Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 174 of 373
Found at i:58237351 original size:55 final size:54
Alignment explanation
Indices: 58237253--58237404 Score: 171
Period size: 55 Copynumber: 2.8 Consensus size: 54
58237243 TTAAATTGTA
** *
58237253 CAGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATG
1 CAGCACTAAGTGTGCGAGTTGAATATGTA-GCACTAAGTGTGCGAATTGACCACG
* * * **
58237307 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG
1 CAGCACTAAGTGTGCGAG-TTGAATATGTAGCACTAAGTGTGCGAATTGACCACG
* * * *
58237362 TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
58237405 GACTCAATAT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 38 0.46
55 44 0.53
56 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (54 bp):
CAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGACCACG
Found at i:58237395 original size:82 final size:82
Alignment explanation
Indices: 58237254--58237404 Score: 187
Period size: 82 Copynumber: 1.8 Consensus size: 82
58237244 TAAATTGTAC
* * *
58237254 AGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
1 AGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
58237319 TGCGAGTTTGACTATGT
66 TGCGAGTTTGACTATGT
** * * ** * *
58237336 AGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTGTGCGAATTGACCATACAGCACTAAGT
58237400 GTGCG
65 GTGCG
58237405 GACTCAATAT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
81 1 0.02
82 56 0.98
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
TGCGAGTTTGACTATGT
Found at i:58239678 original size:13 final size:13
Alignment explanation
Indices: 58239660--58239687 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58239650 GTCCTTTTAC
58239660 AATGAAATCAACA
1 AATGAAATCAACA
58239673 AATGAAATCAACA
1 AATGAAATCAACA
58239686 AA
1 AA
58239688 CTATTTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.14, G:0.07, T:0.14
Consensus pattern (13 bp):
AATGAAATCAACA
Found at i:58240531 original size:20 final size:21
Alignment explanation
Indices: 58240482--58240533 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
58240472 AAATGAGCTG
* *
58240482 AAACGAGCTAAATTCGAGCTC
1 AAACGAGCTGAATTCGAACTC
*
58240503 AAACAAGCTGAA-TCGAACTC
1 AAACGAGCTGAATTCGAACTC
*
58240523 AAGCGAGCTGA
1 AAACGAGCTGA
58240534 TGGAAACTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.15
Consensus pattern (21 bp):
AAACGAGCTGAATTCGAACTC
Found at i:58246081 original size:10 final size:10
Alignment explanation
Indices: 58246066--58246127 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
58246056 TTTGAACCAT
*
58246066 TACCAATTCG
1 TACCAATTCA
*
58246076 TACCAAATACCA
1 TACC-AAT-TCA
*
58246088 TACCATTTCA
1 TACCAATTCA
58246098 TACCAATTCCA
1 TACCAATT-CA
* *
58246109 TACCATTTCG
1 TACCAATTCA
58246119 TACCAATTC
1 TACCAATTC
58246128 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:58246111 original size:21 final size:21
Alignment explanation
Indices: 58246066--58246128 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
58246056 TTTGAACCAT
* *
58246066 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
58246088 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
58246109 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
58246129 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:58253658 original size:63 final size:63
Alignment explanation
Indices: 58253557--58253682 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
58253547 AAAGCCTATA
*
58253557 AGCAATTGGGTCAATACTCTCTAGTATTGGTTCATGCTTGCTTTTGAGTTCCTTCTTTCCATT
1 AGCAATTAGGTCAATACTCTCTAGTATTGGTTCATGCTTGCTTTTGAGTTCCTTCTTTCCATT
*
58253620 AGCAATTAGGTCAATACTCTCTAGTATTGGTTCGTGCTTGCTTTTGAGTTCCTTCTTTCCATT
1 AGCAATTAGGTCAATACTCTCTAGTATTGGTTCATGCTTGCTTTTGAGTTCCTTCTTTCCATT
58253683 CTTTCATTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.44
Consensus pattern (63 bp):
AGCAATTAGGTCAATACTCTCTAGTATTGGTTCATGCTTGCTTTTGAGTTCCTTCTTTCCATT
Found at i:58254102 original size:56 final size:56
Alignment explanation
Indices: 58254030--58254207 Score: 293
Period size: 56 Copynumber: 3.2 Consensus size: 56
58254020 TACATGTAAT
*
58254030 CACATTTATCAGAATCACATATTGATGCCAACGTATTAAATGTGGTCTTACTCGCA
