Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 21 of 290
Found at i:6800288 original size:21 final size:21
Alignment explanation
Indices: 6800252--6800311 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
6800242 AAATATATTT
6800252 TTTAAA-ATTA-TTTTTAAAA
1 TTTAAATATTATTTTTTAAAA
6800271 TTTAAATATTATTTTTTAAAA
1 TTTAAATATTATTTTTTAAAA
*
6800292 TTTAAATATGATTTTATTAA
1 TTTAAATATTATTTT-TTAA
6800312 TATAATAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
19 6 0.16
20 4 0.11
21 23 0.62
22 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TTTAAATATTATTTTTTAAAA
Found at i:6800327 original size:53 final size:52
Alignment explanation
Indices: 6800217--6800329 Score: 124
Period size: 53 Copynumber: 2.1 Consensus size: 52
6800207 TTTTAAATGT
** *
6800217 TTTATAATATTATTTTTAAAATTTTAAATATATTTTTTAAAATTATTTTTAAAA
1 TTTA-AATATTATTTTTAAAATTTTAAATATATTTTTT-AAATTATAATAAAAA
6800271 TTTAAATATTATTTTTTAAAA-TTTAAATATGATTTTATT-AA-TATAATAAAACA
1 TTTAAATATTA-TTTTTAAAATTTTAAATAT-ATTTT-TTAAATTATAATAAAA-A
6800324 TTTAAA
1 TTTAAA
6800330 ATAAATATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
52 7 0.13
53 25 0.48
54 18 0.35
55 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (52 bp):
TTTAAATATTATTTTTAAAATTTTAAATATATTTTTTAAATTATAATAAAAA
Found at i:6800445 original size:22 final size:22
Alignment explanation
Indices: 6800399--6800442 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
6800389 TTAGATGTAT
*
6800399 ATTTTAAATTTTAATTTTTTTA
1 ATTTTAAATTATAATTTTTTTA
6800421 ATTTTAAA-TATAATTTTTTTA
1 ATTTTAAATTATAATTTTTTTA
6800442 A
1 A
6800443 ATTATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTTAAATTATAATTTTTTTA
Found at i:6806239 original size:21 final size:21
Alignment explanation
Indices: 6806213--6806265 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
6806203 TGTGACTAGC
6806213 TATAATATATATTTTTAATTT
1 TATAATATATATTTTTAATTT
* *
6806234 TATAATATAAATTTTTATTTT
1 TATAATATATATTTTTAATTT
*
6806255 TTTAATATATA
1 TATAATATATA
6806266 GTTTAAAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATAATATATATTTTTAATTT
Found at i:6806310 original size:19 final size:19
Alignment explanation
Indices: 6806285--6806330 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
6806275 AAAGCTATAA
6806285 ATTTTTTAACAAATAAATC
1 ATTTTTTAACAAATAAATC
*
6806304 TTTTTTTAACAAATAAATC
1 ATTTTTTAACAAATAAATC
6806323 ATTTTTTA
1 ATTTTTTA
6806331 TTTTTTTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTTTTAACAAATAAATC
Found at i:6806443 original size:14 final size:13
Alignment explanation
Indices: 6806420--6806478 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 13
6806410 GAATATTTTT
6806420 AAAAATAATTTAA
1 AAAAATAATTTAA
*
6806433 AAATCATAATTTTAA
1 AAA-AATAA-TTTAA
6806448 AAAAATATATTTAA
1 AAAAATA-ATTTAA
6806462 AATTAAATAAGTTTAA
1 AA--AAATAA-TTTAA
6806478 A
1 A
6806479 TTTAAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 3 0.08
14 14 0.37
15 10 0.26
16 11 0.29
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (13 bp):
AAAAATAATTTAA
Found at i:6806465 original size:22 final size:22
Alignment explanation
Indices: 6806440--6806524 Score: 57
Period size: 22 Copynumber: 3.7 Consensus size: 22
6806430 TAAAAATCAT
*
6806440 AATTTTAAAAAAATATATTTAA
1 AATTTTAAAAAAATAAATTTAA
**
6806462 AA--TTAAATAAGTTTAAATTTAA
1 AATTTTAAA-AA-AATAAATTTAA
* *
6806484 AATTTTAAAAATATACATTTAA
1 AATTTTAAAAAAATAAATTTAA
*
6806506 CATATTATAAAACAAATAA
1 -A-ATTTTAAAA-AAATAA
6806525 TAAATTTGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
20 5 0.10
21 2 0.04
22 21 0.44
23 3 0.06
24 13 0.27
25 4 0.08
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.38
Consensus pattern (22 bp):
AATTTTAAAAAAATAAATTTAA
Found at i:6806599 original size:22 final size:21
Alignment explanation
Indices: 6806563--6806661 Score: 96
Period size: 21 Copynumber: 4.6 Consensus size: 21
6806553 AATATATTTT
*
6806563 AAATAT-TTTATATTATTAAA
1 AAATATATTTAAATTATTAAA
*
6806583 AATATATATTTAAATTA-AAAA
1 AA-ATATATTTAAATTATTAAA
*
6806604 AAATAATATTTAAATTTTTAAA
1 AAAT-ATATTTAAATTATTAAA
*
6806626 AAATATTTTTAAAATT-TTAAA
1 AAATATATTT-AAATTATTAAA
6806647 AAATAATATTATAAA
1 AAAT-ATATT-TAAA
6806662 ACATTTTAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
20 4 0.06
21 34 0.52
22 27 0.41
23 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATATATTTAAATTATTAAA
Found at i:6806604 original size:21 final size:22
Alignment explanation
Indices: 6806580--6806661 Score: 91
Period size: 22 Copynumber: 3.8 Consensus size: 22
6806570 TTATATTATT
**
6806580 AAAAATATATATTTAAATTAAA
1 AAAAATATATATTTAAATTTTA
6806602 AAAAATA-ATATTTAAATTTTTA
1 AAAAATATATATTTAAA-TTTTA
6806624 AAAAATAT-T-TTTAAAATTTTA
1 AAAAATATATATTT-AAATTTTA
6806645 AAAAATA-ATATTATAAA
1 AAAAATATATATT-TAAA
6806662 ACATTTTAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
21 25 0.48
22 26 0.50
23 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAAATATATATTTAAATTTTA
Found at i:6806627 original size:43 final size:43
Alignment explanation
Indices: 6806564--6806661 Score: 117
Period size: 43 Copynumber: 2.2 Consensus size: 43
6806554 ATATATTTTA
*
6806564 AATATTTTATATTATTAAAAATATATATTT-AAATTAAAAAAAAT
1 AATA-TTTAAATTATTAAAAA-ATATATTTAAAATTAAAAAAAAT
* * **
6806608 AATATTTAAATTTTTAAAAAATATTTTTAAAATTTTAAAAAAT
1 AATATTTAAATTATTAAAAAATATATTTAAAATTAAAAAAAAT
6806651 AATATTATAAA
1 AATATT-TAAA
6806662 ACATTTTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 7 0.15
43 32 0.68
44 8 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (43 bp):
AATATTTAAATTATTAAAAAATATATTTAAAATTAAAAAAAAT
Found at i:6811600 original size:30 final size:30
Alignment explanation
Indices: 6811555--6811614 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
6811545 ATTTAATACG
*
6811555 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
6811585 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
6811615 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:6816506 original size:105 final size:105
Alignment explanation
Indices: 6816324--6816853 Score: 1042
Period size: 105 Copynumber: 5.0 Consensus size: 105
6816314 TGATCTCTCA
* *
6816324 TATAAGCACACAAGAAATTCAGAGAATATCTGCTCTCTTTTTCCTAATGATGGGATATTAGGAAA
1 TATAAGCACACAAGAAATTCAGAGAATATCTGTTCTCTCTTTCCTAATGATGGGATATTAGGAAA
6816389 GATATTTTATGTATAATTTCAGGACTATAACCCTAATATT
66 GATATTTTATGTATAATTTCAGGACTATAACCCTAATATT
6816429 TATAAGCACACAAGAAATTCAGAGAATATCTGTTCTCTCTTTCCTAATGATGGGATATTAGGAAA
1 TATAAGCACACAAGAAATTCAGAGAATATCTGTTCTCTCTTTCCTAATGATGGGATATTAGGAAA
6816494 GATATTTTATGTATAATTTCAGGACTATAACCCTAATATT
66 GATATTTTATGTATAATTTCAGGACTATAACCCTAATATT
6816534 TATAAGCACACAAGAAATTCAGAGAATATCTGTTCTCTCTTTCCTAATGATGGGATATTAGGAAA
1 TATAAGCACACAAGAAATTCAGAGAATATCTGTTCTCTCTTTCCTAATGATGGGATATTAGGAAA
6816599 GATATTTTATGTATAATTTCAGGACTATAACCCTAATATT
66 GATATTTTATGTATAATTTCAGGACTATAACCCTAATATT
6816639 TATAAGCACACAAGAAATTCAGAGAATATCTGTTCTCTCTTTCCTAATGATGGGATATTAGGAAA
1 TATAAGCACACAAGAAATTCAGAGAATATCTGTTCTCTCTTTCCTAATGATGGGATATTAGGAAA
6816704 GATATTTTATGTATAATTTCAGGACTATAACCCTAATATT
66 GATATTTTATGTATAATTTCAGGACTATAACCCTAATATT
6816744 TATAAGCACACAAGAAATTCAGAGAATATCTGTTCTCTCTTTCCTAATGATGGGATATTAGGAAA
1 TATAAGCACACAAGAAATTCAGAGAATATCTGTTCTCTCTTTCCTAATGATGGGATATTAGGAAA
6816809 GATATTTTATGTATAATTTCAGGACTATAACCCTAATATT
66 GATATTTTATGTATAATTTCAGGACTATAACCCTAATATT
6816849 TATAA
1 TATAA
6816854 CCTTAGTATA
Statistics
Matches: 423, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 423 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (105 bp):
TATAAGCACACAAGAAATTCAGAGAATATCTGTTCTCTCTTTCCTAATGATGGGATATTAGGAAA
GATATTTTATGTATAATTTCAGGACTATAACCCTAATATT
Found at i:6819294 original size:13 final size:12
Alignment explanation
Indices: 6819265--6819295 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6819255 AAATATATAT
6819265 ATTTTTACTGTA
1 ATTTTTACTGTA
*
6819277 ATTTTTATTGTA
1 ATTTTTACTGTA
6819289 ATTTTTA
1 ATTTTTA
6819296 AAAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (12 bp):
ATTTTTACTGTA
Found at i:6819828 original size:11 final size:12
Alignment explanation
Indices: 6819795--6819842 Score: 64
Period size: 11 Copynumber: 4.2 Consensus size: 12
6819785 ATTTGTTGAG
6819795 TTTTTACATAAT
1 TTTTTACATAAT
**
6819807 TTTCAACATAAT
1 TTTTTACATAAT
6819819 TTTTTA-ATAAT
1 TTTTTACATAAT
6819830 TTTTTA-ATAAT
1 TTTTTACATAAT
6819841 TT
1 TT
6819843 ATATTTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
11 18 0.56
12 14 0.44
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (12 bp):
TTTTTACATAAT
Found at i:6820751 original size:20 final size:20
Alignment explanation
Indices: 6820726--6820764 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6820716 ATCACCTCAA
6820726 ATATAGTCTGAGTTCGAGTC
1 ATATAGTCTGAGTTCGAGTC
*
6820746 ATATAGTCTGAGTTTGAGT
1 ATATAGTCTGAGTTCGAGT
6820765 AATCCTAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.38
Consensus pattern (20 bp):
ATATAGTCTGAGTTCGAGTC
Found at i:6833838 original size:11 final size:11
Alignment explanation
Indices: 6833805--6833841 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
6833795 TCATAGGGTA
6833805 CTCACAGAACC
1 CTCACAGAACC
*
6833816 ATCACAGAACC
1 CTCACAGAACC
6833827 CTCACAGAACC
1 CTCACAGAACC
6833838 CTCA
1 CTCA
6833842 TATGATCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.38, C:0.43, G:0.08, T:0.11
Consensus pattern (11 bp):
CTCACAGAACC
Found at i:6842869 original size:16 final size:17
Alignment explanation
Indices: 6842836--6842869 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6842826 TCGGGCTATA
*
6842836 ACCATGCATTTCCAAAC
1 ACCATGCATATCCAAAC
6842853 ACCATGCATAT-CAAAC
1 ACCATGCATATCCAAAC
6842869 A
1 A
6842870 TAGTATACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.41, C:0.32, G:0.06, T:0.21
