAGAATATATATTAATATAAAAA
Found at i:17686380 original size:23 final size:21
Alignment explanation
Indices: 17686329--17686380 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
17686319 TTTATTTTTT
* *
17686329 TAATTTTATTAAATTTATATA
1 TAATATTATTAAATTTAAATA
17686350 TAATTATTATTAAAATTTAAATTA
1 TAA-TATTATT-AAATTTAAA-TA
17686374 TAATATT
1 TAATATT
17686381 TGATAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 3 0.12
22 6 0.23
23 12 0.46
24 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATATTATTAAATTTAAATA
Found at i:17687414 original size:111 final size:114
Alignment explanation
Indices: 17687230--17687448 Score: 347
Period size: 111 Copynumber: 1.9 Consensus size: 114
17687220 TTTTAAAATA
*
17687230 GAAAAGATAATTTTAAAAAACAATCTCATTTTTTGTTAATTAATAAATCATTTTTCCTTCATCAA
1 GAAAAAATAATTTTAAAAAACAATCTCATTTTTTGTTAATTAATAAATCATTTTTCCTTCATCAA
* *
17687295 TTATTTTTTTATCAAATAAATATAAAAA-ATTCAAAAATTAATGAAAAG
66 TTAATTTTTTATCAAATAAATATAAAAATATACAAAAATTAATGAAAAG
* *
17687343 GAAAAAATAATTTTTTAAAAA-AATCTCATTTTTT-TT-ATTAATAAATCATTTTTCGTTCATCA
1 GAAAAAATAA-TTTTAAAAAACAATCTCATTTTTTGTTAATTAATAAATCATTTTTCCTTCATCA
*
17687405 TTTAATTTTTTATCAAATAAATATAAAAATATACAAAAATTAAT
65 ATTAATTTTTTATCAAATAAATATAAAAATATACAAAAATTAAT
17687449 TTCAAAAGCC
Statistics
Matches: 98, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
111 52 0.53
112 15 0.15
113 22 0.22
114 9 0.09
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (114 bp):
GAAAAAATAATTTTAAAAAACAATCTCATTTTTTGTTAATTAATAAATCATTTTTCCTTCATCAA
TTAATTTTTTATCAAATAAATATAAAAATATACAAAAATTAATGAAAAG
Found at i:17688741 original size:11 final size:11
Alignment explanation
Indices: 17688718--17688769 Score: 54
Period size: 12 Copynumber: 4.6 Consensus size: 11
17688708 ATTAAGTTTT
17688718 TTTAA-AAATAA
1 TTTAATAAA-AA
17688729 TTTAATAAAAA
1 TTTAATAAAAA
17688740 TTTTAATAATAAA
1 -TTTAATAA-AAA
*
17688753 TTTAA-AATAA
1 TTTAATAAAAA
17688763 TTTAATA
1 TTTAATA
17688770 TTAAAATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 7 0.19
11 10 0.28
12 16 0.44
13 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TTTAATAAAAA
Found at i:17688743 original size:23 final size:23
Alignment explanation
Indices: 17688717--17688765 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
17688707 TATTAAGTTT
17688717 TTTTAAAAAT-AATTTAATAAAAA
1 TTTTAAAAATAAATTTAA-AAAAA
* *
17688740 TTTTAATAATAAATTTAAAATAA
1 TTTTAAAAATAAATTTAAAAAAA
17688763 TTT
1 TTT
17688766 AATATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTTAAAAATAAATTTAAAAAAA
Found at i:17688783 original size:22 final size:24
Alignment explanation
Indices: 17688717--17688783 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 24
17688707 TATTAAGTTT
* * *
17688717 TTTTAAAAAT-AATTTAATAAAAA
1 TTTTAATAATAAATATAATAATAA
*
17688740 TTTTAATAATAAATTTAA-AATAA
1 TTTTAATAATAAATATAATAATAA
*
17688763 -TTTAATATTAAA-ATAATAATA
1 TTTTAATAATAAATATAATAATA
17688784 TACAAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
21 3 0.08
22 15 0.39
23 13 0.34
24 7 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TTTTAATAATAAATATAATAATAA
Found at i:17705341 original size:10 final size:10
Alignment explanation
Indices: 17705328--17705362 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
17705318 ATATGATATG
17705328 ATATAAAAAT
1 ATATAAAAAT
*
17705338 ATATAAAAAA
1 ATATAAAAAT
17705348 ATA-AAAAAT
1 ATATAAAAAT
17705357 ATATAA
1 ATATAA
17705363 TTTAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
ATATAAAAAT
Found at i:17708705 original size:15 final size:15
Alignment explanation
Indices: 17708685--17708718 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17708675 ATATGCAGGA
17708685 ATCAGAATC-CTCAGC
1 ATCAGAATCGCTCA-C
17708700 ATCAGAATCGCTCAC
1 ATCAGAATCGCTCAC
17708715 ATCA
1 ATCA
17708719 CTGCAGGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.35, C:0.32, G:0.12, T:0.21
Consensus pattern (15 bp):
ATCAGAATCGCTCAC
Found at i:17713148 original size:33 final size:35
Alignment explanation
Indices: 17713105--17713169 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 35
17713095 ATAAAATAAA
*
17713105 ATTAATAATTTTATATCAAAATC-TATTTAAATAT
1 ATTAATAATTTTATATCAAAATCATATATAAATAT
*
17713139 ATTAA-AATTTTATATTAAAATCATATATAAA
1 ATTAATAATTTTATATCAAAATCATATATAAA
17713170 AATCAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
ATTAATAATTTTATATCAAAATCATATATAAATAT
Found at i:17713165 original size:13 final size:13
Alignment explanation
Indices: 17713135--17713174 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
17713125 ATCTATTTAA
*
17713135 ATATATTAAAATT
1 ATATATTAAAATC
*
17713148 TTATATTAAAATC
1 ATATATTAAAATC
*
17713161 ATATATAAAAATC
1 ATATATTAAAATC
17713174 A
1 A
17713175 AAAAATTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATATTAAAATC
Found at i:17719982 original size:20 final size:20
Alignment explanation
Indices: 17719959--17720006 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
17719949 ATATTTTTTA
17719959 TTTTTTAAAA-TTTACATATTT
1 TTTTTTAAAATTTTA-A-ATTT
*
17719980 TTTATTAAAATTTTAAATTT
1 TTTTTTAAAATTTTAAATTT
17720000 TTTTTTA
1 TTTTTTA
17720007 TTGAAATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 10 0.42
21 10 0.42
22 4 0.17
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTTAAAATTTTAAATTT
Found at i:17720001 original size:21 final size:20
Alignment explanation
Indices: 17719959--17720006 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
17719949 ATATTTTTTA
*
17719959 TTTTTTAAAATTTACATATT
1 TTTTTTAAAATTTAAATATT
17719979 TTTTATTAAAATTTTAAAT-TT
1 TTTT-TTAAAA-TTTAAATATT
17720000 TTTTTTA
1 TTTTTTA
17720007 TTGAAATTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 12 0.48
22 6 0.24
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTTAAAATTTAAATATT
Found at i:17720007 original size:23 final size:23
Alignment explanation
Indices: 17719951--17720014 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
17719941 ATATAAATAT
* *
17719951 ATTTTTTATTTTTTAAAA-TTTAC
1 ATTTTTT-TTTATTAAAATTTTAA
*
17719974 A-TATTTTTTATTAAAATTTTAA
1 ATTTTTTTTTATTAAAATTTTAA
*
17719996 ATTTTTTTTTATTGAAATT
1 ATTTTTTTTTATTAAAATT
17720015 CGGGACCGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 9 0.26
22 9 0.26
23 16 0.47
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
ATTTTTTTTTATTAAAATTTTAA
Found at i:17720565 original size:14 final size:15
Alignment explanation
Indices: 17720532--17720565 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
17720522 TTTGGTTCAA
17720532 ATTTTATTGATAGTT
1 ATTTTATTGATAGTT
17720547 A-TTTATTGATA-TT
1 ATTTTATTGATAGTT
17720560 ATTTTA
1 ATTTTA
17720566 AATACATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.17
14 14 0.78
15 1 0.06
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (15 bp):
ATTTTATTGATAGTT
Found at i:17724090 original size:72 final size:71
Alignment explanation
Indices: 17723952--17724090 Score: 190
Period size: 72 Copynumber: 1.9 Consensus size: 71
17723942 TTGAAGCAAG
** *
17723952 ACAGGAGAGATATCAATAAACTGAATCATAAGAAAAATGGGCAAATTTCGTGAAATCATGTCATG
1 ACAGGAGAGATATCAATAAACTGAATCATAAGAAAAATGAACAAATTTC-TGAAATCAAGTCATG
17724017 CTGCTAA
65 CTGCTAA
* * *
17724024 ACAGGAGAGATATCAATAAATTGAATCATAAGGAAAATGAACAAATTT-TGCAAACTCAAGTTAT
1 ACAGGAGAGATATCAATAAACTGAATCATAAGAAAAATGAACAAATTTCTG-AAA-TCAAGTCAT
17724088 GCT