1 CACATATATCAGAATCACATATTGATGCCAACGTATTAAATGTGGTCTTACTCGCA
* * * *
58254086 CACATATATCAGAATCACATATCGATGCCAACATAGTAAACGTGGTCTTACTCGCA
1 CACATATATCAGAATCACATATTGATGCCAACGTATTAAATGTGGTCTTACTCGCA
* *
58254142 CACATATATCAAAATCACATATTGATGCCAACGTATTAAATGTGGTCTTGCTCGCA
1 CACATATATCAGAATCACATATTGATGCCAACGTATTAAATGTGGTCTTACTCGCA
58254198 CACATATATC
1 CACATATATC
58254208 GGTGCCATGG
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 111 1.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.29
Consensus pattern (56 bp):
CACATATATCAGAATCACATATTGATGCCAACGTATTAAATGTGGTCTTACTCGCA
Found at i:58259438 original size:40 final size:40
Alignment explanation
Indices: 58259388--58259474 Score: 129
Period size: 40 Copynumber: 2.1 Consensus size: 40
58259378 TGAACTTTAA
58259388 TTTATTTAAACTCATCTTAGTTAATAATTGAGTTGCTAGAC
1 TTTA-TTAAACTCATCTTAGTTAATAATTGAGTTGCTAGAC
* * * *
58259429 TTTATTAAACTCATCTTAGTTAATTATTGATTTGTTGGAC
1 TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTAGAC
58259469 TTTATT
1 TTTATT
58259475 TTTATTAAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 38 0.90
41 4 0.10
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.49
Consensus pattern (40 bp):
TTTATTAAACTCATCTTAGTTAATAATTGAGTTGCTAGAC
Found at i:58259662 original size:11 final size:11
Alignment explanation
Indices: 58259637--58259673 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
58259627 GCTTATTAAG
58259637 TTTAATGTG--
1 TTTAATGTGTT
58259646 TTTAATGTGTT
1 TTTAATGTGTT
58259657 TTTAATGTGTT
1 TTTAATGTGTT
58259668 TCTTAA
1 T-TTAA
58259674 AATGCTTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.36
11 12 0.48
12 4 0.16
ACGTcount: A:0.22, C:0.03, G:0.16, T:0.59
Consensus pattern (11 bp):
TTTAATGTGTT
Found at i:58267549 original size:10 final size:10
Alignment explanation
Indices: 58267534--58267563 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
58267524 ATTCGGAATT
58267534 AAAAAAAAGA
1 AAAAAAAAGA
58267544 AAAAAAAAGA
1 AAAAAAAAGA
58267554 AAAAAAAAGA
1 AAAAAAAAGA
58267564 GAAGTGATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:58269619 original size:15 final size:14
Alignment explanation
Indices: 58269583--58269637 Score: 65
Period size: 15 Copynumber: 3.8 Consensus size: 14
58269573 TCTATTGATC
58269583 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
58269597 GAGAAAAACAAAAA
1 GAGAAAAAGAAAAA
*
58269611 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
58269626 GAAAGAAAAGAA
1 GAGA-AAAAGAA
58269638 TGAGGAGAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 16 0.47
15 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:58279582 original size:23 final size:22
Alignment explanation
Indices: 58279531--58279582 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
58279521 CCTCGTCTTT
*
58279531 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
58279553 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
58279576 TTCTTTT
1 TTCTTTT
58279583 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:58284659 original size:46 final size:46
Alignment explanation
Indices: 58284609--58284784 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
58284599 TGATTGAGCA
*
58284609 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
58284655 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
58284700 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-C
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
58284747 ACCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58284785 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 28 0.26
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:58284765 original size:93 final size:93
Alignment explanation
Indices: 58284606--58284777 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
58284596 GGATGATTGA
**
58284606 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAGT
58284671 TGAGTCCAAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* *
58284699 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CACCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACC-GAACTCGTTGAG
*
58284763 TTGAGTCCGAGTTCG
65 TTGAGTCCAAGTTCG