Consensus pattern (17 bp):
ACCATGCATATCCAAAC
Found at i:6843492 original size:67 final size:65
Alignment explanation
Indices: 6843416--6843640 Score: 154
Period size: 67 Copynumber: 3.3 Consensus size: 65
6843406 GACCGAAATT
*
6843416 AATTAATATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAAT
1 AATTAATAT-ATTAATTATATT-ATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAAT
6843481 CA
64 CA
* * *** * * *
6843483 AATTCATATATTAATTATATTCT---TTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTG
1 AATTAATATATTAATTATATTATAAATTCGGTAA-AATA-T-A--TACA----ATTAATATTTTG
*
6843545 -ACTGAAAT-T
57 TA-TG-AATCA
** *
6843554 AATTAATATAATTGTTTATATTGATAAATTCGGTAAAATAAATACAATTAATATTTTGTATGAAT
1 AATTAATAT-ATTAATTATATT-ATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAAT
6843619 CA
64 CA
*
6843621 AATTCATATATTAATTATAT
1 AATTAATATATTAATTATAT
6843641 ATATGCTCTT
Statistics
Matches: 115, Mismatches: 25, Indels: 37
0.65 0.14 0.21
Matches are distributed among these distances:
62 5 0.04
63 4 0.03
64 1 0.01
65 2 0.02
66 23 0.20
67 31 0.27
68 1 0.01
70 1 0.01
71 23 0.20
72 13 0.11
73 2 0.02
75 4 0.03
76 5 0.04
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (65 bp):
AATTAATATATTAATTATATTATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCA
Found at i:6843563 original size:71 final size:71
Alignment explanation
Indices: 6843356--6843563 Score: 159
Period size: 71 Copynumber: 3.0 Consensus size: 71
6843346 TTAGAAAATG
* *
6843356 AATTATATTTTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTTGACCGAAATTAATTA
1 AATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTATA-TTTTGACTGAAATTAATTA
6843421 ATATAATT
65 ATAT-ATT
* *** * * * *
6843429 ATTTATATTAATAAATTCGGTAA-AATA-T-A--TACA----ATTAATATTTTGTA-TG-AATCA
1 AATTATATT-AT---TTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTG-ACTGAAAT-T
*
6843483 AATTCATATATT
60 AATTAATATATT
*
6843495 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
6843560 TATA
66 TATA
6843564 ATTGTTTATA
Statistics
Matches: 97, Mismatches: 21, Indels: 36
0.63 0.14 0.23
Matches are distributed among these distances:
62 5 0.05
63 4 0.04
64 1 0.01
65 2 0.02
66 14 0.14
67 17 0.18
68 6 0.06
70 1 0.01
71 21 0.22
72 6 0.06
73 8 0.08
74 2 0.02
75 1 0.01
76 4 0.04
77 5 0.05
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (71 bp):
AATTATATTATTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAA
TATATT
Found at i:6843605 original size:138 final size:139
Alignment explanation
Indices: 6843356--6843640 Score: 518
Period size: 138 Copynumber: 2.1 Consensus size: 139
6843346 TTAGAAAATG
*
6843356 AATTATATTTTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTTGACCGAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTTGACCGAAATTAATTA
*
6843421 ATATAATTATTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
66 ATATAATTATTTATATTAATAAATTCGGTAAAATAAATACAATTAATATTTTGTATGAATCAAAT
6843486 TCATATATT
131 TCATATATT
*
6843495 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATA-TTTTGACTGAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTTGACCGAAATTAATTA
* *
6843559 ATATAATTGTTTATATTGATAAATTCGGTAAAATAAATACAATTAATATTTTGTATGAATCAAAT
66 ATATAATTATTTATATTAATAAATTCGGTAAAATAAATACAATTAATATTTTGTATGAATCAAAT
6843624 TCATATATT
131 TCATATATT
6843633 AATTATAT
1 AATTATAT
6843641 ATATGCTCTT
Statistics
Matches: 141, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
138 97 0.69
139 44 0.31
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (139 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTTGACCGAAATTAATTA
ATATAATTATTTATATTAATAAATTCGGTAAAATAAATACAATTAATATTTTGTATGAATCAAAT
TCATATATT
Found at i:6843722 original size:22 final size:24
Alignment explanation
Indices: 6843685--6843732 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
6843675 ATATAATGTG
6843685 TTTAATATTAAACAATTAAATTAA
1 TTTAATATTAAACAATTAAATTAA
*
6843709 TTTAAT-TT-AACAATTAATTTAA
1 TTTAATATTAAACAATTAAATTAA
6843731 TT
1 TT
6843733 CATGTGTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.65
23 2 0.09
24 6 0.26
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTAATATTAAACAATTAAATTAA
Found at i:6845166 original size:13 final size:12
Alignment explanation
Indices: 6845141--6845174 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
6845131 GTGTTATAAA
6845141 AACTAAGAATTT
1 AACTAAGAATTT
*
6845153 AGCTAAGTAATTT
1 AACTAAG-AATTT
6845166 AACTAAGAA
1 AACTAAGAA
6845175 AAATGAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (12 bp):
AACTAAGAATTT
Found at i:6845256 original size:29 final size:29
Alignment explanation
Indices: 6845223--6845280 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
6845213 AAAGTAAGTT
*
6845223 TAATCTATATGACATAAATGTGTTAGATC
1 TAATCTATAGGACATAAATGTGTTAGATC
6845252 TAATCTATAGGACATAAATGTGTTAGATC
1 TAATCTATAGGACATAAATGTGTTAGATC
6845281 AATTTTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (29 bp):
TAATCTATAGGACATAAATGTGTTAGATC
Found at i:6849409 original size:14 final size:14
Alignment explanation
Indices: 6849390--6849417 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6849380 GACATTTTCC
6849390 TTGGCTTTTAAACT
1 TTGGCTTTTAAACT
6849404 TTGGCTTTTAAACT
1 TTGGCTTTTAAACT
6849418 GTTGACGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (14 bp):
TTGGCTTTTAAACT
Found at i:6859368 original size:17 final size:17
Alignment explanation
Indices: 6859344--6859384 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
6859334 GATATGAAAG
*
6859344 AAAAAAAAT-AATAACT
1 AAAAAAAATAAACAACT
6859360 AAAATAAAATAAACAACT
1 AAAA-AAAATAAACAACT
6859378 AAAAAAA
1 AAAAAAA
6859385 TGGAACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 4 0.18
17 8 0.36
18 10 0.45
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAAAAAATAAACAACT
Found at i:6868216 original size:17 final size:18
Alignment explanation
Indices: 6868191--6868224 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6868181 AATTTGGGCC
*
6868191 GTGTGGGCT-ACACGGGG
1 GTGTAGGCTCACACGGGG
6868208 GTGTAGGCTCACACGGG
1 GTGTAGGCTCACACGGG
6868225 CAAGCCACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.21, G:0.47, T:0.18
Consensus pattern (18 bp):
GTGTAGGCTCACACGGGG
Found at i:6871130 original size:13 final size:13
Alignment explanation
Indices: 6871112--6871136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6871102 AACAGTGGTG
6871112 AGTCTGTTGGGGC
1 AGTCTGTTGGGGC
6871125 AGTCTGTTGGGG
1 AGTCTGTTGGGG
6871137 GTTAATAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.12, G:0.48, T:0.32
Consensus pattern (13 bp):
AGTCTGTTGGGGC
Found at i:6874481 original size:5 final size:5
Alignment explanation
Indices: 6874471--6874526 Score: 96
Period size: 5 Copynumber: 11.4 Consensus size: 5
6874461 TTATGTTTTA
*
6874471 ATTAT ATTAT ATTAT ATTAC ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
6874521 A-TAT AT
1 ATTAT AT
6874527 AAACTAAAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
4 4 0.08
5 44 0.92
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (5 bp):
ATTAT
Found at i:6875813 original size:15 final size:15
Alignment explanation
Indices: 6875793--6875849 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
6875783 CGATGAATTT
6875793 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
6875808 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
*
6875823 ATTAAATTTATATTG
1 ATTGAATTTATATTG
6875838 ATTGAA-TTATAT
1 ATTGAATTTATAT
6875850 AATATATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:6876302 original size:23 final size:21
Alignment explanation
Indices: 6876220--6876295 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
6876210 GGCTTTATCG
**
6876220 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACTTCGTGTGTCGT
* *
6876241 ATTTCAGACACCTCGTGTGTCGT
1 A--TCAGGCACTTCGTGTGTCGT
6876264 ATCAGGCACTTCGTGTGTCGT
1 ATCAGGCACTTCGTGTGTCGT
* *
6876285 TTTAGGCACTT
1 ATCAGGCACTT
6876296 TATGTGTCAT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
21 28 0.62
23 17 0.38
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (21 bp):
ATCAGGCACTTCGTGTGTCGT
Found at i:6879113 original size:40 final size:40
Alignment explanation
Indices: 6879069--6879144 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
6879059 CGGCACTTTA
* *
6879069 TGGTGTGTAGGGTTAGATGGGTTAATTTTATCCCCATATT
1 TGGTGTGTAGGGATAGATGGGTCAATTTTATCCCCATATT
* * *
6879109 TGGTGTGTAGGGATGGGTGGGTCGATTTTATCCCCA
1 TGGTGTGTAGGGATAGATGGGTCAATTTTATCCCCA
6879145 CGTGGTGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.33, T:0.38
Consensus pattern (40 bp):
TGGTGTGTAGGGATAGATGGGTCAATTTTATCCCCATATT
Found at i:6881407 original size:140 final size:139
Alignment explanation
Indices: 6881085--6881503 Score: 584
Period size: 134 Copynumber: 3.1 Consensus size: 139
6881075 AGAAAAATAT
* * *
6881085 TTATATTATTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
** * *
6881150 TATTTGTTTATATTAATAAATTCAGTAAAATATA-TACAATTAATATTTTGTATGAATCAAATTC
66 TAAATATTTATATTAATAAATTCAGTAAAAAATATTACAATTAATATTTTGTATGAATCAAATTC
6881214 ATATA-T-A
131 ATATATTAA
*
6881221 -T-TATTCTTTCTAAAAGAATATTAA-TTTCTATGTCTTTTATATTTTGACCGAAATTAATTAAT
1 TTATATTCTTTCCAAAAGAATATTAATTTTC-ATGTCTTTTATATTTTGACCGAAATTAATTAAT
*
6881283 ATAAATATTTATATTAAT-AATTCAGTAAAAAAATATTTACAATTAATATTTTGTATGAATTAAA
65 ATAAATATTTATATTAATAAATTCAGT-AAAAAATA-TTACAATTAATATTTTGTATGAATCAAA
* *
6881347 TTGATACATTAA
128 TTCATATATTAA
* * *
6881359 TTATATTCTTTCCAAAAGAATAATAATTTTCATGTCCTTTATATTTTGACCGAAATTAATTAATC
1 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * * * *
6881424 TAACTATTTATATTGATAAATTTAGTAAAAGATA-TACAATTAATATTTTTTATGAATCAAATTC
66 TAAATATTTATATTAATAAATTCAGTAAAAAATATTACAATTAATATTTTGTATGAATCAAATTC
6881488 ATATATTAA
131 ATATATTAA
6881497 TTATATT