64 GCT
17724091 AACAATTCTG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
70 2 0.03
71 3 0.05
72 54 0.92
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (71 bp):
ACAGGAGAGATATCAATAAACTGAATCATAAGAAAAATGAACAAATTTCTGAAATCAAGTCATGC
TGCTAA
Found at i:17724994 original size:21 final size:22
Alignment explanation
Indices: 17724946--17725002 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 22
17724936 TTTAATTTTT
17724946 ATTTTTATATATTATTTTAATATA
1 ATTTTTA-ATA-TATTTTAATATA
17724970 ATTTTTAATATA-TTTAA-ATA
1 ATTTTTAATATATTTTAATATA
*
17724990 GATTTTAAATATA
1 -ATTTTTAATATA
17725003 AAATAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 3 0.10
21 16 0.52
22 2 0.06
23 3 0.10
24 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTTTAATATATTTTAATATA
Found at i:17725900 original size:25 final size:25
Alignment explanation
Indices: 17725851--17725900 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
17725841 AAAGTATATT
**
17725851 AAGTAATCCATATTTTAAACTTTAA
1 AAGTAATCCATATTTTAAAAATTAA
*
17725876 AAGTAATCCATGTTTTAAAAATTAA
1 AAGTAATCCATATTTTAAAAATTAA
17725901 TAAAAGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (25 bp):
AAGTAATCCATATTTTAAAAATTAA
Found at i:17728370 original size:22 final size:21
Alignment explanation
Indices: 17728351--17728392 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
17728341 CTCAGTGAGG
17728351 TTCAAAACAATTGAATGTGAAA
1 TTCAAAACAATTGAA-GTGAAA
17728373 TTCAAAACAATTGAAGTGAA
1 TTCAAAACAATTGAAGTGAA
17728393 TTAATGGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.26
Consensus pattern (21 bp):
TTCAAAACAATTGAAGTGAAA
Found at i:17728484 original size:24 final size:25
Alignment explanation
Indices: 17728457--17728505 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
17728447 AATTATTAAG
*
17728457 AATATTAAA-TTAAATT-TTATATAT
1 AATAATAAATTTAAATTATTA-ATAT
17728481 AATAATAAATTTAAATTATTAATAT
1 AATAATAAATTTAAATTATTAATAT
17728506 TTATAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
25 11 0.50
26 3 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AATAATAAATTTAAATTATTAATAT
Found at i:17730167 original size:21 final size:20
Alignment explanation
Indices: 17730129--17730168 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
17730119 GTAATTCTCA
*
17730129 AAAATTTATTTTCTAAGTTG
1 AAAATTTATTTTCAAAGTTG
17730149 AAAATTTATTTTCGAAAGTT
1 AAAATTTATTTTC-AAAGTT
17730169 TTTTGTGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (20 bp):
AAAATTTATTTTCAAAGTTG
Found at i:17742395 original size:58 final size:59
Alignment explanation
Indices: 17742275--17742395 Score: 133
Period size: 59 Copynumber: 2.1 Consensus size: 59
17742265 GATCATTTAT
* *
17742275 ATTTATATATCATATAAAATATTAATAATTTATATATTTATATTATATTTTATATCATA
1 ATTTATATATCATATAAAATATTAATAATTTATAAATTTATATTATATTTTATATCAAA
* ** *
17742334 ATTTATATAGTTATA-AAAATA-TAATTTTTTATTAAATTTAT-TTATAATTTT-TATTAAA
1 ATTTATATA-TCATATAAAATATTAATAATTTA-TAAATTTATATTAT-ATTTTATATCAAA
17742392 ATTT
1 ATTT
17742396 TAAATTATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
58 21 0.40
59 28 0.53
60 4 0.08
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.55
Consensus pattern (59 bp):
ATTTATATATCATATAAAATATTAATAATTTATAAATTTATATTATATTTTATATCAAA
Found at i:17742412 original size:16 final size:16
Alignment explanation
Indices: 17742393--17742425 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17742383 TTTATTAAAA
17742393 TTTTAAATTATATTAT
1 TTTTAAATTATATTAT
*
17742409 TTTTATATTATATTAT
1 TTTTAAATTATATTAT
17742425 T
1 T
17742426 ATATCTACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTAAATTATATTAT
Found at i:17746735 original size:2 final size:2
Alignment explanation
Indices: 17746688--17746716 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17746678 GTCATTGTAA
17746688 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
17746717 AGACAATCAT
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:17753327 original size:26 final size:26
Alignment explanation
Indices: 17753298--17753350 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
17753288 TTTATAACCA
*
17753298 ATACAATCAATCAACTATTATTATCT
1 ATACAATCAATCAACCATTATTATCT
**
17753324 ATACAATCAATTGACCATTATTATCT
1 ATACAATCAATCAACCATTATTATCT
17753350 A
1 A
17753351 CATTAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.38
Consensus pattern (26 bp):
ATACAATCAATCAACCATTATTATCT
Found at i:17760289 original size:2 final size:2
Alignment explanation
Indices: 17760282--17760321 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
17760272 TGTTTTCCTG
*
17760282 AT AT AT AT AT AT AT AT AT AT AA 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
17760322 CTTTTATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17769330 original size:12 final size:11
Alignment explanation
Indices: 17769309--17769349 Score: 64
Period size: 12 Copynumber: 3.5 Consensus size: 11
17769299 CGATTTAATG
17769309 ATATAAAAATA
1 ATATAAAAATA
17769320 ATATGAAAAATAA
1 ATAT-AAAAAT-A
17769333 ATATAAAAATA
1 ATATAAAAATA
17769344 ATATAA
1 ATATAA
17769350 TTTAATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.39
12 12 0.43
13 5 0.18
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:17769862 original size:12 final size:12
Alignment explanation
Indices: 17769847--17769876 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17769837 AACCTATGGT
17769847 TTAAATTTTTTA
1 TTAAATTTTTTA
*
17769859 TTAAAATTTTTA
1 TTAAATTTTTTA
17769871 TTAAAT
1 TTAAAT
17769877 CATTTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTAAATTTTTTA
Found at i:17770047 original size:13 final size:14
Alignment explanation
Indices: 17770024--17770052 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17770014 AAAATTCGTG
17770024 ATATGTTAATTTAA
1 ATATGTTAATTTAA
17770038 ATAT-TTAATTTAA
1 ATATGTTAATTTAA
17770051 AT
1 AT
17770053 GAGTCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (14 bp):
ATATGTTAATTTAA
Found at i:17781156 original size:32 final size:31
Alignment explanation
Indices: 17781111--17781177 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 31
17781101 GAAATCAAAG
* *
17781111 AAATCCAAGTGCATTAATATTTTATCAAATA
1 AAATCAAAGTGCATTAATATTTTACCAAATA
*
17781142 AAATCAAACGTGCATTAATATTTTACCAAATG
1 AAATCAAA-GTGCATTAATATTTTACCAAATA
17781174 AAAT
1 AAAT
17781178 TATAATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 7 0.22
32 25 0.78
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.33
Consensus pattern (31 bp):
AAATCAAAGTGCATTAATATTTTACCAAATA
Found at i:17783065 original size:17 final size:18
Alignment explanation
Indices: 17783045--17783088 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
17783035 ATATTTTAAC
*
17783045 TATTTTTTATAA-AATTA
1 TATTTTTTATAATAATAA
17783062 TATTTTTT-TAATAATAA
1 TATTTTTTATAATAATAA
*
17783079 TATGTTTTAT
1 TATTTTTTAT
17783089 TCATTGACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.13
17 19 0.83
18 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TATTTTTTATAATAATAA
Found at i:17783224 original size:32 final size:31
Alignment explanation
Indices: 17783188--17783288 Score: 89
Period size: 31 Copynumber: 3.2 Consensus size: 31
17783178 TATCATTTTT
17783188 AAAAATTAAGTAAAAACTTTTATATTAGTTTA
1 AAAAATTAAGTAAAAACTTTTATATTA-TTTA
** *
17783220 AAAAATTAAAAAAAAACTTCATATATT-TTTA