58284778 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:58290853 original size:55 final size:53
Alignment explanation
Indices: 58290766--58290966 Score: 215
Period size: 55 Copynumber: 3.7 Consensus size: 53
58290756 ATTAGGGTTT
* * *
58290766 AAGGACACCATGTAAGACCATGCCAAGGCATGGGAATTGGTAAGGTTTGTAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACAT-GGAATTGGTAA-GTTTATAAGGA
* * *
58290821 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TATAAGG-A
* * * * * *
58290877 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTATAAGGA
* *
58290929 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATT
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATT
58290967 CAATTCTATC
Statistics
Matches: 123, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
52 4 0.03
53 33 0.27
54 12 0.10
55 69 0.56
56 5 0.04
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTATAAGGA
Found at i:58293763 original size:7 final size:7
Alignment explanation
Indices: 58293751--58293787 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
58293741 ATTCAAATGA
58293751 TCAAAAG
1 TCAAAAG
58293758 TCAAAAG
1 TCAAAAG
58293765 TCAAAAG
1 TCAAAAG
58293772 TCAAAAG
1 TCAAAAG
58293779 TCAAAAG
1 TCAAAAG
58293786 TC
1 TC
58293788 CTTTACAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.54, C:0.16, G:0.14, T:0.16
Consensus pattern (7 bp):
TCAAAAG
Found at i:58295862 original size:34 final size:33
Alignment explanation
Indices: 58295792--58295869 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 33
58295782 GCATTTCTAT
*
58295792 TACTGTACTGTAATGGGCTAAGGCCCACACTGA
1 TACTGTACTGTAATGGGCTAAGGCCCACACTAA
*
58295825 TACTGCTACTGTAATGGGCTACGGCCCTA-ACTAA
1 TACTG-TACTGTAATGGGCTAAGGCCC-ACACTAA
*
58295859 TACTGGACTGT
1 TACTGTACTGT
58295870 CACGAAACTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
33 10 0.25
34 29 0.73
35 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (33 bp):
TACTGTACTGTAATGGGCTAAGGCCCACACTAA
Found at i:58305517 original size:43 final size:43
Alignment explanation
Indices: 58305449--58305617 Score: 175
Period size: 43 Copynumber: 4.0 Consensus size: 43
58305439 AAAGCTCGTA
* * * ** *
58305449 CAATGCC-ATATCCCAGATATAGTCTTACATGTTATCACATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAT
* * * *
58305491 CAATGCCACTGTCCCAGACAGGGTCTTATACGA-AATCATATAAT
1 CAATGCCAATGTCCCAGACATGGTCTTACAC-ATAATCACAT-AT
*
58305535 -GATGCCAATGTCCCAGACATGGTCTTACACATAATCACA-AT
1 CAATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAT
*
58305576 ACAATGCCAATGTCCCAGACATGGTCTTACATATAATCACAT
1 -CAATGCCAATGTCCCAGACATGGTCTTACACATAATCACAT
58305618 CTCGGTAACC
Statistics
Matches: 103, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 8 0.08
43 91 0.88
44 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.27
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAT
Found at i:58313914 original size:23 final size:22
Alignment explanation
Indices: 58313862--58313914 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
58313852 TCCACGTCTT
*
58313862 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
58313884 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
58313907 TTTCTTTT
1 TTTCTTTT
58313915 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:58321269 original size:40 final size:40
Alignment explanation
Indices: 58321211--58321428 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
58321201 AAGCCAAGTA
* * * * *
58321211 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * * *
58321250 CCTTCAGGACATAGCCCGGATATAGTAACTCACACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58321290 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
58321330 CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
58321370 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
58321410 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58321429 TTATCATCCA
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 12 0.08
40 147 0.92
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58324128 original size:40 final size:40
Alignment explanation
Indices: 58324044--58324228 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