1 TTATATT
6881504 TATGTTCTCT
Statistics
Matches: 250, Mismatches: 23, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
133 11 0.04
134 75 0.30
135 1 0.00
136 32 0.13
137 1 0.00
138 43 0.17
139 1 0.00
140 75 0.30
141 11 0.04
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (139 bp):
TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAATA
TAAATATTTATATTAATAAATTCAGTAAAAAATATTACAATTAATATTTTGTATGAATCAAATTC
ATATATTAA
Found at i:6881856 original size:14 final size:13
Alignment explanation
Indices: 6881831--6881855 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6881821 ATATCATAAA
6881831 TACCGCAAAAAAG
1 TACCGCAAAAAAG
6881844 TACCGCAAAAAA
1 TACCGCAAAAAA
6881856 ATTAAGCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.24, G:0.12, T:0.08
Consensus pattern (13 bp):
TACCGCAAAAAAG
Found at i:6883325 original size:7 final size:7
Alignment explanation
Indices: 6883313--6883339 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
6883303 TATGCATGAG
6883313 TGTGAAC
1 TGTGAAC
6883320 TGTGAAC
1 TGTGAAC
6883327 TGTGAAC
1 TGTGAAC
6883334 TGTGAA
1 TGTGAA
6883340 TACAGCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (7 bp):
TGTGAAC
Found at i:6883774 original size:13 final size:13
Alignment explanation
Indices: 6883756--6883782 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6883746 GTCTAGTCAA
6883756 TGTGAATTTTACC
1 TGTGAATTTTACC
6883769 TGTGAATTTTACC
1 TGTGAATTTTACC
6883782 T
1 T
6883783 TCATTTGAAC
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:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (13 bp):
TGTGAATTTTACC
Found at i:6884208 original size:43 final size:43
Alignment explanation
Indices: 6884148--6884238 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
6884138 TTTTGAGTTC
* * *
6884148 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
6884190 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
6884233 ATTACC
1 ATTACC
6884239 TTGCAATGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:6885068 original size:42 final size:43
Alignment explanation
Indices: 6884966--6885074 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 43
6884956 AAAGCGTTGT
*
6884966 TAAAGGTCATGTTCTATAGTGGCGTTTATGCGAAAAATGCCAC
1 TAAAGGTTATGTTCTATAGTGGCGTTTATGCGAAAAATGCCAC
* * *
6885009 TAAAGGTT-TATTCTATAGCGGCGTTT-T-TGAAAAA-GCGTCAC
1 TAAAGGTTATGTTCTATAGTGGCGTTTATGCGAAAAATGC--CAC
*
6885050 TAAAGGTTATGTTTTATAGTGGCGT
1 TAAAGGTTATGTTCTATAGTGGCGT
6885075 CTGTAGGAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 2 0.04
40 6 0.11
41 12 0.21
42 29 0.52
43 7 0.12
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (43 bp):
TAAAGGTTATGTTCTATAGTGGCGTTTATGCGAAAAATGCCAC
Found at i:6885213 original size:35 final size:35
Alignment explanation
Indices: 6885167--6885237 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
6885157 AGCGTAGCTA
*
6885167 AATGTCATGTTTTATAGCGGTGTTTGTGGGAAAGC
1 AATGTCATGTTTTATAGCGGCGTTTGTGGGAAAGC
6885202 AATGTCATGTTTTATAGCGGCGTTTGTGGGAAAGC
1 AATGTCATGTTTTATAGCGGCGTTTGTGGGAAAGC
6885237 A
1 A
6885238 TCGCTAAAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.24, C:0.10, G:0.31, T:0.35
Consensus pattern (35 bp):
AATGTCATGTTTTATAGCGGCGTTTGTGGGAAAGC
Found at i:6891442 original size:43 final size:43
Alignment explanation
Indices: 6891287--6891443 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
6891277 TGTGTTTTCG
* * * *
6891287 TGTAACACCACGTCTGGGACGTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCACGTCTGAGACGTTGGCATCGA-TATTTGA-TTACA
** * * *
6891331 TGTAAGACCATATC-CAGGACGTTGACATCG-TATTTGATTTCA
1 TGTAAGACCACGTCTGA-GACGTTGGCATCGATATTTGATTACA
* *
6891373 TGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGAGA-CGTTGGCATCGATATTTGATTACA
6891416 TGTAAGACCACGTCTGAGACGTTGGCAT
1 TGTAAGACCACGTCTGAGACGTTGGCAT
6891444 TGTACGAGAT
Statistics
Matches: 87, Mismatches: 18, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
42 25 0.29
43 38 0.44
44 24 0.28
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGAGACGTTGGCATCGATATTTGATTACA
Found at i:6899119 original size:43 final size:43
Alignment explanation
Indices: 6898977--6899120 Score: 125
Period size: 43 Copynumber: 3.3 Consensus size: 43
6898967 AAGATCGCGA
* * *
6898977 CTGGGACGTTGGCATC-A-ACTTATGATTTACGTGTAAGACTACGT
1 CTGGGATGTTGGCATCGATA-TT-TGA-TTACGTGTAAGACCATGT
* * * * * *
6899021 CTAGGATGTTGACATCG-TATTTGATTTCGTGCAAGACCCTAT
1 CTGGGATGTTGGCATCGATATTTGATTACGTGTAAGACCATGT
* *
6899063 CTGGGACAG-TGGCATCGATATTTGATTACATGTAAGACCATGT
1 CTGGGA-TGTTGGCATCGATATTTGATTACGTGTAAGACCATGT
6899106 CTGGGATGTTGGCAT
1 CTGGGATGTTGGCAT
6899121 TGTATGAGAT
Statistics
Matches: 77, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
42 25 0.32
43 36 0.47
44 15 0.19
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
CTGGGATGTTGGCATCGATATTTGATTACGTGTAAGACCATGT
Found at i:6903262 original size:20 final size:20
Alignment explanation
Indices: 6903237--6903274 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6903227 CTGTAATTAA
6903237 ATATTATT-TAATTATAATGT
1 ATATTATTAT-ATTATAATGT
6903257 ATATTATTATATTATAAT
1 ATATTATTATATTATAAT
6903275 ATTGTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
ATATTATTATATTATAATGT
Found at i:6903911 original size:13 final size:15
Alignment explanation
Indices: 6903878--6903928 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
6903868 ATTAGTGATT
6903878 TGAATTAAATAAAAG
1 TGAATTAAATAAAAG
*
6903893 TGAATTAAA-AATA-
1 TGAATTAAATAAAAG
6903906 TGAATTAAATAAAAG
1 TGAATTAAATAAAAG
*
6903921 TTAATTAA
1 TGAATTAA
6903929 TTTATAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 9 0.29
14 6 0.19
15 16 0.52
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (15 bp):
TGAATTAAATAAAAG
Found at i:6905461 original size:33 final size:33
Alignment explanation
Indices: 6905422--6905513 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 33
6905412 GAGGTGTACA
*
6905422 TTCCTTTCCAAGTGGTACAAATAAAGTATACCT
1 TTCCTTTCCAAGTGGTACAAACAAAGTATACCT
* * *
6905455 TTCCTTTTCATA-TGGTATACACAAAGTATACCT
1 TTCCTTTCCA-AGTGGTACAAACAAAGTATACCT
** *
6905488 AACCTTTCCAAGT-GTACACACAAAGT
1 TTCCTTTCCAAGTGGTACAAACAAAGT
6905514 GTACATAACC
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
32 13 0.27
33 35 0.71
34 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.33
Consensus pattern (33 bp):
TTCCTTTCCAAGTGGTACAAACAAAGTATACCT
Found at i:6905523 original size:32 final size:33
Alignment explanation
Indices: 6905424--6905537 Score: 97
Period size: 33 Copynumber: 3.5 Consensus size: 33
6905414 GGTGTACATT
* * * * **
6905424 CCTTTCCAAGTGGTACAAATAAAGTATACCTTT
1 CCTTTCCAAGTTGTACACACAAAGTATACATAA
* * * *
6905457 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTCCA-AGTTGTACACACAAAGTATACATAA
*
6905490 CCTTTCCAAG-TGTACACACAAAGTGTACATAA
1 CCTTTCCAAGTTGTACACACAAAGTATACATAA
*
6905522 CCTTTTCAAGTTGTAC
1 CCTTTCCAAGTTGTAC
6905538 CATTTGGGTA
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
32 28 0.42
33 37 0.56
34 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.32
Consensus pattern (33 bp):
CCTTTCCAAGTTGTACACACAAAGTATACATAA
Found at i:6937764 original size:40 final size:40
Alignment explanation
Indices: 6937706--6937883 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
6937696 CGGATGATAA
6937706 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
* *
6937746 CCGGGCTAAGTCCAGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
* * *
6937786 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
*
6937826 CCGGGCTAAATCCCGAAGGCATTTG-AGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTA-CGAGTTA-CTATAT
* *
6937866 CC-GGCTAATTCCTGAAGG
1 CCGGGCTAAGTCCCGAAGG
6937884 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 16 0.13
40 109 0.87
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
Found at i:6941336 original size:138 final size:134
Alignment explanation
Indices: 6941177--6941587 Score: 498
Period size: 138 Copynumber: 3.1 Consensus size: 134
6941167 TGGAAAATGG
6941177 AATTATATTCTTTTCAAAAGAATATTAATTTCCATATCTTCTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTTCAAAAGAATATTAATTTCCATATCTT-TATATTTTGACTGAAATTAATTAA
*
6941242 TATAACCGTTTATATTAATAAATTCAGTGAAATATATACAATTAATATTTTATATGAAACAAATT
65 TATAACC-TTTATATTAATAAATT-AGT-AAATATATACAATTAATATTTTGTATGAAACAAATT
6941307 CATATATT
127 CATATATT
* *
6941315 AATTATATTC-TTTCAGAAAGAATATTAATTTTCATGTCCTTTATATTTTGA-TGAAATTAATTA
1 AATTATATTCTTTTCA-AAAGAATATTAATTTCCATAT-CTTTATATTTTGACTGAAATTAATTA
* * * * * **
6941378 ATATAA-C--TAT-TT-AT--ATTAATAAATTTAGACAATCAATAGTTTGTATGAATTAAATTCA
64 ATATAACCTTTATATTAATAAATTAGTAAATATATACAATTAATATTTTGTATGAAACAAATTCA
6941436 TATATT
129 TATATT
* * * **
6941442 AATTATATTCTTTTCAAAATAATATTAATTTCTATTTCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTTCAAAAGAATATTAATTTCCATATC-TTTATATTTTGACTGAAATTAATTAA
* * * *
6941507 TATAACTATTTATATTAATAAACTTGGTAAAATATATAAAATTAATATTTTGTATGAACCAAATT
65 TATAAC-CTTTATATTAATAAA-TTAGT-AAATATATACAATTAATATTTTGTATGAAACAAATT
6941572 CATATATT
127 CATATATT
6941580 AATTATAT
1 AATTATAT
6941588 CTATATTCTC
Statistics
Matches: 232, Mismatches: 26, Indels: 30
0.81 0.09 0.10
Matches are distributed among these distances:
126 1 0.00
127 76 0.33
128 23 0.10
129 3 0.01
131 2 0.01
132 5 0.02
133 5 0.02
134 2 0.01
136 2 0.01
137 26 0.11
138 84 0.36
139 3 0.01
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (134 bp):
AATTATATTCTTTTCAAAAGAATATTAATTTCCATATCTTTATATTTTGACTGAAATTAATTAAT
ATAACCTTTATATTAATAAATTAGTAAATATATACAATTAATATTTTGTATGAAACAAATTCATA
TATT
Found at i:6944291 original size:40 final size:39
Alignment explanation
Indices: 6944224--6944318 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 39
6944214 CAATCCAACT
* * *
6944224 AGCTCATGGTGGAG-TTTGTTGATACACAACTTAACCTTA