1 AAAAATTAAGTAAAAACTT-TTATATTATTTA
** * * *
17783251 AAGTATTGAGTAAAAA-TTTTCAAATCATTTA
1 AAAAATTAAGTAAAAACTTTT-ATATTATTTA
17783282 AAAAATT
1 AAAAATT
17783289 GATTTATTAA
Statistics
Matches: 53, Mismatches: 13, Indels: 7
0.73 0.18 0.10
Matches are distributed among these distances:
29 1 0.02
30 5 0.09
31 24 0.45
32 17 0.32
33 6 0.11
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (31 bp):
AAAAATTAAGTAAAAACTTTTATATTATTTA
Found at i:17783251 original size:31 final size:30
Alignment explanation
Indices: 17783182--17783252 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 30
17783172 ATTGCTTATC
** *
17783182 ATTTTT-AAAAATTAAGTAAAAACTTTTAT
1 ATTTTTAAAAAATTAAAAAAAAACTTATAT
17783211 ATTAGTTTAAAAAATTAAAAAAAAACTTCATAT
1 ATT--TTTAAAAAATTAAAAAAAAACTT-ATAT
17783244 ATTTTTAAA
1 ATTTTTAAA
17783253 GTATTGAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
29 3 0.09
31 9 0.26
32 17 0.49
33 6 0.17
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (30 bp):
ATTTTTAAAAAATTAAAAAAAAACTTATAT
Found at i:17783607 original size:32 final size:32
Alignment explanation
Indices: 17783535--17783657 Score: 115
Period size: 32 Copynumber: 3.8 Consensus size: 32
17783525 TAATAAATCT
* * *
17783535 ATTTTTTAAAATCATATTA-AATTTTTTACTTG
1 ATTTTTTAAAATGATA-TAGAATTTTTTATTTA
** * *
17783567 ATAATTTAAAATGATATGGAGTTTTTTATTTA
1 ATTTTTTAAAATGATATAGAATTTTTTATTTA
* *
17783599 ATTTTTT-AAATCAATATAGAAATTTTTATTTA
1 ATTTTTTAAAAT-GATATAGAATTTTTTATTTA
* *
17783631 ATTTTTTAAAATGCTATATAATTTTTT
1 ATTTTTTAAAATGATATAGAATTTTTT
17783658 TGAAAAGGAT
Statistics
Matches: 71, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
31 5 0.07
32 62 0.87
33 4 0.06
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (32 bp):
ATTTTTTAAAATGATATAGAATTTTTTATTTA
Found at i:17784653 original size:16 final size:17
Alignment explanation
Indices: 17784634--17784698 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 17
17784624 TGTTTTTTCT
17784634 AAATATA-TTTTTTAAA
1 AAATATATTTTTTTAAA
*
17784650 AAATA-ATTTTTTTCAA
1 AAATATATTTTTTTAAA
**
17784666 AAATAT-TAGTTTTAAA
1 AAATATATTTTTTTAAA
* *
17784682 AATTTTGATTTTTTTAA
1 AAATAT-ATTTTTTTAA
17784699 TATCCAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
15 1 0.03
16 29 0.78
18 7 0.19
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (17 bp):
AAATATATTTTTTTAAA
Found at i:17788433 original size:15 final size:15
Alignment explanation
Indices: 17788375--17788467 Score: 51
Period size: 15 Copynumber: 5.6 Consensus size: 15
17788365 AAATTCAAAG
17788375 TTTTCAAAAATAAAT
1 TTTTCAAAAATAAAT
**
17788390 TTCTAAAAAATCATAAATTT
1 TT-TTCAAAA--ATAAA--T
17788410 TTTTCAAAAATAAAT
1 TTTTCAAAAATAAAT
*
17788425 TTTTGAAAAGTCATATAAT
1 TTTTCAAAA---ATA-AAT
* *
17788444 TATTCAAAAATAGAT
1 TTTTCAAAAATAAAT
*
17788459 TTTTGAAAA
1 TTTTCAAAA
17788468 CCTTTAAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
15 20 0.34
16 8 0.14
17 5 0.08
18 8 0.14
19 15 0.25
20 3 0.05
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.40
Consensus pattern (15 bp):
TTTTCAAAAATAAAT
Found at i:17788455 original size:34 final size:34
Alignment explanation
Indices: 17788377--17788467 Score: 112
Period size: 35 Copynumber: 2.6 Consensus size: 34
17788367 ATTCAAAGTT
* * *
17788377 TTCAAAAATAAATTTCTAAAAAATCATAAATTTTT
1 TTCAAAAATAAATTTTTGAAAAATCATAAA-TTTA
*
17788412 TTCAAAAATAAATTTTTGAAAAGTCATATAA-TTA
1 TTCAAAAATAAATTTTTGAAAAATCATA-AATTTA
*
17788446 TTCAAAAATAGATTTTTGAAAA
1 TTCAAAAATAAATTTTTGAAAA
17788468 CCTTTAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
34 23 0.46
35 25 0.50
36 2 0.04
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (34 bp):
TTCAAAAATAAATTTTTGAAAAATCATAAATTTA
Found at i:17790149 original size:36 final size:36
Alignment explanation
Indices: 17790104--17790174 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
17790094 ATGTCTTTAT
* *
17790104 ATCATAATTAAAAAAATATCTATCATATCATAATTG
1 ATCAAAATTAAAAAAATATCTATCATACCATAATTG
** *
17790140 ATCAAAATTATTAAAATATCTCTCATACCATAATT
1 ATCAAAATTAAAAAAATATCTATCATACCATAATT
17790175 ATGTAAATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (36 bp):
ATCAAAATTAAAAAAATATCTATCATACCATAATTG
Found at i:17790306 original size:19 final size:20
Alignment explanation
Indices: 17790256--17790307 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 20
17790246 CCTATTAAAT
17790256 TACATATTAAATT-TTAACA
1 TACATATTAAATTATTAACA
*
17790275 TA-ATA-TCAA--ATTAAC-
1 TACATATTAAATTATTAACA
17790290 TACATATTAAATTATTAA
1 TACATATTAAATTATTAA
17790308 ATTACCGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
15 2 0.08
16 8 0.31
17 6 0.23
18 3 0.12
19 7 0.27
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (20 bp):
TACATATTAAATTATTAACA
Found at i:17792550 original size:410 final size:408
Alignment explanation
Indices: 17791743--17792552 Score: 1112
Period size: 410 Copynumber: 2.0 Consensus size: 408
17791733 CTACCTTACG
* * * * *
17791743 TGTCATTCAAAAAAATTATTTACATAACCATTTATGTGACAAACCTTATTAGGTGTCTATCTATA
1 TGTCATTCAAAAAAATTATCTACATAAACATTCACGTGACAAACCTTATTAGGTGTCTATATATA
* *
17791808 TTGTAATACAATATATATTTTTAAAATTAAAAAAATGATATATAATAGCTTTAAAGTTTAAATTA
66 TTGTAATACAATATATATTTTAAAAATTAAAAAAATGATATATAATAACTTTAAAGTTTAAATTA
* ** * *
17791873 CAACATCGTGATTTCTTTTTTATATGCAGATTGCAATTATTTTTTGTAAAAAAAATCTTAACTTA
131 CAACACCGTGAACTCTTTTTTATATCCAGATTACAA-TA-TTTTTGTAAAAAAAATCTTAACTTA
17791938 CACCTAAAAATTTTGTTTAACTTAAATTAGTTCCAAATAAAATTAATTTGAATTTGAAATAATTT
194 CACCTAAAAATTTTGTTTAACTTAAATTAGTTCCAAATAAAATTAATTTGAATTTGAAATAATTT
*
17792003 AAACTAAAATGACCCAAAATATTAATCTAAAATAATTTTTAATTACAAAAATATATATTTAGATT
259 AAACTAAAATGACCCAAAATATTAATCTAAAATAATTTTTAATTACAAAAATATATATCTAGATT
* ** * *
17792068 AATTTGATTTTCAATTATAATTTAAATAATTTTGCTATAAAAAATTTAGGATAATTTAATTTGTA
324 AATTTGATTTTCAATTATAATTTAAATAATTTTACTATAAAAAATTTAAAATAATCTAATTTATA
17792133 ATTAAAAAAACTATCCTATA
389 ATTAAAAAAACTATCCTATA
* * * **
17792153 TGTCATTTAAAAAAATTATCTATATAAATATTCACGTGACAAATTTTATT-GGATGTCTATATAT
1 TGTCATTCAAAAAAATTATCTACATAAACATTCACGTGACAAACCTTATTAGG-TGTCTATATAT
* ** * *
17792217 GTTGTAATATGATATATATTTTAAAAATTAACAAAATGATATATAATAATTTTAAAGTTTAAATT
65 ATTGTAATACAATATATATTTTAAAAATTAAAAAAATGATATATAATAACTTTAAAGTTTAAATT
* *
17792282 GCAACACCGAT-AACTCTTTTTATATATCCATATTAC-A-A-TTTT-TAAAAAAAATCTTAACTT
130 ACAACACCG-TGAACTCTTTTT-TATATCCAGATTACAATATTTTTGTAAAAAAAATCTTAACTT
* * *
17792342 ATACCTAAAATTTTTGTTTAACTTAAATTTGTTCCAAATAAAATTAATTTGAATTTGAAATAATT
193 ACACCTAAAAATTTTGTTTAACTTAAATTAGTTCCAAATAAAATTAATTTGAATTTGAAATAATT
* * *
17792407 TAATCTCAAATGACTCAAAATATTAATCTAAAATAATTTTTAACTTTTA-AAAAATATATATCTA
258 TAAACTAAAATGACCCAAAATATTAATCTAAAATAATTTTTAA---TTACAAAAATATATATCTA
* * * *
17792471 GATTGATTTGATTTTTAATTATAATTTGAATAATTTTACTATTTGAAAAAATTTAAAATTATCTA
320 GATTAATTTGATTTTCAATTATAATTTAAATAATTTTACTA--T-AAAAAATTTAAAATAATCTA
17792536 ATTTATAATTAAAAAAA
382 ATTTATAATTAAAAAAA
17792553 AATTCTACTT
Statistics
Matches: 351, Mismatches: 40, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
405 120 0.34
406 4 0.01
407 51 0.15
408 4 0.01
409 3 0.01
410 157 0.45
411 12 0.03
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.42
Consensus pattern (408 bp):
TGTCATTCAAAAAAATTATCTACATAAACATTCACGTGACAAACCTTATTAGGTGTCTATATATA
TTGTAATACAATATATATTTTAAAAATTAAAAAAATGATATATAATAACTTTAAAGTTTAAATTA
CAACACCGTGAACTCTTTTTTATATCCAGATTACAATATTTTTGTAAAAAAAATCTTAACTTACA