1 AGCTCATGG-GGAGCTTCGCTGATACACAACTTAACCATA
*
6944263 AGCTCATGGAGGAGCTTCGCTGATACACAACTTATCCATA
1 AGCTCATGG-GGAGCTTCGCTGATACACAACTTAACCATA
6944303 AGCTCATGGGGAGCTT
1 AGCTCATGGGGAGCTT
6944319 TATTAATACA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
39 20 0.40
40 30 0.60
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (39 bp):
AGCTCATGGGGAGCTTCGCTGATACACAACTTAACCATA
Found at i:6944336 original size:39 final size:40
Alignment explanation
Indices: 6944224--6944336 Score: 149
Period size: 39 Copynumber: 2.9 Consensus size: 40
6944214 CAATCCAACT
* * *
6944224 AGCTCATGGTGGAG-TTTGTTGATACACAACTTAACCTTA
1 AGCTCATGGAGGAGCTTTGTTGATACACAACTTATCCATA
* *
6944263 AGCTCATGGAGGAGCTTCGCTGATACACAACTTATCCATA
1 AGCTCATGGAGGAGCTTTGTTGATACACAACTTATCCATA
* *
6944303 AGCTCATGG-GGAGCTTTATTAATACACAACTTAT
1 AGCTCATGGAGGAGCTTTGTTGATACACAACTTAT
6944337 AAAATCATTC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 34 0.53
40 30 0.47
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (40 bp):
AGCTCATGGAGGAGCTTTGTTGATACACAACTTATCCATA
Found at i:6947116 original size:20 final size:20
Alignment explanation
Indices: 6947055--6947117 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
6947045 GTTTATCTGA
*
6947055 ATTACTAGTGGCTTGTCCAC
1 ATTACTGGTGGCTTGTCCAC
* * * * *
6947075 ATTTCTGGTAGTTTATCTAC
1 ATTACTGGTGGCTTGTCCAC
6947095 ATTACTGGTGGCTTGTCCAC
1 ATTACTGGTGGCTTGTCCAC
6947115 ATT
1 ATT
6947118 TTTAAGTACT
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (20 bp):
ATTACTGGTGGCTTGTCCAC
Found at i:6958102 original size:6 final size:6
Alignment explanation
Indices: 6958086--6958129 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
6958076 TGATTTTCTC
*
6958086 AAAATG GAAATG AAAATG AAAATG AAAATG AAAATG AGAAATG A
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG A
6958130 TTCATTTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:6960504 original size:50 final size:50
Alignment explanation
Indices: 6960429--6960654 Score: 235
Period size: 50 Copynumber: 4.5 Consensus size: 50
6960419 TGAATACACG
* * * *
6960429 TGTGTAGTACTACGTGGAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* * *
6960479 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCAA-TCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGTCACA
* * * * *
6960530 TGTGTAGTACTAAGTGCAGGCTACTACGTATATCAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* * * *
6960580 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
*
6960629 TGTGTAGTACTAAATGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
6960655 TGCGTATCAG
Statistics
Matches: 148, Mismatches: 21, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 33 0.22
50 70 0.47
51 35 0.24
52 4 0.03
53 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:6964742 original size:29 final size:29
Alignment explanation
Indices: 6964700--6964757 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
6964690 TGCAAAAGAA
*
6964700 TGTTAAGTTTAATTGGACTGAAGAGTGTC
1 TGTTAAGTTTAATTGGACTGAAAAGTGTC
6964729 TGTTAAGTTTAATTGGACTGAAAAGTGTC
1 TGTTAAGTTTAATTGGACTGAAAAGTGTC
6964758 AACAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.26, T:0.38
Consensus pattern (29 bp):
TGTTAAGTTTAATTGGACTGAAAAGTGTC
Found at i:6964765 original size:29 final size:29
Alignment explanation
Indices: 6964704--6964767 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
6964694 AAAGAATGTT
* ****
6964704 AAGTTTAATTGGACTGAAGAGTGTCTGTT
1 AAGTTTAATTGGACTGAAAAGTGTCAACA
6964733 AAGTTTAATTGGACTGAAAAGTGTCAACA
1 AAGTTTAATTGGACTGAAAAGTGTCAACA
6964762 AAGTTT
1 AAGTTT
6964768 TGAGAAGTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.34
Consensus pattern (29 bp):
AAGTTTAATTGGACTGAAAAGTGTCAACA
Found at i:6965075 original size:18 final size:17
Alignment explanation
Indices: 6965052--6965093 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
6965042 AGTTTGAAAT
6965052 ATTTGATGAATCAAAAAG
1 ATTTGAT-AATCAAAAAG
*
6965070 ATTTGAATTATCAAAAAG
1 ATTTG-ATAATCAAAAAG
6965088 ATTTGA
1 ATTTGA
6965094 ATTTACGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 19 0.86
19 2 0.09
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (17 bp):
ATTTGATAATCAAAAAG
Found at i:6965094 original size:18 final size:18
Alignment explanation
Indices: 6965061--6965096 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6965051 TATTTGATGA
6965061 ATCAAAAAGATTTGAATT
1 ATCAAAAAGATTTGAATT
6965079 ATCAAAAAGATTTGAATT
1 ATCAAAAAGATTTGAATT
6965097 TACGACAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (18 bp):
ATCAAAAAGATTTGAATT
Found at i:6968080 original size:50 final size:50
Alignment explanation
Indices: 6967961--6968088 Score: 143
Period size: 50 Copynumber: 2.6 Consensus size: 50
6967951 AATGACCCAT
* *
6967961 TGTGAA-TACACGTGTGTAGTACTAAGTGGAGGCTACTACGTGTACCATAC
1 TGTGAAGT-CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATAA
* * * * *
6968011 TGTTAAGTCGCATGCGTAGTACTAAGTGCAGGCTACTACGTGTATCA-AA
1 TGTGAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATAA
* *
6968060 TGGTGAGGTCACGTGTGTAGTACGAAGTG
1 T-GTGAAGTCACGTGTGTAGTACTAAGTG
6968089 TGAAAGCCCT
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
49 2 0.03
50 60 0.95
51 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (50 bp):
TGTGAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATAA
Found at i:6970107 original size:45 final size:45
Alignment explanation
Indices: 6970043--6970214 Score: 262
Period size: 45 Copynumber: 3.9 Consensus size: 45
6970033 AATATCGTAC
*
6970043 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGA
1 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
*
6970088 GATACTATTCGGGCCTTTGATCCTAGCAGGCTATAATGCCGGTGA
1 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
*
6970133 GATACTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* *
6970178 AATGA-TA-TCGGG-CTTTGAGCCTAGCAGGCGA-AATGCC
1 GAT-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
6970215 AGTGGATGAA
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
42 6 0.05
43 18 0.15
44 4 0.03
45 90 0.76
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (45 bp):
GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:6970773 original size:16 final size:18
Alignment explanation
Indices: 6970742--6970774 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
6970732 AACTTGTCAC
6970742 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
6970760 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
6970775 AATTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:6971218 original size:27 final size:26
Alignment explanation
Indices: 6971188--6971239 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
6971178 GGGAAAATCG
6971188 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
6971215 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
6971240 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:6979656 original size:29 final size:29
Alignment explanation
Indices: 6979613--6979677 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
6979603 TTGACCTTGT
* *
6979613 TTGATTCTTTTTAATAATATAGAGACTAAA
1 TTGA-TCTATTTAATAATAGAGAGACTAAA
* *
6979643 TTGATCTATTTAATAATAGAGGGACTAAT
1 TTGATCTATTTAATAATAGAGAGACTAAA
6979672 TTGATC
1 TTGATC
6979678 CGGTCTCTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.42
Consensus pattern (29 bp):
TTGATCTATTTAATAATAGAGAGACTAAA
Found at i:6992814 original size:20 final size:20
Alignment explanation
Indices: 6992789--6992842 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
6992779 AAGCCCCATG
**
6992789 GTATCGATATTTTTACACGA
1 GTATCGATATTTTTACAAAA
*
6992809 GTATCGGTATTTTTACAAAA
1 GTATCGATATTTTTACAAAA
6992829 GTATCGATATTTTT
1 GTATCGATATTTTT
6992843 TAGTTGGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (20 bp):
GTATCGATATTTTTACAAAA
Found at i:7000870 original size:21 final size:21
Alignment explanation
Indices: 7000846--7000893 Score: 89
Period size: 20 Copynumber: 2.3 Consensus size: 21
7000836 AATTAGGGAT
7000846 AAATTTGAAACAAAATAAAAA
1 AAATTTGAAACAAAATAAAAA
7000867 AAA-TTGAAACAAAATAAAAA
1 AAATTTGAAACAAAATAAAAA
7000887 AAATTTG
1 AAATTTG
7000894 GGAAATAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (21 bp):
AAATTTGAAACAAAATAAAAA
Found at i:7006123 original size:47 final size:47
Alignment explanation
Indices: 7006045--7006200 Score: 240
Period size: 47 Copynumber: 3.3 Consensus size: 47
7006035 CCCTTCGGGG
* * * * * *
7006045 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
7006092 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7006139 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7006186 CTTATCACATATATA
1 CTTATCACATATATA
7006201 NNNNNNNNNN
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 99 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:7009308 original size:40 final size:40
Alignment explanation
Indices: 7009264--7009379 Score: 169
Period size: 40 Copynumber: 2.9 Consensus size: 40
7009254 GAATACACGT
* * *
7009264 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAA
* * *
7009304 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACAT
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAA
*
7009344 CACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
7009380 TTAGTAACTC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.22
Consensus pattern (40 bp):
CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAA
Found at i:7009404 original size:40 final size:40
Alignment explanation
Indices: 7009280--7009497 Score: 155
Period size: 40 Copynumber: 5.5 Consensus size: 40
7009270 CATGATTGCT
* *
7009280 CTTCGGGACCTAGCCCGGATATA--ACAC-CAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTA-ACTC-GCACCAATGC
* * * * **
7009319 TCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATGC
*
7009359 TCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATGC
* *
7009400 CTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACCAATGC
* * * * * *
7009439 CTTC-AGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCACCAATGC
*
7009479 CTTCGGGACTGAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
7009498 CATCATTCGA
Statistics
Matches: 142, Mismatches: 27, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
38 1 0.01
39 32 0.23
40 90 0.63
41 19 0.13
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATGC
Found at i:7009404 original size:80 final size:79
Alignment explanation
Indices: 7009263--7009417 Score: 199
Period size: 80 Copynumber: 1.9 Consensus size: 79
7009253 CGAATACACG
* *
7009263 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAA
1 TCACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACCAATGCTCTTCGG-A
7009328 CTTAGCCCGGATACA
65 CTTAGCCCGGATACA
* * *
7009343 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAAC-TC-GCACCAATGC-CTTCG
1 TCACCAGCATGAATGCTCTTCGGGACCTAGCCCGGA--TA-TAACACCAGCACCAATGCTCTTCG
*
7009405 GGCTTAGCCCGGA
63 GACTTAGCCCGGA
7009418 ATTAGTATCT
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
79 11 0.17
80 39 0.59
81 9 0.14
82 3 0.05
83 4 0.06
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (79 bp):
TCACCAGCATGAATGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACCAATGCTCTTCGGAC
TTAGCCCGGATACA
Found at i:7009423 original size:39 final size:40
Alignment explanation
Indices: 7009354--7009497 Score: 143
Period size: 39 Copynumber: 3.6 Consensus size: 40
7009344 CACTAGCATG
* *
7009354 AATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
1 AATGC-CTTCGGGACTTAGCCCGGAATTAGTAACTCGCACA
*
7009395 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACA
* * * * *
7009434 AATGCCTTC-AGATCTTAGTCCGG-ATATGGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCACA
*
7009475 AA-GCCTTCGGGACTGAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
7009498 CATCATTCGA
Statistics
Matches: 85, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
38 1 0.01
39 35 0.41
40 34 0.40
41 15 0.18
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACA
Found at i:7009842 original size:29 final size:29
Alignment explanation
Indices: 7009803--7009881 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
7009793 CTTAATAGTC
*
7009803 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
7009833 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
7009862 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
7009882 ATCTCACAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:7009924 original size:43 final size:43
Alignment explanation
Indices: 7009863--7010008 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
7009853 TGCATTTCAA
*
7009863 GCCCGCACACTTAGTGCCAATCTCACAATCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
7009906 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
7009949 GCCCGTACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
7009992 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
7010009 TGAAAACCAA
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:7011779 original size:89 final size:89
Alignment explanation
Indices: 7011628--7011805 Score: 356
Period size: 89 Copynumber: 2.0 Consensus size: 89
7011618 TCTCATAGAT
7011628 TGCTCTTGTATGCATCACATAACTACCTTATGATTTAGTGCAAATCAAGCTCACATATAAACTTG
1 TGCTCTTGTATGCATCACATAACTACCTTATGATTTAGTGCAAATCAAGCTCACATATAAACTTG
7011693 GAGTACATACCTGTTTAACCTTTC
66 GAGTACATACCTGTTTAACCTTTC
7011717 TGCTCTTGTATGCATCACATAACTACCTTATGATTTAGTGCAAATCAAGCTCACATATAAACTTG
1 TGCTCTTGTATGCATCACATAACTACCTTATGATTTAGTGCAAATCAAGCTCACATATAAACTTG
7011782 GAGTACATACCTGTTTAACCTTTC
66 GAGTACATACCTGTTTAACCTTTC
7011806 GTATTGAATA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (89 bp):
TGCTCTTGTATGCATCACATAACTACCTTATGATTTAGTGCAAATCAAGCTCACATATAAACTTG
GAGTACATACCTGTTTAACCTTTC
Found at i:7011892 original size:37 final size:37
Alignment explanation
Indices: 7011842--7011920 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
7011832 TTATTACGAA
* * *
7011842 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
7011879 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
7011916 GTCTT
1 GTCTT
7011921 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:7012165 original size:49 final size:49
Alignment explanation
Indices: 7012039--7012779 Score: 1255
Period size: 49 Copynumber: 15.1 Consensus size: 49
7012029 CCCTTCGGGA
* * * * *
7012039 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
7012086 CCTGTCACATATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7012133 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7012182 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7012231 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7012280 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7012329 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7012378 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7012427 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
7012476 CTTATCACATATATAT--ACTTTCACGTTCATCACATCGGCCATTTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACAT----C----GGCCATTAGGC
7012531 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7012580 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7012629 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7012678 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG-C
*
7012728 TCTTATCAC--ATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 -CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
7012776 CTTA
1 CTTA
7012780 CTATCATTTC
Statistics
Matches: 666, Mismatches: 12, Indels: 32
0.94 0.02 0.05
Matches are distributed among these distances:
47 70 0.11
48 2 0.00
49 538 0.81
50 1 0.00
51 9 0.01
53 1 0.00
55 27 0.04
57 18 0.03
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:7014798 original size:57 final size:57
Alignment explanation
Indices: 7014710--7014880 Score: 342
Period size: 57 Copynumber: 3.0 Consensus size: 57
7014700 TTTACCTAAA
7014710 ACTTACCTTAATTAAGCAAGTAGAAGACCGAATGCCTAGCTTCTTCCCTCCTCCTCT
1 ACTTACCTTAATTAAGCAAGTAGAAGACCGAATGCCTAGCTTCTTCCCTCCTCCTCT
7014767 ACTTACCTTAATTAAGCAAGTAGAAGACCGAATGCCTAGCTTCTTCCCTCCTCCTCT
1 ACTTACCTTAATTAAGCAAGTAGAAGACCGAATGCCTAGCTTCTTCCCTCCTCCTCT
7014824 ACTTACCTTAATTAAGCAAGTAGAAGACCGAATGCCTAGCTTCTTCCCTCCTCCTCT
1 ACTTACCTTAATTAAGCAAGTAGAAGACCGAATGCCTAGCTTCTTCCCTCCTCCTCT
7014881 CAATCCGGCC
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 114 1.00
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (57 bp):
ACTTACCTTAATTAAGCAAGTAGAAGACCGAATGCCTAGCTTCTTCCCTCCTCCTCT
Found at i:7016500 original size:40 final size:41
Alignment explanation
Indices: 7016332--7016593 Score: 220
Period size: 40 Copynumber: 6.6 Consensus size: 41
7016322 CCAGCATGAT
* * * *
7016332 TGCTCTTCGGGACCTAGCCCGGATATA-ACACCAGCACAAA
1 TGCTCTTCGGAACTTAGCCCGGATATAGTCACTAGCACAAA
* **
7016372 TGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATATAGTCACTAGCACAAA
* * * **
7016412 TGCTCTTCGGGACTTAGCTCGGATACA-TCACTAGCATGAA
1 TGCTCTTCGGAACTTAGCCCGGATATAGTCACTAGCACAAA
* * * *
7016452 TGCTCTTCGGAACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGAACTTAGCCCGGATATAGTCACTAGCACAAA
* *
7016493 TGC-CTTCGG-GCTTAGCCCGGA-ATTAGT-ATCTCGCACAAA
1 TGCTCTTCGGAACTTAGCCCGGATA-TAGTCA-CTAGCACAAA
* * * *
7016532 TGC-CTTCAGATCTTAGTCCGGATATGGTCACTTAGCACAAA
1 TGCTCTTCGGAACTTAGCCCGGATATAGTCAC-TAGCACAAA
*
7016573 -GC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGCCCGGA
7016594 CATCATTCGA
Statistics
Matches: 186, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
38 1 0.01
39 32 0.17
40 131 0.70
41 22 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
TGCTCTTCGGAACTTAGCCCGGATATAGTCACTAGCACAAA
Found at i:7016938 original size:29 final size:29
Alignment explanation
Indices: 7016899--7016977 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
7016889 CTTAATAATC
*
7016899 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
7016929 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
7016958 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
7016978 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:7017021 original size:43 final size:43
Alignment explanation
Indices: 7016959--7017104 Score: 283
Period size: 43 Copynumber: 3.4 Consensus size: 43
7016949 TGCATTTCAA
7016959 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
7017002 ACCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
7017045 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
7017088 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
7017105 TGAAAACCAA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 101 1.00
ACGTcount: A:0.27, C:0.36, G:0.14, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:7055754 original size:55 final size:55
Alignment explanation
Indices: 7055690--7055799 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
7055680 CCCCTGTTTC
7055690 AGGGTTCGACTACTCTGACCTTCATGCATTACGACTTAGTTAACTCTCTGTACAG
1 AGGGTTCGACTACTCTGACCTTCATGCATTACGACTTAGTTAACTCTCTGTACAG
7055745 AGGGTTCGACTACTCTGACCTTCATGCATTACGACTTAGTTAACTCTCTGTACAG
1 AGGGTTCGACTACTCTGACCTTCATGCATTACGACTTAGTTAACTCTCTGTACAG
7055800 GGCTTCAATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (55 bp):
AGGGTTCGACTACTCTGACCTTCATGCATTACGACTTAGTTAACTCTCTGTACAG
Found at i:7057762 original size:42 final size:42
Alignment explanation
Indices: 7057715--7057795 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
7057705 GCCATAACAT
*
7057715 TTTGTCCACCCTCATGCTCATGGCTGGCCACTACTAATTAGG
1 TTTGTCCACCCTCATGCTCATGGCCGGCCACTACTAATTAGG