CCTAAAAATTTTGTTTAACTTAAATTAGTTCCAAATAAAATTAATTTGAATTTGAAATAATTTAA
ACTAAAATGACCCAAAATATTAATCTAAAATAATTTTTAATTACAAAAATATATATCTAGATTAA
TTTGATTTTCAATTATAATTTAAATAATTTTACTATAAAAAATTTAAAATAATCTAATTTATAAT
TAAAAAAACTATCCTATA
Found at i:17794378 original size:9 final size:9
Alignment explanation
Indices: 17794364--17794430 Score: 57
Period size: 9 Copynumber: 7.1 Consensus size: 9
17794354 TAAAAAAAAT
17794364 ATAAATAAA
1 ATAAATAAA
17794373 ATAAATAAA
1 ATAAATAAA
17794382 ATGAAATAGAAA
1 AT-AAAT--AAA
17794394 ATAAATAAGA
1 ATAAATAA-A
* *
17794404 A-AATTTAGA
1 ATAA-ATAAA
17794413 A-AAATAAA
1 ATAAATAAA
17794421 ATAAATAAA
1 ATAAATAAA
17794430 A
1 A
17794431 ATGTAAATGG
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
8 4 0.08
9 27 0.56
10 8 0.17
11 4 0.08
12 5 0.10
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (9 bp):
ATAAATAAA
Found at i:17803634 original size:24 final size:24
Alignment explanation
Indices: 17803594--17803642 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
17803584 TAAATTTTTT
* *
17803594 TTAATTATATTTTTAATTATTAATA
1 TTAATTATATTTATAATCA-TAATA
17803619 TTAATT-TATTTATAATCATAATA
1 TTAATTATATTTATAATCATAATA
17803642 T
1 T
17803643 GATATGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 10 0.45
25 6 0.27
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTAATTATATTTATAATCATAATA
Found at i:17810692 original size:2 final size:2
Alignment explanation
Indices: 17810685--17810714 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17810675 TAAGTGGGCA
17810685 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
17810715 CACCCTTAAT
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:17811340 original size:12 final size:12
Alignment explanation
Indices: 17811325--17811366 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
17811315 TGAAGGAGAA
17811325 GCTGAAGATCAG
1 GCTGAAGATCAG
* *
17811337 GCTG-AGACTGAA
1 GCTGAAGA-TCAG
17811349 GCTGAAGATCAG
1 GCTGAAGATCAG
17811361 GCTGAA
1 GCTGAA
17811367 ACTGAAGCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 3 0.12
12 18 0.75
13 3 0.12
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (12 bp):
GCTGAAGATCAG
Found at i:17811349 original size:24 final size:24
Alignment explanation
Indices: 17811322--17811378 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
17811312 GAATGAAGGA
*
17811322 GAAGCTGAAGATCAGGCTGAGACT
1 GAAGCTGAAGATCAGGCTGAAACT
17811346 GAAGCTGAAGATCAGGCTGAAACT
1 GAAGCTGAAGATCAGGCTGAAACT
17811370 GAAGCTGAA
1 GAAGCTGAA
17811379 ACCGAGTCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.37, C:0.16, G:0.32, T:0.16
Consensus pattern (24 bp):
GAAGCTGAAGATCAGGCTGAAACT
Found at i:17825086 original size:13 final size:13
Alignment explanation
Indices: 17825068--17825094 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17825058 TCCCATGCCT
17825068 TAATTTATAATAA
1 TAATTTATAATAA
17825081 TAATTTATAATAA
1 TAATTTATAATAA
17825094 T
1 T
17825095 CCTAACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATTTATAATAA
Found at i:17825118 original size:4 final size:4
Alignment explanation
Indices: 17825111--17825135 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
17825101 TAAAGGTCTT
17825111 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
17825136 ACAAACTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:17828961 original size:6 final size:6
Alignment explanation
Indices: 17828940--17828970 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
17828930 CTAAATATAT
17828940 ATTTTA ATTATTA ATTTTA ATTTTA ATTTTA
1 ATTTTA ATT-TTA ATTTTA ATTTTA ATTTTA
17828971 TAATACTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:17849254 original size:21 final size:21
Alignment explanation
Indices: 17849211--17849256 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 21
17849201 AAATATTAAG
*
17849211 AATAATAATTAAAATAACAAA
1 AATAATAATTAAAAAAACAAA
17849232 AATAAT-ATTAAAAAAATCTAAA
1 AATAATAATTAAAAAAA-C-AAA
17849254 AAT
1 AAT
17849257 TTTTTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 7 0.32
22 6 0.27
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (21 bp):
AATAATAATTAAAAAAACAAA
Found at i:17849391 original size:30 final size:30
Alignment explanation
Indices: 17849357--17849413 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
17849347 TGATCTGGTT
* *
17849357 GGTTCAGCGGTTCGATCTCGATTCAGTTCG
1 GGTTCAACAGTTCGATCTCGATTCAGTTCG
* *
17849387 GGTTCAACAGTTCGATTTCGGTTCAGT
1 GGTTCAACAGTTCGATCTCGATTCAGT
17849414 CAGATCGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.16, C:0.21, G:0.28, T:0.35
Consensus pattern (30 bp):
GGTTCAACAGTTCGATCTCGATTCAGTTCG
Found at i:17850140 original size:22 final size:23
Alignment explanation
Indices: 17850115--17850157 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
17850105 TAAGTGATCA
*
17850115 GAGGGGTGGG-GTAAGGCATGGT
1 GAGGGATGGGTGTAAGGCATGGT
*
17850137 GAGGGATGGGTGTAGGGCATG
1 GAGGGATGGGTGTAAGGCATG
17850158 CCGGCACCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.19, C:0.05, G:0.58, T:0.19
Consensus pattern (23 bp):
GAGGGATGGGTGTAAGGCATGGT
Found at i:17850199 original size:15 final size:15
Alignment explanation
Indices: 17850179--17850225 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 15
17850169 GCCATCCTCG
17850179 ATTTTT-TTTTGTTTT
1 ATTTTTATTTT-TTTT
17850194 ATTTTTATTTTTTTT
1 ATTTTTATTTTTTTT
17850209 ATTTTTGTATTTTTTTT
1 A-TTTT-TATTTTTTTT
17850226 GTATTTTGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.38
16 8 0.28
17 10 0.34
ACGTcount: A:0.11, C:0.00, G:0.04, T:0.85
Consensus pattern (15 bp):
ATTTTTATTTTTTTT
Found at i:17850206 original size:18 final size:17
Alignment explanation
Indices: 17850183--17850243 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
17850173 TCCTCGATTT
17850183 TTTTTTGTTTTATTTTTA
1 TTTTTT-TTTTATTTTTA
*
17850201 TTTTTTTTATT-TTTGTA
1 TTTTTTTT-TTATTTTTA
*
17850218 TTTTTTTTGTATTTTGTA
1 TTTTTTTTTTATTTT-TA
17850236 TTATTTTT
1 TT-TTTTT
17850244 GGTATTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
16 1 0.03
17 18 0.50
18 12 0.33
19 5 0.14
ACGTcount: A:0.11, C:0.00, G:0.07, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTATTTTTA
Found at i:17850225 original size:19 final size:19
Alignment explanation
Indices: 17850198--17850251 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
17850188 TGTTTTATTT
*
17850198 TTATTTTTTTTATTTTTGTA
1 TTATTTTTTGTA-TTTTGTA
17850218 TT-TTTTTTGTATTTTGTA
1 TTATTTTTTGTATTTTGTA
*
17850236 TTATTTTTGGTATTTT
1 TTATTTTTTGTATTTT
17850252 TTTGTATTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 9 0.29
19 20 0.65
20 2 0.06
ACGTcount: A:0.13, C:0.00, G:0.09, T:0.78
Consensus pattern (19 bp):
TTATTTTTTGTATTTTGTA
Found at i:17850254 original size:12 final size:11
Alignment explanation
Indices: 17850198--17850282 Score: 69
Period size: 10 Copynumber: 8.1 Consensus size: 11
17850188 TGTTTTATTT
17850198 TTATTTTT-T-
1 TTATTTTTGTA
17850207 TTATTTTTGTA
1 TTATTTTTGTA
17850218 TT-TTTTT-T-
1 TTATTTTTGTA
*
17850226 GTA-TTTTGTA
1 TTATTTTTGTA
17850236 TTATTTTTGGTA
1 TTATTTTT-GTA
17850248 TT-TTTTTGTA
1 TTATTTTTGTA
17850258 TTTCATATTTTGTA
1 -TT-AT-TTTTGTA
17850272 TT-TTTTTGTA
1 TTATTTTTGTA
17850282 T
1 T
17850283 GGACAAATTG
Statistics
Matches: 63, Mismatches: 2, Indels: 21
0.73 0.02 0.24