7057757 TTTGTCCACCCTCATGCTCATGGCCGGCCACTACTAATT
1 TTTGTCCACCCTCATGCTCATGGCCGGCCACTACTAATT
7057796 GGGGGGGGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.19, C:0.33, G:0.17, T:0.31
Consensus pattern (42 bp):
TTTGTCCACCCTCATGCTCATGGCCGGCCACTACTAATTAGG
Found at i:7058663 original size:66 final size:66
Alignment explanation
Indices: 7058566--7058694 Score: 150
Period size: 66 Copynumber: 2.0 Consensus size: 66
7058556 ATGTTAAAAA
* * * ** * * *
7058566 AAGAAATGGTGTGGCGAATTCACTATGGAAGTTCATTCGTTACACCAAGATTAATTCATGCCAAA
1 AAGAAATGGTATCGCGAATTCACAAAAGAAGTTCATCCGCTACACCAAGATTAATCCATGCCAAA
7058631 C
66 C
* ** *
7058632 AAGAAATGGTATCGTGAATTCACAAAAGAAGTTCATCCGCTACATTAGGATTAATCCATGCCA
1 AAGAAATGGTATCGCGAATTCACAAAAGAAGTTCATCCGCTACACCAAGATTAATCCATGCCA
7058695 TAGAAAAAGT
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
66 51 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (66 bp):
AAGAAATGGTATCGCGAATTCACAAAAGAAGTTCATCCGCTACACCAAGATTAATCCATGCCAAA
C
Found at i:7065411 original size:27 final size:26
Alignment explanation
Indices: 7065363--7065414 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
7065353 GCGAGGCTGC
*
7065363 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
7065389 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
7065415 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:7066116 original size:27 final size:27
Alignment explanation
Indices: 7066047--7066157 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 27
7066037 ATAGTCATTT
* ** * *
7066047 TACCCTCCAGGGGTAAATCGGTATTTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* *
7066074 TACCCTACAAGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
*
7066101 TACCCTACAGGGGTATTTCAATAAATT-
1 TACCCTACAGGGGTATTTCAGT-AATTC
7066128 TACCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
7066155 TAC
1 TAC
7066158 AACTTATCCA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 4 0.05
27 65 0.89
28 4 0.05
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCAGTAATTC
Found at i:7067161 original size:69 final size:67
Alignment explanation
Indices: 7067084--7067221 Score: 213
Period size: 69 Copynumber: 2.0 Consensus size: 67
7067074 GCTACAAGAT
* * *
7067084 AAACAATTACTTTAATATTAAATTAATATAATATTTATTAAGATAAATATTAAATTAAATTTAAT
1 AAACAATTACTTTAATATTAAATTAATAAAATA-CTATT-AGATAAATATTAAATTAAATTTAAC
7067149 ATTA
64 ATTA
* *
7067153 AAACAATTACTTTAATATTAAATTAATAAAATACTATTAGATAAGTATTAAATTTAATTTAACAT
1 AAACAATTACTTTAATATTAAATTAATAAAATACTATTAGATAAATATTAAATTAAATTTAACAT
7067218 TA
66 TA
7067220 AA
1 AA
7067222 TCTATTAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
67 28 0.44
68 4 0.06
69 32 0.50
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (67 bp):
AAACAATTACTTTAATATTAAATTAATAAAATACTATTAGATAAATATTAAATTAAATTTAACAT
TA
Found at i:7068745 original size:18 final size:18
Alignment explanation
Indices: 7068722--7068758 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
7068712 AGCATATGAG
7068722 TTACAAATGCATGATCAC
1 TTACAAATGCATGATCAC
7068740 TTACAAATGCATGATCAC
1 TTACAAATGCATGATCAC
7068758 T
1 T
7068759 GACTAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.30
Consensus pattern (18 bp):
TTACAAATGCATGATCAC
Found at i:7077253 original size:15 final size:17
Alignment explanation
Indices: 7077222--7077254 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
7077212 GAGTCAAGTA
7077222 TAATATTATTGAAATTT
1 TAATATTATTGAAATTT
7077239 TAAT-TTATT-AAATTT
1 TAATATTATTGAAATTT
7077254 T
1 T
7077255 GTTAATTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 5 0.31
17 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TAATATTATTGAAATTT
Found at i:7086249 original size:40 final size:39
Alignment explanation
Indices: 7086205--7086309 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
7086195 AGTGACCATA
*
7086205 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
7086245 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
7086283 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
7086310 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:7086266 original size:39 final size:40
Alignment explanation
Indices: 7086165--7086328 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
7086155 TTGAATGATG
* *
7086165 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
7086205 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
7086244 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
7086284 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
7086324 TCCGG
1 TCCGG
7086329 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:7086328 original size:79 final size:80
Alignment explanation
Indices: 7086165--7086315 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
7086155 TTGAATGATG
*
7086165 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
7086230 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
7086245 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
7086307 TTGAACGAG
64 TTGAACGAG
7086316 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:7088199 original size:43 final size:43
Alignment explanation
Indices: 7088152--7088254 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
7088142 TTGGTTTTCA
7088152 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
7088195 GCACTAAATGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
7088238 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
7088255 TTGAAATGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:7088271 original size:29 final size:29
Alignment explanation
Indices: 7088236--7088309 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
7088226 GTTGTGAGAT
* *
7088236 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
7088265 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
7088294 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
7088310 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:7088746 original size:40 final size:40
Alignment explanation
Indices: 7088623--7088818 Score: 184
Period size: 40 Copynumber: 4.9 Consensus size: 40
7088613 TCGAATGATG
** *
7088623 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
7088663 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
* *
7088703 TCCGGGCTAAGTCCCAAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
7088743 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
7088783 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
7088819 CGTGTATTCG
Statistics
Matches: 130, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 110 0.85
41 19 0.15
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:7109269 original size:25 final size:25
Alignment explanation
Indices: 7109240--7109289 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
7109230 TCACATACGG
7109240 GGTTCATTCATAAGATTTTTTCGTA
1 GGTTCATTCATAAGATTTTTTCGTA
7109265 GGTTCATTCATAAGATTTTTTCGTA
1 GGTTCATTCATAAGATTTTTTCGTA
7109290 CATACCTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (25 bp):
GGTTCATTCATAAGATTTTTTCGTA
Found at i:7111705 original size:51 final size:51
Alignment explanation
Indices: 7111628--7111775 Score: 226
Period size: 51 Copynumber: 2.9 Consensus size: 51
7111618 CATATACACG
* *
7111628 GTGGCGTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
* *
7111679 GTGGCCTTCACCTAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
7111730 GTGGCCTTCACATAGTACCACACTTATGTCCAAAGTTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
7111776 CTAAGGTTCA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 1 0.01
51 87 0.99
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:7117751 original size:40 final size:40
Alignment explanation
Indices: 7117589--7117733 Score: 227
Period size: 40 Copynumber: 3.6 Consensus size: 40
7117579 TATTCGGATG
* *
7117589 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
** * *
7117629 ATGTCTGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACC
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
7117669 ATAACCGGGCTAAGTCCCAAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
7117709 ATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCA
7117734 TTTAAGCGAG
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 93 1.00
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:7121587 original size:50 final size:50
Alignment explanation
Indices: 7121512--7122244 Score: 529
Period size: 50 Copynumber: 14.5 Consensus size: 50
7121502 CTGGTATGCA
* * * * *
7121512 TAGTAGCCAGCACTTAGTACTACACATGCGACCTATTAATCAGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* ** * * * * *
7121562 TAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTAA-CGGGCACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTGGTACACG
* * * * *
7121613 TAGTAGCCTGCATTTAGTACTACATATGCGACCTATCAATATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* * * * * *
7121663 TAGTAGCCTGCACTTAATACTACACACGTGACTTAACCATCTGATACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* * * * * * * *
7121713 TAGTATCCTACACATAGTACTACATACGTGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* ** * * * * *
7121763 TAGTAGCCTACACTTAGTACTACACACGTGATCAAAGTTAA-CGGGCACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTGGTACACG
* * * *
7121814 TAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTATACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* * * * * *
7121864 TAGTAGCCTGCACTTAATACTACACACGTGACTTAACCATCTGATACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* * * * * * * *
7121914 TAGTATCCTACACATAGTACTACATACGTGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* * ** * * * * *
7121964 TAGTAGCCTACACTTAGCACTACACACGTGATCAAAGTTAA-CGGGCACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTGGTACACG
* * * *