Matches are distributed among these distances:
8 5 0.08
9 10 0.16
10 19 0.30
11 14 0.22
12 5 0.08
13 3 0.05
14 7 0.11
ACGTcount: A:0.14, C:0.01, G:0.09, T:0.75
Consensus pattern (11 bp):
TTATTTTTGTA
Found at i:17850259 original size:19 final size:18
Alignment explanation
Indices: 17850182--17850282 Score: 77
Period size: 18 Copynumber: 5.6 Consensus size: 18
17850172 ATCCTCGATT
* *
17850182 TTTTTTTGTTTTATTTTTA
1 TTTTTTTGTATT-TTTGTA
17850201 TTTTTTT-TATTTTTGTA
1 TTTTTTTGTATTTTTGTA
17850218 TTTTTTTTGTA-TTTTGTA
1 -TTTTTTTGTATTTTTGTA
17850236 TTATTTTTGGTATTTTT-T-
1 TT-TTTTT-GTATTTTTGTA
* * *
17850254 TGTATTT-CATATTTTGTA
1 TTTTTTTGTAT-TTTTGTA
17850272 TTTTTTTGTAT
1 TTTTTTTGTAT
17850283 GGACAAATTG
Statistics
Matches: 65, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
15 2 0.03
16 4 0.06
17 12 0.18
18 28 0.43
19 15 0.23
20 4 0.06
ACGTcount: A:0.13, C:0.01, G:0.09, T:0.77
Consensus pattern (18 bp):
TTTTTTTGTATTTTTGTA
Found at i:17850266 original size:29 final size:29
Alignment explanation
Indices: 17850207--17850266 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
17850197 TTTATTTTTT
**
17850207 TTATTTTTGTATTTTTTTTGTATTTTGTA
1 TTATTTTTGTATTTTTTTTGTATTTCATA
17850236 TTATTTTTGGTA-TTTTTTTGTATTTCATA
1 TTATTTTT-GTATTTTTTTTGTATTTCATA
17850265 TT
1 TT
17850267 TTGTATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.15, C:0.02, G:0.10, T:0.73
Consensus pattern (29 bp):
TTATTTTTGTATTTTTTTTGTATTTCATA
Found at i:17850277 original size:24 final size:23
Alignment explanation
Indices: 17850210--17850282 Score: 79
Period size: 24 Copynumber: 3.4 Consensus size: 23
17850200 ATTTTTTTTA
17850210 TTTTTGTATTT-TTTTT-GTA--
1 TTTTTGTATTTATTTTTGGTATT
17850229 -TTTTGTA-TTATTTTTGGTATT
1 TTTTTGTATTTATTTTTGGTATT
17850250 TTTTTGTATTTCATATTTT-GTATT
1 TTTTTGTATTT-AT-TTTTGGTATT
17850274 TTTTTGTAT
1 TTTTTGTAT
17850283 GGACAAATTG
Statistics
Matches: 46, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.04
18 12 0.26
19 3 0.07
22 7 0.15
23 2 0.04
24 16 0.35
25 4 0.09
ACGTcount: A:0.14, C:0.01, G:0.11, T:0.74
Consensus pattern (23 bp):
TTTTTGTATTTATTTTTGGTATT
Found at i:17850278 original size:10 final size:10
Alignment explanation
Indices: 17850182--17850282 Score: 74
Period size: 11 Copynumber: 10.1 Consensus size: 10
17850172 ATCCTCGATT
17850182 TTTTTTTGT-
1 TTTTTTTGTA
17850191 TTTATTTT-TA
1 TTT-TTTTGTA
17850201 TTTTTTT-TA
1 TTTTTTTGTA
17850210 --TTTTTGTA
1 TTTTTTTGTA
17850218 TTTTTTTTGTA
1 -TTTTTTTGTA
17850229 ---TTTTGTA
1 TTTTTTTGTA
17850236 TTATTTTTGGTA
1 TT-TTTTT-GTA
17850248 TTTTTTTGTA
1 TTTTTTTGTA
17850258 TTTCATATTTTGTA
1 -TT--T-TTTTGTA
17850272 TTTTTTTGTA
1 TTTTTTTGTA
17850282 T
1 T
17850283 GGACAAATTG
Statistics
Matches: 77, Mismatches: 0, Indels: 29
0.73 0.00 0.27
Matches are distributed among these distances:
7 12 0.16
8 2 0.03
9 10 0.13
10 18 0.23
11 20 0.26
12 5 0.06
13 3 0.04
14 7 0.09
ACGTcount: A:0.13, C:0.01, G:0.09, T:0.77
Consensus pattern (10 bp):
TTTTTTTGTA
Found at i:17850648 original size:49 final size:47
Alignment explanation
Indices: 17850491--17851487 Score: 920
Period size: 49 Copynumber: 20.8 Consensus size: 47
17850481 TGAAAAAGAT
* * * *
17850491 TCCTCTTAGCAGAGGCTCAACGACTTTAAAA-ATCATATTGAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGC
* * *
17850537 TCCTCTCAGTAGAGGCTCAACAACTTTAAAA-ATCATCTTGAAAAGGGT
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAA--GC
*
17850585 TCCTC-CTAGCAGAGGCTCAATAACTTTAAAATCTCATCTTGAAAATGGC
1 TCCTCTC-AGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAA--GC
* * * *
17850634 TCCTCTCAGTAGAGGCTCAACGATTTTAAAAATTCTCTTCTTGAAAAAGGC
1 TCCTCTCAGCAGAGGCTCAACAACTTT-AAAA-TCTCATCTTG-AAAA-GC
* * * * *
17850685 TCATCTCAGCAGAGGCTCAACGACTTTAAAA-ATCATCTTAAAAAGT
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGC
** * * *
17850731 TCCTCTCAGCAGAGGCTCAATGACTTTAAAAATTTTTATTTTGAAAAAGGC
1 TCCTCTCAGCAGAGGCTCAACAACTTT-AAAA-TCTCATCTTG-AAAA-GC
** *
17850782 TTATCTCAACAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG-AAAA-GC
* * *
17850831 T-TTCTAAGCAGAGGCTCAACGACTTTAAAATC-CATCTTGAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGC
* * * **
17850876 TCATCTCAGCAGAAGTTCAATGACTTTAAAAATCTCATCTTGAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAGC
* * * **
17850924 TCATCTCAGCAGAAGTTCAATGACTTTAAAAATCTCATCTTGAAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG-AAAAGC
* * ** * * *
17850973 TCTTCTCAACAGATACTCAACAACTTTAAAAATTTTATCTTGAAAAAAC
1 TCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG-AAAAGC
* * * * *
17851022 TCTTCTCAGTAGAGCCTCAACAACTTTAAAAATCTTATCTTGGAAAAGT
1 TCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTT-GAAAAGC
* * *
17851071 TTCTCTCAGCAGAGGTTCAACAACTTTAAAATCTCAT-ATGAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGC
* * * *
17851117 TCCTCTCGGCAGAGGCTCAATAATTTTAAAA-ATCATCTTGAAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG-AAAAGC
* ** *
17851164 TCCTTTCAATAGAGGCTCAACAATTTTAAAAATCTCATCTTGGAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTT-GAAAAGC
* *
17851213 TCCTTTCAACAGAGGCTCAACAACTTTAAAATC-CATCTTGAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGC
* * *
17851259 TCCTTTCAACAGAGGCTCAACAATTTTAAAAATCTCATCTTAGAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTT-GAAAAGC
*
17851308 TCCTCTCAGCAGAGGCTCAACAACTTTAAAAT-TCATCTTG-AAATC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGC
* * *
17851353 TCCTCTCAGTAGAGGCTCAATAACTTTAAAATC-AATCTTGAAAAGC
1 TCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGC
* * * * * * *
17851399 TCATCTCAACAGAGGTTCAACAACTTTTAAAAATTTTATTTTGGAAAAAGG
1 TCCTCTCAGCAGAGGCTCAACAAC-TTT-AAAATCTCATCTT-G-AAAAGC
*
17851450 TCCTCTCAGCAGAGTCTCAACAACTTTAAAAATCTCAT
1 TCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCAT
17851488 ATGTTCTTCA
Statistics
Matches: 808, Mismatches: 110, Indels: 62
0.82 0.11 0.06
Matches are distributed among these distances:
45 47 0.06
46 181 0.22
47 73 0.09
48 151 0.19
49 236 0.29
50 32 0.04
51 84 0.10
52 4 0.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.29
Consensus pattern (47 bp):
TCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAGC
Found at i:17850994 original size:191 final size:193
Alignment explanation
Indices: 17850498--17851487 Score: 967
Period size: 191 Copynumber: 5.2 Consensus size: 193
17850488 GATTCCTCTT
* * *
17850498 AGCAGAGGCTCAACGACTTTAAAAA--TCATATTGAAAAGCTCCTCTCAGTAGAGGCTCAACAAC
1 AGCAGAGGCTCAACGACTTTAAAAATCTCATCTTGAAAAGCTCCTCTCAGCAGAGGCTCAATAAC
* * * * *
17850561 TTTAAAAA-TCATCTTGAAAAGGGTTCCTCCTAGCAGAGGCTCAATAACTTT-AAAATCTCATCT
66 TTTAAAAATTCATCTTGAAAAAGCTTTCT-C-AACAGAGGCTCAACAACTTTAAAAATCTCATCT
* * * * * * *
17850624 TGAAAATGGCTCCTCTCAGTAGAGGCTCAACGATTTTAAAAATTCTCTTCTTGAAAAAGGCTCAT
129 TGAAAAAGGCTCTTCTAAGCAGAGGCTCAACAACTTTAAAAA-TCTCATCTTG-AAAA-GCTCAT
17850689 CTC
191 CTC
* * *
17850692 AGCAGAGGCTCAACGACTTTAAAAA--TCATCTTAAAAAGTTCCTCTCAGCAGAGGCTCAATGAC
1 AGCAGAGGCTCAACGACTTTAAAAATCTCATCTTGAAAAGCTCCTCTCAGCAGAGGCTCAATAAC
* *
17850755 TTTAAAAATTTTTATTTTGAAAAAGGCTTATCTCAACAGAGGCTCAACAACTTT-AAAATCTCAT
66 TTTAAAAA--TTCATCTTGAAAAA-GCTT-TCTCAACAGAGGCTCAACAACTTTAAAAATCTCAT
*
17850819 CTTGAAAAAGGCT-TTCTAAGCAGAGGCTCAACGACTTT-AAAATC-CATCTTGAAAAGCTCATC
127 CTTGAAAAAGGCTCTTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGCTCATC
17850881 TC
192 TC
* * * * * * *
17850883 AGCAGAAGTTCAATGACTTTAAAAATCTCATCTTGAAAAGCTCATCTCAGCAGAAGTTCAATGAC
1 AGCAGAGGCTCAACGACTTTAAAAATCTCATCTTGAAAAGCTCCTCTCAGCAGAGGCTCAATAAC
** * *
17850948 TTTAAAAATCTCATCTTGAAAAAGCTCTTCTCAACAGATACTCAACAACTTTAAAAATTTTATCT
66 TTTAAAAAT-TCATCTTGAAAAAGCT-TTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCT
* * * * * *
17851013 TGAAAAA-ACTCTTCTCAGTAGAGCCTCAACAACTTTAAAAATCTTATCTTGGAAAAGTTTC-TC
129 TGAAAAAGGCTCTTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATCTT-GAAAAG-CTCATC
17851076 TC
192 TC
* * * * *
17851078 AGCAGAGGTTCAACAACTTT-AAAATCTCAT-ATGAAAAGCTCCTCTCGGCAGAGGCTCAATAAT
1 AGCAGAGGCTCAACGACTTTAAAAATCTCATCTTGAAAAGCTCCTCTCAGCAGAGGCTCAATAAC
* *
17851141 TTTAAAAA-TCATCTTGAAAAAGCTCCTT-TCAATAGAGGCTCAACAATTTTAAAAATCTCATCT
66 TTTAAAAATTCATCTTGAAAAAGCT--TTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCT
* * *
17851204 TGGAAAA-GCTCCTT-TCAA-CAGAGGCTCAACAACTTT-AAAATC-CATCTTGAAAAGCTCCTT
129 TGAAAAAGGCT-CTTCT-AAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGCTCATC
17851264 TC
192 TC
* * * *
17851266 AACAGAGGCTCAACAATTTTAAAAATCTCATCTTAGAAAAGCTCCTCTCAGCAGAGGCTCAACAA
1 AGCAGAGGCTCAACGACTTTAAAAATCTCATCTT-GAAAAGCTCCTCTCAGCAGAGGCTCAATAA
* * ** * *
17851331 CTTT-AAAATTCATCTTG--AAATCTCCTCTCAGTAGAGGCTCAATAACTTT-AAAATC-AATCT
65 CTTTAAAAATTCATCTTGAAAAAGCT-TTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCT
* * * * * * *
17851391 TG-AAAA-GCTCATCTCAA-CAGAGGTTCAACAACTTTTAAAAATTTTATTTTGGAAAAAGGTCC
129 TGAAAAAGGCTCTTCT-AAGCAGAGGCTCAACAAC-TTTAAAAATCTCATCTT-G-AAAAGCTCA
17851453 TCTC
190 TCTC
* *
17851457 AGCAGAGTCTCAACAACTTTAAAAATCTCAT
1 AGCAGAGGCTCAACGACTTTAAAAATCTCAT
17851488 ATGTTCTTCA
Statistics
Matches: 679, Mismatches: 87, Indels: 63
0.82 0.10 0.08
Matches are distributed among these distances:
185 2 0.00
186 25 0.04
187 11 0.02
188 39 0.06
189 43 0.06
190 12 0.02
191 207 0.30
192 61 0.09
193 87 0.13
194 82 0.12
195 31 0.05
196 23 0.03
197 50 0.07
198 4 0.01
199 2 0.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.29
Consensus pattern (193 bp):
AGCAGAGGCTCAACGACTTTAAAAATCTCATCTTGAAAAGCTCCTCTCAGCAGAGGCTCAATAAC
TTTAAAAATTCATCTTGAAAAAGCTTTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCTTG
AAAAAGGCTCTTCTAAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGAAAAGCTCATCTC
Found at i:17861023 original size:151 final size:153
Alignment explanation
Indices: 17860749--17861040 Score: 401
Period size: 151 Copynumber: 1.9 Consensus size: 153
17860739 AATTGATTTA
* *
17860749 AATTTAAATAACTAATGAATAAAAAGCTATATATTTAATGACAAATAATCTTTATTAAATAAATA
1 AATTTAAATAACTAATGAATAAAAAGCTATATATTTAATGAAAAATAATCTTTAATAAATAAATA
* *
17860814 AATAAATACAAAAAATTTAAAGGTAAATTTGTTATTTTTTAAAATTCGTAAAGGTATTTATGCTA
66 AATAAATACAAAAAATTTAAAGGTAAATTTGTTATTTCTTAAAATTCATAAAGGTATTTATGCTA
17860879 TTAACTTTTAACACTTTTGGATT
131 TTAACTTTTAACACTTTTGGATT
* * *
17860902 AATTTAAATAATTAACT-AAT-AAATGCTATATATTTAATGAAAAATAATCTTTAATACATAAAT
1 AATTTAAATAACTAA-TGAATAAAAAGCTATATATTTAATGAAAAATAATCTTTAATAAATAAAT
* * * * * * * *
17860965 AAA-AAATGCTAGAAATTTGATGGTAAATTTGTTATTTCTTAAAATTTATAAGGGTATTTATGTT
65 AAATAAATACAAAAAATTTAAAGGTAAATTTGTTATTTCTTAAAATTCATAAAGGTATTTATGCT
* *
17861029 GTTCACTTTTAA
130 ATTAACTTTTAA
17861041 TAGTTTTAAA
Statistics
Matches: 121, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
151 61 0.50
152 42 0.35
153 17 0.14
154 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.41
Consensus pattern (153 bp):
AATTTAAATAACTAATGAATAAAAAGCTATATATTTAATGAAAAATAATCTTTAATAAATAAATA
AATAAATACAAAAAATTTAAAGGTAAATTTGTTATTTCTTAAAATTCATAAAGGTATTTATGCTA
TTAACTTTTAACACTTTTGGATT
Found at i:17865489 original size:6 final size:6
Alignment explanation
Indices: 17865478--17865506 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
17865468 TTATAATCTG
17865478 TATATT TATATT TATATT TATATT TATAT
1 TATATT TATATT TATATT TATATT TATAT
17865507 CTCTAGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATATT
Found at i:17869219 original size:16 final size:16
Alignment explanation
Indices: 17869198--17869234 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
17869188 AGAACAAAAC
17869198 ACATTGAAGTAAACCG
1 ACATTGAAGTAAACCG
17869214 ACATTGAAGTAAACCG
1 ACATTGAAGTAAACCG
17869230 ACATT
1 ACATT
17869235 TCATAAAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (16 bp):
ACATTGAAGTAAACCG
Found at i:17869476 original size:22 final size:22
Alignment explanation
Indices: 17869450--17869491 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17869440 TGTATATTTA
* *
17869450 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
17869472 TATTTGTATCCCTAAAATTA
1 TATTTGTATCCCTAAAATTA
17869492 GGATAGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:17878440 original size:48 final size:48
Alignment explanation
Indices: 17878385--17878480 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
17878375 AGTTTTTTAC
* *
17878385 TATGATTTTTTGTTGGTTTGATTCGAGAGGAGCAGAATAGAAGACAGG
1 TATGATTTTTCGTTGGTTTGATTCGAGAGGAGCAGAACAGAAGACAGG
* *
17878433 TATGATTTTTCGTTGGTTTGATTTGAGAGGAGGAGAACAGAAGACAGG
1 TATGATTTTTCGTTGGTTTGATTCGAGAGGAGCAGAACAGAAGACAGG
17878481 GAGCCAAAGC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.29, C:0.06, G:0.32, T:0.32
Consensus pattern (48 bp):
TATGATTTTTCGTTGGTTTGATTCGAGAGGAGCAGAACAGAAGACAGG
Found at i:17879023 original size:152 final size:149
Alignment explanation
Indices: 17878823--17879280 Score: 493
Period size: 150 Copynumber: 3.0 Consensus size: 149
17878813 GATTTAATTG
* * * *
17878823 TTATTTAAATCTTTTATTTTTTTTAAATTTCATAATATTAATAAAATATTATTTATATTTTAAAT
1 TTATTTAAAT-TTTTA-TTTTTTT-AATTTTAAAATATTAATAAAATATTATTTTTATTTTGAAT
* *
17878888 AACATATTTGAACAAAAAAATATTATTGTTTGAATAAATATATTTGAATAAATTTTTTAAAATTA
63 AACATATTTGAACAAAAAAATATTATT-TTTGAATAAATATGTTTGAACAAATTTTTTAAAATTA
17878953 GAAATATTAATAAAATATTATTT
127 GAAATATTAATAAAATATTATTT
*
17878976 TTATTTAAATATTTTATTTTTTTGAATTTTGAAATATTAATAAAATATTATTTTTATTTTGAATA
1 TTATTTAAAT-TTTTATTTTTTT-AATTTTAAAATATTAATAAAATATTATTTTTATTTTGAATA
* *
17879041 A-ATATTTTTG-AC-AAAAAATGATTA--TCTGAATAAATATGTTTGAACATATTTTTTAAAATT
64 ACATA--TTTGAACAAAAAAAT-ATTATTTTTGAATAAATATGTTTGAACAAATTTTTTAAAA-T
* *
17879101 TCA-AAATATTAATTAAATATTAATT
125 T-AGAAATATTAATAAAATATTATTT
** * *
17879126 TT-TTT--ATTTAAATCTTTTTTAATTTTAAAATATTAATAAAATACTATTTTTATTCTGAATAA
1 TTATTTAAATTTTTAT-TTTTTTAATTTTAAAATATTAATAAAATATTATTTTTATTTTGAATAA
* * * * * * * *
17879188 GCATGTTTCAACAAAAAAATATGATTATTTAAATAAACATGTTTGAACATATTTTTTTAAATTTC
65 -CATATTTGAACAAAAAAATATTATT-TTTGAATAAATATGTTTGAACA-AATTTTTTAAAATTA
* *
17879253 GAAACAATAATAAAATATTATTT
127 GAAATATTAATAAAATATTATTT
17879276 TTATT
1 TTATT
17879281 CTGAATAAGT
Statistics
Matches: 257, Mismatches: 32, Indels: 34
0.80 0.10 0.11
Matches are distributed among these distances:
146 46 0.18
147 13 0.05
148 9 0.04
149 33 0.13
150 65 0.25
151 22 0.09
152 50 0.19
153 19 0.07
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (149 bp):
TTATTTAAATTTTTATTTTTTTAATTTTAAAATATTAATAAAATATTATTTTTATTTTGAATAAC
ATATTTGAACAAAAAAATATTATTTTTGAATAAATATGTTTGAACAAATTTTTTAAAATTAGAAA
TATTAATAAAATATTATTT
Found at i:17879343 original size:36 final size:36
Alignment explanation
Indices: 17879284--17879388 Score: 102
Period size: 36 Copynumber: 2.9 Consensus size: 36
17879274 TTTTATTCTG
* * *
17879284 AATAAGTATATTTAAACAGAAAAACATGATTATTTA