7122015 TAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTATACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* * * * * * *
7122065 TAGTAGCCTGCACTTAATACTACACACGTGACTTAACCACCTGATACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* * * * * * * * *
7122115 TAGTATCCTACACATAGTACTACATACGTGACNTCGAAGTTAAT-AGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC--C-TA-TCAATCTGGTACACG
* * * *
7122168 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATGAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
7122218 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
7122245 AATGTTAATA
Statistics
Matches: 530, Mismatches: 139, Indels: 28
0.76 0.20 0.04
Matches are distributed among these distances:
49 13 0.02
50 370 0.70
51 108 0.20
52 6 0.01
53 32 0.06
54 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
Found at i:7121818 original size:151 final size:151
Alignment explanation
Indices: 7121663--7121944 Score: 393
Period size: 151 Copynumber: 1.9 Consensus size: 151
7121653 ATGGTACACG
* * * * * *
7121663 TAGTAGCCTGCACTTAATACTACACACGTGACTTAACCATCTGATACACTTAGTATCCTACACAT
1 TAGTAGCCTACACTTAATACTACACACGCGACCTAACAATCTGATACACGTAGTAGCCTACACAT
* * *
7121728 AGTACTACATACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTG
66 AATACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACATAGTACTACACACGTG
7121793 ATCAAAGTTAACGGGCACGCA
131 ATCAAAGTTAACGGGCACGCA
* * * * * * *
7121814 TAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTATACGTAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAATACTACACACGCGACCTAACAATCTGATACACGTAGTAGCCTACACAT
* * *
7121879 AATACTACACACGTGACTTAACCATCTGATACACTTAGTATCCTACACATAGTACTACATACGTG
66 AATACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACATAGTACTACACACGTG
7121944 A
131 A
7121945 CTTAACCATC
Statistics
Matches: 112, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
151 112 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (151 bp):
TAGTAGCCTACACTTAATACTACACACGCGACCTAACAATCTGATACACGTAGTAGCCTACACAT
AATACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACATAGTACTACACACGTG
ATCAAAGTTAACGGGCACGCA
Found at i:7121871 original size:201 final size:201
Alignment explanation
Indices: 7121556--7122146 Score: 1101
Period size: 201 Copynumber: 2.9 Consensus size: 201
7121546 ATTAATCAGG
* *
7121556 TACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTAACGGGCACGCATAGTAGCC
1 TACACGTAGTAGCCTACACTTAGTACTACACACGTGATCAAAGTTAACGGGCACGCATAGTAGCC
* * * * *
7121621 TGCATTTAGTACTACATATGCGACCTATCAATATGGTACACGTAGTAGCCTGCACTTAATACTAC
66 TACACTTAGTACTACACATGCGACCTATCAATCTGGTATACGTAGTAGCCTGCACTTAATACTAC
7121686 ACACGTGACTTAACCATCTGATACACTTAGTATCCTACACATAGTACTACATACGTGACTTAACC
131 ACACGTGACTTAACCATCTGATACACTTAGTATCCTACACATAGTACTACATACGTGACTTAACC
7121751 ATCTGA
196 ATCTGA
7121757 TACACGTAGTAGCCTACACTTAGTACTACACACGTGATCAAAGTTAACGGGCACGCATAGTAGCC
1 TACACGTAGTAGCCTACACTTAGTACTACACACGTGATCAAAGTTAACGGGCACGCATAGTAGCC
7121822 TACACTTAGTACTACACATGCGACCTATCAATCTGGTATACGTAGTAGCCTGCACTTAATACTAC
66 TACACTTAGTACTACACATGCGACCTATCAATCTGGTATACGTAGTAGCCTGCACTTAATACTAC
7121887 ACACGTGACTTAACCATCTGATACACTTAGTATCCTACACATAGTACTACATACGTGACTTAACC
131 ACACGTGACTTAACCATCTGATACACTTAGTATCCTACACATAGTACTACATACGTGACTTAACC
7121952 ATCTGA
196 ATCTGA
*
7121958 TACACGTAGTAGCCTACACTTAGCACTACACACGTGATCAAAGTTAACGGGCACGCATAGTAGCC
1 TACACGTAGTAGCCTACACTTAGTACTACACACGTGATCAAAGTTAACGGGCACGCATAGTAGCC
7122023 TACACTTAGTACTACACATGCGACCTATCAATCTGGTATACGTAGTAGCCTGCACTTAATACTAC
66 TACACTTAGTACTACACATGCGACCTATCAATCTGGTATACGTAGTAGCCTGCACTTAATACTAC
*
7122088 ACACGTGACTTAACCACCTGATACACTTAGTATCCTACACATAGTACTACATACGTGAC
131 ACACGTGACTTAACCATCTGATACACTTAGTATCCTACACATAGTACTACATACGTGAC
7122147 NTCGAAGTTA
Statistics
Matches: 381, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
201 381 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (201 bp):
TACACGTAGTAGCCTACACTTAGTACTACACACGTGATCAAAGTTAACGGGCACGCATAGTAGCC
TACACTTAGTACTACACATGCGACCTATCAATCTGGTATACGTAGTAGCCTGCACTTAATACTAC
ACACGTGACTTAACCATCTGATACACTTAGTATCCTACACATAGTACTACATACGTGACTTAACC
ATCTGA
Found at i:7122221 original size:153 final size:151
Alignment explanation
Indices: 7121864--7122244 Score: 494
Period size: 151 Copynumber: 2.5 Consensus size: 151
7121854 CTGGTATACG
* * * * * * * * * *
7121864 TAGTAGCCTGCACTTAATACTACACACGTGACTTAACCATCTGATACACT-TAGTATCCTACACA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACA-TGTAGTAGCCTGCACT
* * *
7121928 TAGTACTACATACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGCACTACACACGT
65 TAGTACTACACACGTGACTTAACCACCTGATACACGTAGTAGCCTACACATAGCACTACACACGT
*
7121993 GATCAAAGTTAACGGGCACGCA
130 GATCAAAGTTAACAGGCACGCA
* * *
7122015 TAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTATACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCCTGCACTT
* * * * *
7122080 AATACTACACACGTGACTTAACCACCTGATACACTTAGTATCCTACACATAGTACTACATACGTG
66 AGTACTACACACGTGACTTAACCACCTGATACACGTAGTAGCCTACACATAGCACTACACACGTG
* * *
7122145 ACNTCGAAGTTAATAGGTACGCA
131 A--TCAAAGTTAACAGGCACGCA
*
7122168 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATGAATCTGGTACATGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCCTGCACTT
7122233 AGTACTACACAC
66 AGTACTACACAC
7122245 AATGTTAATA
Statistics
Matches: 197, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
151 109 0.55
153 88 0.45
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (151 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGTAGTAGCCTGCACTT
AGTACTACACACGTGACTTAACCACCTGATACACGTAGTAGCCTACACATAGCACTACACACGTG
ATCAAAGTTAACAGGCACGCA
Found at i:7127910 original size:51 final size:51
Alignment explanation
Indices: 7127834--7128067 Score: 353
Period size: 51 Copynumber: 4.6 Consensus size: 51
7127824 GGTGGTGTTC
* *
7127834 ACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAAGTGGCCTTCACCTAGT
1 ACCACACTTGT-GTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACATAGT
*
7127885 ACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGAGGCCTTCACATAGT
1 ACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACATAGT
* * *
7127936 ACCACACTTGTGTCCAAAGCTATTATGTTCACAAAGTGGCCTTCAGATAGT
1 ACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACATAGT
* * *
7127987 ACCACACTTGTGTCCGAAGCTATTATATTCACAAAGTGGCCTTCACGTAGT
1 ACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACATAGT
* *
7128038 ACCACACTTGTGTTCAAAGTTATTTTATTC
1 ACCACACTTGTGTCCAAAGCTATTTTATTC
7128068 TTAAGGTTCA
Statistics
Matches: 167, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
50 1 0.01
51 166 0.99
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (51 bp):
ACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACATAGT
Found at i:7140065 original size:32 final size:31
Alignment explanation
Indices: 7140009--7140085 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 31
7139999 TTAAATCGAT
*
7140009 AAAAAA-TT-AATTTAACATATTTTAAAATTA
1 AAAAAATTTAAATTTAACATAATTTAAAA-TA
*
7140039 AAAAAATTTAAATTTAACTTAATTTAAAATA
1 AAAAAATTTAAATTTAACATAATTTAAAATA
**
7140070 ACGAAATTTCAAATTT
1 AAAAAATTT-AAATTT
7140086 CGTCTTACCA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 6 0.15
31 11 0.28
32 23 0.57
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (31 bp):
AAAAAATTTAAATTTAACATAATTTAAAATA
Found at i:7140237 original size:18 final size:19
Alignment explanation
Indices: 7140212--7140263 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
7140202 AACTTGAGGA
7140212 AATTGAGAGAATTA-AAAG
1 AATTGAGAGAATTAGAAAG
*
7140230 AGTTGAGAG-ATTAGAAAG
1 AATTGAGAGAATTAGAAAG
*
7140248 AATTGAGAGAGTTAGA
1 AATTGAGAGAATTAGA
7140264 TTTGAGCGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 20 0.69
19 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.29, T:0.23
Consensus pattern (19 bp):
AATTGAGAGAATTAGAAAG
Found at i:7141913 original size:58 final size:58
Alignment explanation
Indices: 7141823--7141938 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
7141813 TTGTTATACA
* **
7141823 AAGTGGAAGCCGCAATTAAACGAAACATTGAAGGTAATGGTGCTGGCCGCAACACATT
1 AAGTGGAAGCCGCAATTAAACGAAACATTGAAGCTAAAAGTGCTGGCCGCAACACATT
7141881 AAGTGGAAGCCGCAATTAAACGAAACATTGAAGCTAAAAGTGCTGGCCGCAACACATT
1 AAGTGGAAGCCGCAATTAAACGAAACATTGAAGCTAAAAGTGCTGGCCGCAACACATT
7141939 GATATAAGAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (58 bp):
AAGTGGAAGCCGCAATTAAACGAAACATTGAAGCTAAAAGTGCTGGCCGCAACACATT
Found at i:7141999 original size:10 final size:10
Alignment explanation
Indices: 7141963--7142002 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
7141953 TATATATGAG
7141963 AAAAATAAAAT
1 AAAAAT-AAAT
7141974 AAAAA-AAAT
1 AAAAATAAAT
7141983 AAAAAATAAAT
1 -AAAAATAAAT
7141994 AAAAATAAA
1 AAAAATAAA
7142003 GAAATTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 4 0.15
10 14 0.52
11 9 0.33
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:7146835 original size:41 final size:40
Alignment explanation
Indices: 7146774--7146855 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 40
7146764 TATTTTAGTA
*
7146774 TTTTAATTTTTTTTAAGGTTTATATTGATATTTAACCCTT
1 TTTTAATTTTCTTTAAGGTTTATATTGATATTTAACCCTT
*
7146814 TTTTAATTTTACTTTAAGGTTTATATTGATATTTAACGCTT
1 TTTTAATTTT-CTTTAAGGTTTATATTGATATTTAACCCTT
7146855 T
1 T
7146856 CTTTGTCCAG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 10 0.26
41 29 0.74
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.59
Consensus pattern (40 bp):
TTTTAATTTTCTTTAAGGTTTATATTGATATTTAACCCTT
Found at i:7147442 original size:21 final size:21
Alignment explanation
Indices: 7147418--7147465 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
7147408 CATTTTGTTT
*
7147418 ATTTTGTTTATTTGTAACTTG
1 ATTTTGTTCATTTGTAACTTG
* *
7147439 ATTTAGTTCCTTTGTAACTTG
1 ATTTTGTTCATTTGTAACTTG
7147460 ACTTTT
1 A-TTTT