1 AATAAATATGTTTAAACAAAAAAACATGATTATTTA
* * * * *
17879320 AATAAATATGTTTGAATAAAAAAACCTGATTGTTTG
1 AATAAATATGTTTAAACAAAAAAACATGATTATTTA
* * * *
17879356 ATTAAATTTGTTTAAACAAAAAAATATAATTAT
1 AATAAATATGTTTAAACAAAAAAACATGATTAT
17879389 ATAGATTGTC
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (36 bp):
AATAAATATGTTTAAACAAAAAAACATGATTATTTA
Found at i:17887024 original size:37 final size:36
Alignment explanation
Indices: 17886955--17887024 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 36
17886945 TCTGAAATCA
* * * **
17886955 ATTTTTTTTACATAATTAATGATAAAGGTAAAAACC
1 ATTTTTTTAACATAAGTAATAATAAAAATAAAAACC
17886991 ATTTTTTTAACATAAAGTAATAATAAAAATAAAA
1 ATTTTTTTAACAT-AAGTAATAATAAAAATAAAA
17887025 TTTTCAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 12 0.43
37 16 0.57
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (36 bp):
ATTTTTTTAACATAAGTAATAATAAAAATAAAAACC
Found at i:17894205 original size:29 final size:29
Alignment explanation
Indices: 17894172--17894229 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
17894162 CTCCAAAAAC
17894172 AGCATAAAAGTGCATTAAACAATCAGAAT
1 AGCATAAAAGTGCATTAAACAATCAGAAT
* *
17894201 AGCATAGAAGTGCATTAAACAATCTGAAT
1 AGCATAAAAGTGCATTAAACAATCAGAAT
17894230 TTCTTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.22
Consensus pattern (29 bp):
AGCATAAAAGTGCATTAAACAATCAGAAT
Found at i:17896693 original size:17 final size:17
Alignment explanation
Indices: 17896671--17896712 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
17896661 TAGACAGGAA
17896671 AAAAAATGAT-TAAATGG
1 AAAAAAT-ATATAAATGG
*
17896688 AAAAAATATATATATGG
1 AAAAAATATATAAATGG
17896705 AACAAAAT
1 AA-AAAAT
17896713 TCGTATCCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 15 0.68
18 5 0.23
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.24
Consensus pattern (17 bp):
AAAAAATATATAAATGG
Found at i:17898491 original size:24 final size:24
Alignment explanation
Indices: 17898459--17898516 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
17898449 TATAGAAATC
17898459 TGATTCTCCTACACT-GTGCAGAT
1 TGATTCTCCTACACTAGTGCAGAT
* *
17898482 ATGATTCTCCTACATTAGTGCAGCT
1 -TGATTCTCCTACACTAGTGCAGAT
17898507 TGATT-TCCTA
1 TGATTCTCCTA
17898517 ATTTATTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 5 0.16
24 19 0.61
25 7 0.23
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (24 bp):
TGATTCTCCTACACTAGTGCAGAT
Found at i:17900420 original size:27 final size:26
Alignment explanation
Indices: 17900372--17900445 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
17900362 CCAGACTCCC
* * *
17900372 AACTAGATTCCCAATCAACCCCTTTAA
1 AACTAGATTCTCAACCAGCCCC-TTAA
* *
17900399 AACTAGAATCTCAACCAGCCCCTTCA
1 AACTAGATTCTCAACCAGCCCCTTAA
* *
17900425 AACCAGATTCTCAACCTGCCC
1 AACTAGATTCTCAACCAGCCC
17900446 AACCTCTCAG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 21 0.54
27 18 0.46
ACGTcount: A:0.34, C:0.38, G:0.07, T:0.22
Consensus pattern (26 bp):
AACTAGATTCTCAACCAGCCCCTTAA
Found at i:17902730 original size:2 final size:2
Alignment explanation
Indices: 17902723--17902750 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17902713 AAAAATTAAA
17902723 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
17902751 GGAGGGATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:17905363 original size:32 final size:32
Alignment explanation
Indices: 17905309--17905371 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
17905299 ATCAACTTCA
*
17905309 TTATACTAACAATGTAGAATTTATAACATAGT
1 TTATACTAAAAATGTAGAATTTATAACATAGT
*
17905341 TTATACTAAAAATGCT-GGATTTATAACATAG
1 TTATACTAAAAATG-TAGAATTTATAACATAG
17905372 CTTAAAGAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.37
Consensus pattern (32 bp):
TTATACTAAAAATGTAGAATTTATAACATAGT
Found at i:17906281 original size:17 final size:16
Alignment explanation
Indices: 17906244--17906276 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17906234 TTATTTTAAA
17906244 TTATAAAAATATATAT
1 TTATAAAAATATATAT
*
17906260 TTATAAAGAT-TATAT
1 TTATAAAAATATATAT
17906275 TT
1 TT
17906277 TTATATATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TTATAAAAATATATAT
Found at i:17906567 original size:21 final size:21
Alignment explanation
Indices: 17906543--17906584 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17906533 TTTTTTCCTC
17906543 ATATTTGAGACCTACTTATAT
1 ATATTTGAGACCTACTTATAT
17906564 ATATTTGAGACCTACTTATAT
1 ATATTTGAGACCTACTTATAT
17906585 TTGACATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (21 bp):
ATATTTGAGACCTACTTATAT
Found at i:17909732 original size:24 final size:24
Alignment explanation
Indices: 17909700--17909749 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
17909690 GGAACAATTG
* *
17909700 CAAGAGAGGTTGATGTTGCTGGAA
1 CAAGAGAGGCTGATGCTGCTGGAA
17909724 CAAGAGAGGCTGATGCTGCTGGAA
1 CAAGAGAGGCTGATGCTGCTGGAA
17909748 CA
1 CA
17909750 TGTGCAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.30, C:0.14, G:0.36, T:0.20
Consensus pattern (24 bp):
CAAGAGAGGCTGATGCTGCTGGAA
Found at i:17909852 original size:16 final size:16
Alignment explanation
Indices: 17909831--17909863 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17909821 TGGGAATGAG
*
17909831 ATGTATATTTGGGAGA
1 ATGTATATTTCGGAGA
17909847 ATGTATATTTCGGAGA
1 ATGTATATTTCGGAGA
17909863 A
1 A
17909864 AAATTATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.36
Consensus pattern (16 bp):
ATGTATATTTCGGAGA
Found at i:17911015 original size:18 final size:18
Alignment explanation
Indices: 17910992--17911034 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
17910982 TTTTATTTTT
*
17910992 GAAAAAATTCAAAAGGTA
1 GAAAAAATTCAAAAAGTA
* * *
17911010 GAAAAATTTTAAAAATTA
1 GAAAAAATTCAAAAAGTA
17911028 GAAAAAA
1 GAAAAAA
17911035 AAAAAAAAAG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.65, C:0.02, G:0.12, T:0.21
Consensus pattern (18 bp):
GAAAAAATTCAAAAAGTA
Found at i:17916408 original size:26 final size:26
Alignment explanation
Indices: 17916299--17916424 Score: 76
Period size: 26 Copynumber: 4.5 Consensus size: 26
17916289 CAAAGTGTTG
17916299 ATAATTATCTAAAAT-ATTAAATTTAA
1 ATAATTAT-TAAAATCATTAAATTTAA
* * *
17916325 ATAATTTATTAAGTATCCTTATATGTTGAA
1 ATAA-TTATTAA-AATCATTAAAT-TT-AA
* * * *
17916355 ATATAATATATATATATGATTCGAATTTAA
1 ATA-ATTAT-TA-AAATCATT-AAATTTAA
17916385 ATAATTATCTAAAAT-ATTAAATTTAA
1 ATAATTAT-TAAAATCATTAAATTTAA
17916411 ATAATTTATTAAAA
1 ATAA-TTATTAAAA
17916425 AAAGTTATTT
Statistics
Matches: 78, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
26 23 0.29
27 13 0.17
28 8 0.10
29 8 0.10
30 13 0.17
31 10 0.13
32 3 0.04
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (26 bp):
ATAATTATTAAAATCATTAAATTTAA
Found at i:17921741 original size:12 final size:12
Alignment explanation
Indices: 17921722--17921756 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
17921712 TTAAATTATT
17921722 TATTTAATTTTA
1 TATTTAATTTTA
17921734 TATTTAATTTTA
1 TATTTAATTTTA
17921746 TATTTATATTT
1 TATTTA-ATTT
17921757 AAAATAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TATTTAATTTTA
Found at i:17921751 original size:18 final size:18
Alignment explanation
Indices: 17921718--17921777 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
17921708 TTTTTTAAAT
17921718 TATTT-ATTTAAT-TTTA
1 TATTTAATTTAATATTTA
*
17921734 TATTTAATTTTATATTTA
1 TATTTAATTTAATATTTA
**
17921752 TATTTAAAATAATATTT-
1 TATTTAATTTAATATTTA
17921769 TA-TTAATTT
1 TATTTAATTT
17921778 TAGGTCGGAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 10 0.28
17 8 0.22
18 18 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTAATTTAATATTTA
Found at i:17924737 original size:19 final size:18
Alignment explanation
Indices: 17924713--17924762 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
17924703 TAATCATGCC
17924713 TAAAAAAAACAAACACAAA
1 TAAAAAAAA-AAACACAAA
*
17924732 TAAAAAATAAATACA-AAA
1 TAAAAAA-AAAAACACAAA
17924750 TACAAAAAAAAAA
1 TA-AAAAAAAAAA
17924763 ACCAAAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 9 0.33
19 16 0.59
20 2 0.07
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (18 bp):
TAAAAAAAAAAACACAAA
Found at i:17926142 original size:41 final size:41
Alignment explanation
Indices: 17926012--17926332 Score: 394
Period size: 41 Copynumber: 7.8 Consensus size: 41
17926002 CTCCCTTAAG
* * *
17926012 CAGAGACTC-ACAACCTTGGAAAATAAATAAGGCTCCTCTAAA
1 CAGAGACTCAACGACTTTGAAAAAT-AA-AAGGCTCCTCTAAA
* * *
17926054 CAGAGGCTCAACGACTTTGAAAAAT-AATGGCTCATCTAAA
1 CAGAGACTCAACGACTTTGAAAAATAAAAGGCTCCTCTAAA
* * *
17926094 AAAAGACTCAACAACTTTGAAAAATAAAAGGCTCCTCTAAA
1 CAGAGACTCAACGACTTTGAAAAATAAAAGGCTCCTCTAAA
* * *
17926135 CAGAGACTCAACGACTTTGAAAAATAACAGGCTCCTATGAA
1 CAGAGACTCAACGACTTTGAAAAATAAAAGGCTCCTCTAAA
* * *
17926176 CAAAGGCTCAATGACTTTGAAAAATAAAAGGCTCCTCTAAA
1 CAGAGACTCAACGACTTTGAAAAATAAAAGGCTCCTCTAAA
*
17926217 CAGAGACTCAACGACTTTGAAAAATAAAAGGCTCCTATAAA
1 CAGAGACTCAACGACTTTGAAAAATAAAAGGCTCCTCTAAA
* * * *
17926258 CAAAGGCTCAATGACTTTGAAAAATAAAAGGCTCCTCTAAG
1 CAGAGACTCAACGACTTTGAAAAATAAAAGGCTCCTCTAAA
* * * *
17926299 CAGAGGCTTAATGACTTTGAAAAATAAAAAGCTC
1 CAGAGACTCAACGACTTTGAAAAATAAAAGGCTC
17926333 ATCAACAATC
Statistics
Matches: 241, Mismatches: 36, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
40 33 0.14
41 188 0.78
42 8 0.03
43 12 0.05
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (41 bp):
CAGAGACTCAACGACTTTGAAAAATAAAAGGCTCCTCTAAA
Found at i:17926327 original size:82 final size:82
Alignment explanation
Indices: 17926031--17926332 Score: 444
Period size: 82 Copynumber: 3.7 Consensus size: 82
17926021 ACAACCTTGG
* * * * *
17926031 AAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAT-AATGGCTCATCTAAAA
1 AAAAT-AA-AAGGCTCCTCTAAACAGAGACTCAACGACTTTGAAAAATAAAAGGCTCCTATAAAC
* **
17926095 AAAGACTCAACAACTTTGA
64 AAAGGCTCAATGACTTTGA
* *
17926114 AAAATAAAAGGCTCCTCTAAACAGAGACTCAACGACTTTGAAAAATAACAGGCTCCTATGAACAA
1 AAAATAAAAGGCTCCTCTAAACAGAGACTCAACGACTTTGAAAAATAAAAGGCTCCTATAAACAA
17926179 AGGCTCAATGACTTTGA
66 AGGCTCAATGACTTTGA
17926196 AAAATAAAAGGCTCCTCTAAACAGAGACTCAACGACTTTGAAAAATAAAAGGCTCCTATAAACAA
1 AAAATAAAAGGCTCCTCTAAACAGAGACTCAACGACTTTGAAAAATAAAAGGCTCCTATAAACAA
17926261 AGGCTCAATGACTTTGA
66 AGGCTCAATGACTTTGA
* * * * *
17926278 AAAATAAAAGGCTCCTCTAAGCAGAGGCTTAATGACTTTGAAAAATAAAAAGCTC
1 AAAATAAAAGGCTCCTCTAAACAGAGACTCAACGACTTTGAAAAATAAAAGGCTC
17926333 ATCAACAATC
Statistics
Matches: 201, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
81 38 0.19
82 158 0.79
83 5 0.02
ACGTcount: A:0.45, C:0.19, G:0.15, T:0.21
Consensus pattern (82 bp):
AAAATAAAAGGCTCCTCTAAACAGAGACTCAACGACTTTGAAAAATAAAAGGCTCCTATAAACAA
AGGCTCAATGACTTTGA
Found at i:17926735 original size:20 final size:20
Alignment explanation
Indices: 17926710--17926748 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17926700 CACATCCAAA
*
17926710 AGTTCAAAGCTTCTCATTTG
1 AGTTCAAAGCTTCACATTTG
*
17926730 AGTTCAAAGGTTCACATTT
1 AGTTCAAAGCTTCACATTT
17926749 AGTAAATCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (20 bp):
AGTTCAAAGCTTCACATTTG
Found at i:17927943 original size:31 final size:31
Alignment explanation
Indices: 17927908--17927967 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
17927898 ATTTTATTTT
*
17927908 AATAAAATAAAAAAGTAAA-ACAAATAAATAA
1 AATAAAATAAAAAAGAAAATACAAA-AAATAA
*
17927939 AATAAAATAAATAAGAAAATACAAAAAAT
1 AATAAAATAAAAAAGAAAATACAAAAAAT
17927968 CCGAAAACGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (31 bp):
AATAAAATAAAAAAGAAAATACAAAAAATAA
Found at i:17927958 original size:26 final size:27
Alignment explanation
Indices: 17927908--17927967 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
17927898 ATTTTATTTT
*
17927908 AATAAAATAAAAAAGTAAAACAAATA-
1 AATAAAATAAAAAAATAAAACAAATAC
*
17927934 AATAAAATAAAATAAATAAGA-AAATAC
1 AATAAAATAAAA-AAATAAAACAAATAC
17927961 AA-AAAAT
1 AATAAAAT
17927968 CCGAAAACGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 22 0.73
27 8 0.27
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (27 bp):
AATAAAATAAAAAAATAAAACAAATAC
Found at i:17927966 original size:9 final size:8
Alignment explanation
Indices: 17927911--17927967 Score: 60
Period size: 9 Copynumber: 6.6 Consensus size: 8
17927901 TTATTTTAAT
17927911 AAAATAAA
1 AAAATAAA
*
17927919 AAAGTAAA
1 AAAATAAA
17927927 ACAAATAAA
1 A-AAATAAA
17927936 TAAAATAAA
1 -AAAATAAA
*
17927945 ATAAATAAG
1 A-AAATAAA
17927954 AAAATACAA
1 AAAATA-AA
17927963 AAAAT
1 AAAAT
17927968 CCGAAAACGG
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
8 14 0.34
9 26 0.63
10 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.16
Consensus pattern (8 bp):
AAAATAAA
Found at i:17927967 original size:17 final size:16
Alignment explanation
Indices: 17927912--17927959 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
17927902 TATTTTAATA
17927912 AAATAAAAAAGTAAAAC
1 AAATAAAAAA-TAAAAC
*
17927929 AAATAAATAAAATAAAAT
1 AAAT-AA-AAAATAAAAC
17927947 AAATAAGAAAATA
1 AAATAA-AAAATA
17927960 CAAAAAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 12 0.44
18 11 0.41
19 4 0.15
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (16 bp):
AAATAAAAAATAAAAC
Found at i:17928373 original size:31 final size:31
Alignment explanation
Indices: 17928306--17928373 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
17928296 TCGAAATCTG
* *
17928306 GAAAAACCAGTCGAAAACTTCAAATATGACC
1 GAAAAACCAGTCGAAAAATTCAAATATCACC
*
17928337 AAAAAACTC-GTCGAAAAATTCAAACT-TCACC
1 GAAAAAC-CAGTCGAAAAATTCAAA-TATCACC
17928368 GAAAAA
1 GAAAAA
17928374 TTCTGTCGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
31 29 0.94
32 2 0.06
ACGTcount: A:0.51, C:0.22, G:0.10, T:0.16
Consensus pattern (31 bp):
GAAAAACCAGTCGAAAAATTCAAATATCACC
Found at i:17928719 original size:13 final size:12
Alignment explanation
Indices: 17928701--17928846 Score: 55
Period size: 13 Copynumber: 11.2 Consensus size: 12
17928691 AATCTTAACC
*
17928701 AAAAATTAATCAA
1 AAAAATAAAT-AA
17928714 AAAAATAAATAA
1 AAAAATAAATAA
*
17928726 AAAAGATAAATAT
1 AAAA-ATAAATAA
** *
17928739 ATTAATAGATAACA
1 AAAAATAAAT-A-A
* *
17928753 AAAAATAATTAG
1 AAAAATAAATAA
*
17928765 ATAAATAAA-AA
1 AAAAATAAATAA
17928776 AAATAGATAAATAA
1 AAA-A-ATAAATAA
17928790 TAATAAA-AAATAA
1 -AA-AAATAAATAA
*
17928803 AAGCAGATAAATAA
1 AA--AAATAAATAA
17928817 TAAAAATATTAATAGA
1 -AAAAATA--AATA-A
*
17928833 TAAAA-AAATAA
1 AAAAATAAATAA
17928844 AAA
1 AAA
17928847 TAAATATTAA
Statistics
Matches: 99, Mismatches: 20, Indels: 30
0.66 0.13 0.20
Matches are distributed among these distances:
11 6 0.06
12 25 0.25
13 37 0.37
14 16 0.16
15 13 0.13
16 2 0.02
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (12 bp):
AAAAATAAATAA
Done.