7147466 AAAGTTAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.19, C:0.10, G:0.12, T:0.58
Consensus pattern (21 bp):
ATTTTGTTCATTTGTAACTTG
Found at i:7154615 original size:16 final size:16
Alignment explanation
Indices: 7154584--7154617 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7154574 TTTCATAAAC
**
7154584 ATAAATATTTTTTTAT
1 ATAAATATTTGCTTAT
7154600 ATAAATATTTGCTTAT
1 ATAAATATTTGCTTAT
7154616 AT
1 AT
7154618 TAACTTGTTT
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:0.03, G:0.03, T:0.56
Consensus pattern (16 bp):
ATAAATATTTGCTTAT
Found at i:7154648 original size:16 final size:16
Alignment explanation
Indices: 7154627--7154657 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7154617 TTAACTTGTT
7154627 TTATTTATATATATAA
1 TTATTTATATATATAA
*
7154643 TTATTTATATTTATA
1 TTATTTATATATATA
7154658 TTTGTTTGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTTATATATATAA
Found at i:7159597 original size:24 final size:24
Alignment explanation
Indices: 7159570--7159731 Score: 159
Period size: 24 Copynumber: 6.7 Consensus size: 24
7159560 TATCATTTCT
* *
7159570 GCTCTTTCGAGCT-ATGATCAGTAA
1 GCTCTTACGAGCTGATAAT-AGTAA
* * *
7159594 GCTCCTCCTGAGCTGATAGACAGTAA
1 GCTCTTAC-GAGCTGATA-ATAGTAA
* *
7159620 GCTC-TATTGAGCTGA-AATGGTAA
1 GCTCTTA-CGAGCTGATAATAGTAA
* *
7159643 GCTCTGACGAGCTGAAAATAGTAA
1 GCTCTTACGAGCTGATAATAGTAA
7159667 GCTCTTACGAGCTGATAATAGTAA
1 GCTCTTACGAGCTGATAATAGTAA
*
7159691 GCTCTTACGAGCCGATAATAGTAA
1 GCTCTTACGAGCTGATAATAGTAA
* *
7159715 ACTCTTATGAGCTGATA
1 GCTCTTACGAGCTGATA
7159732 TATTGGTAAG
Statistics
Matches: 115, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
23 16 0.14
24 74 0.64
25 13 0.11
26 11 0.10
27 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (24 bp):
GCTCTTACGAGCTGATAATAGTAA
Found at i:7167487 original size:3 final size:3
Alignment explanation
Indices: 7167475--7167586 Score: 217
Period size: 3 Copynumber: 37.7 Consensus size: 3
7167465 TAAATATAAA
7167475 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7167522 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7167570 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
7167587 CATATCAAAT
Statistics
Matches: 108, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 106 0.98
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:7168476 original size:9 final size:9
Alignment explanation
Indices: 7168462--7168534 Score: 83
Period size: 9 Copynumber: 7.8 Consensus size: 9
7168452 ATTCATTATG
7168462 AAATTATAA
1 AAATTATAA
7168471 AAATTATAA
1 AAATTATAA
*
7168480 AAATTACAAA
1 AAATTA-TAA
* *
7168490 GAAATCATTA
1 -AAATTATAA
7168500 AAATTATAA
1 AAATTATAA
7168509 AAATTATTAA
1 AAATTA-TAA
*
7168519 AATTTATAA
1 AAATTATAA
7168528 AAATTAT
1 AAATTAT
7168535 TAGAAATTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
9 37 0.70
10 11 0.21
11 5 0.09
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (9 bp):
AAATTATAA
Found at i:7168502 original size:20 final size:18
Alignment explanation
Indices: 7168462--7168544 Score: 67
Period size: 19 Copynumber: 4.4 Consensus size: 18
7168452 ATTCATTATG
* * *
7168462 AAATTATAAAAATTATAA
1 AAATTAAAAAAATCATTA
7168480 AAATTACAAAGAAATCATTA
1 AAATTA-AAA-AAATCATTA
* *
7168500 AAATTATAAAAATTATTA
1 AAATTAAAAAAATCATTA
* *
7168518 AAATTTATAAAAATTATTA
1 AAA-TTAAAAAAATCATTA
7168537 GAAATTAA
1 -AAATTAA
7168545 TATTTTTAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
18 17 0.31
19 22 0.40
20 16 0.29
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
AAATTAAAAAAATCATTA
Found at i:7168525 original size:10 final size:10
Alignment explanation
Indices: 7168462--7168543 Score: 75
Period size: 9 Copynumber: 8.6 Consensus size: 10
7168452 ATTCATTATG
7168462 AAATTA-TAA
1 AAATTATTAA
7168471 AAATTA-TAA
1 AAATTATTAA
**
7168480 AAATTACAAA
1 AAATTATTAA
*
7168490 GAAATCATT-A
1 -AAATTATTAA
7168500 AAATTA-TAA
1 AAATTATTAA
7168509 AAATTATTAA
1 AAATTATTAA
*
7168519 AATTTA-TAA
1 AAATTATTAA
*
7168528 AAATTATTAG
1 AAATTATTAA
7168538 AAATTA
1 AAATTA
7168544 ATATTTTTAG
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
8 1 0.02
9 35 0.58
10 19 0.32
11 5 0.08
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (10 bp):
AAATTATTAA
Found at i:7168542 original size:38 final size:39
Alignment explanation
Indices: 7168454--7168543 Score: 114
Period size: 38 Copynumber: 2.3 Consensus size: 39
7168444 TTGTGTAGAT
7168454 TCATTATGAAATTATAAAAATTATAAAAATTACAAAGAAA
1 TCATTA-GAAATTATAAAAATTATAAAAATTACAAAGAAA
* *
7168494 TCATTA-AAATTATAAAAATTATTAAAATTTA-TAA-AAA
1 TCATTAGAAATTATAAAAATTA-TAAAAATTACAAAGAAA
*
7168531 TTATTAGAAATTA
1 TCATTAGAAATTA
7168544 ATATTTTTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
37 8 0.18
38 23 0.51
39 8 0.18
40 6 0.13
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (39 bp):
TCATTAGAAATTATAAAAATTATAAAAATTACAAAGAAA
Found at i:7171467 original size:15 final size:15
Alignment explanation
Indices: 7171447--7171476 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7171437 TACCTAAGGG
7171447 AGGCTAGTGCTAGAT
1 AGGCTAGTGCTAGAT
7171462 AGGCTAGTGCTAGAT
1 AGGCTAGTGCTAGAT
7171477 CAATTTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (15 bp):
AGGCTAGTGCTAGAT
Found at i:7190513 original size:12 final size:11
Alignment explanation
Indices: 7190485--7190517 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
7190475 GGGACTTATT
7190485 TGTAAAATGT-
1 TGTAAAATGTG
7190495 TGTAAAATGTG
1 TGTAAAATGTG
7190506 TGGTAAAATGTG
1 T-GTAAAATGTG
7190518 AATAAATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 1 0.05
12 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.36
Consensus pattern (11 bp):
TGTAAAATGTG
Found at i:7199106 original size:60 final size:59
Alignment explanation
Indices: 7198986--7199122 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
7198976 CAATGTTAAC
* * *
7198986 TGGGTCTTAGCCTATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGTC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATAT
* *
7199047 TGGGTCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGTCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TATAT
* *
7199107 TGGGCCTTGCCCATAT
1 TGGGTCTAGCCCATAT
7199123 TAACATAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 4 0.06
60 51 0.77
61 11 0.17
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (59 bp):
TGGGTCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:7202433 original size:24 final size:23
Alignment explanation
Indices: 7202406--7202482 Score: 82
Period size: 23 Copynumber: 3.2 Consensus size: 23
7202396 TGACCCATAA
* *
7202406 CTCGTGAGAGCATACCGATCGCAG
1 CTCGTGAAAGCATACCGAT-ACAG
* * *
7202430 CTCGTGATAGCATACCAATATAG
1 CTCGTGAAAGCATACCGATACAG
7202453 CTCGTGAAAGCATACCGATTTACAG
1 CTCGTGAAAGCATACCGA--TACAG
7202478 CTCGT
1 CTCGT
7202483 ATGAGCATAC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 18 0.41
24 17 0.39
25 9 0.20
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (23 bp):
CTCGTGAAAGCATACCGATACAG
Found at i:7221662 original size:49 final size:48
Alignment explanation
Indices: 7221451--7221722 Score: 222
Period size: 49 Copynumber: 5.8 Consensus size: 48
7221441 TGATATGTGT
*
7221451 GCTAATGTAAGACATGTCTGGGACAT-GCATCGGCAC-AT-TATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCACGATATATGAGA
* * * *
7221496 GCTAGTGTAAGACATGTCTGCGACAT-GCATCGGCTTCGAGATAT-ACAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGC-ACGATATATGA-GA
* * * * * *
7221544 GCTAGTGTAAGACCTGTCTGGGACATGG--T-GTCA-GCT-TGTTGTGT
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCACGATAT-ATGAGA
* * * *
7221588 GTTAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCA-CGATATATGAGA
* * * *
7221637 GCTAGTGTAAGACCTGTCTGGGACATGACATCGGCCTCGATATATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGG-CACGATATATGAGA
* * *
7221686 GTTAATGTAAGACGATGTCTGGGACATGGCTTCGGCA
1 GCTAGTGTAAGAC-ATGTCTGGGACATGGCATCGGCA
7221723 TCTTATTCCA
Statistics
Matches: 178, Mismatches: 34, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 29 0.16
45 32 0.18
46 4 0.02
47 6 0.03
48 28 0.16
49 59 0.33
50 19 0.11
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCACGATATATGAGA
Found at i:7225549 original size:16 final size:16
Alignment explanation
Indices: 7225528--7225559 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7225518 TTGTTTATGG
7225528 TAATGCGGTGATGTTA
1 TAATGCGGTGATGTTA
7225544 TAATGCGGTGATGTTA
1 TAATGCGGTGATGTTA
7225560 GTATTTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.38
Consensus pattern (16 bp):
TAATGCGGTGATGTTA
Found at i:7228164 original size:46 final size:48
Alignment explanation
Indices: 7228097--7228209 Score: 160
Period size: 48 Copynumber: 2.4 Consensus size: 48
7228087 GTGCTAATGC
*
7228097 AAGACATGTCTGGGACATGCATCAGCCAC-A-TTATGA-AAGCTAGTGT
1 AAGACATGTCTGGGACATGCATCAGCCACAAGATAT-ACAAGCTAGTGT
* *
7228143 AAGACATGTCTGGGACATGCATCGGCCTCAAGATATACAAGCTAGTGT
1 AAGACATGTCTGGGACATGCATCAGCCACAAGATATACAAGCTAGTGT
*
7228191 AAGACCTGTCTGGGACATG
1 AAGACATGTCTGGGACATG
7228210 GCGTCAGCTT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
46 27 0.45
47 2 0.03
48 31 0.52
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (48 bp):
AAGACATGTCTGGGACATGCATCAGCCACAAGATATACAAGCTAGTGT
Found at i:7232270 original size:46 final size:46
Alignment explanation
Indices: 7232220--7232395 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
7232210 TGGTTGAGCA
*
7232220 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
7232266 TCCGAACTCGTGGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
7232311 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
7232359 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
7232396 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Done.