58324034 TCGAATGATG
* *
58324044 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
58324083 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
58324124 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
58324163 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
58324202 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
58324229 AACTAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:58324180 original size:79 final size:81
Alignment explanation
Indices: 58324044--58324226 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
58324034 TCGAATGATG
* *
58324044 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
58324108 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
58324123 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
58324185 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
58324203 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
58324227 TGAACTAGTA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:58324250 original size:79 final size:78
Alignment explanation
Indices: 58324045--58324261 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 78
58324035 CGAATGATGT
*
58324045 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
58324108 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* * *
58324125 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
58324188 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
58324204 CCGGGCTATGTCCCGAAGGCATTTGAACTAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAGCTATATCCGGTT-AAGTCCGAAGG
58324262 TACGTGATTC
Statistics
Matches: 116, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.59
80 45 0.39
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:58331298 original size:10 final size:10
Alignment explanation
Indices: 58331285--58331330 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
58331275 CGCTCACTTG
58331285 AGCTCGTTTT
1 AGCTCGTTTT
*
58331295 AGCTCGTTTG
1 AGCTCGTTTT
*
58331305 AGCTCGAATTT
1 AGCTCG-TTTT
*
58331316 AGCTCGTTTC
1 AGCTCGTTTT
58331326 AGCTC
1 AGCTC
58331331 ATTCCTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.15, C:0.24, G:0.22, T:0.39
Consensus pattern (10 bp):
AGCTCGTTTT
Found at i:58331318 original size:21 final size:20
Alignment explanation
Indices: 58331282--58331330 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
58331272 ATCCGCTCAC
*
58331282 TTGAGCTCGTTTTAGCTCGT
1 TTGAGCTCGATTTAGCTCGT
58331302 TTGAGCTCGAATTTAGCTCGT
1 TTGAGCTCG-ATTTAGCTCGT
*
58331323 TTCAGCTC
1 TTGAGCTC
58331331 ATTCCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.41
Consensus pattern (20 bp):
TTGAGCTCGATTTAGCTCGT
Found at i:58331573 original size:13 final size:13
Alignment explanation
Indices: 58331555--58331579 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58331545 AATAGTTGTG
58331555 TGTTATTTAATTA
1 TGTTATTTAATTA
58331568 TGTTATTTAATT
1 TGTTATTTAATT
58331580 TTGTAGGTTA
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:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:58332941 original size:46 final size:46
Alignment explanation
Indices: 58332764--58332970 Score: 171
Period size: 46 Copynumber: 4.5 Consensus size: 46
58332754 ATTGTGAGCT
* ** *
58332764 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACAT-A-AGTC
* *
58332810 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGAC--GAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGACATAAGT-C
*
58332857 TAGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACATAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATC-GGCTACGAGACATAAGTC
* **
58332904 AGTGTAAGACATGTCTGAGACATGCATCGGCTACGAG--ATGTGTTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACATAAG-TC
58332949 -GTGTAAGACCATGTCTGGGACA
1 AGTGTAAGA-CATGTCTGGGACA
58332971 CGGCATTGGC
Statistics
Matches: 134, Mismatches: 13, Indels: 29
0.76 0.07 0.16
Matches are distributed among these distances:
44 11 0.08
45 17 0.13
46 52 0.39
47 33 0.25
48 20 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACATAAGTC
Found at i:58335191 original size:29 final size:29
Alignment explanation
Indices: 58335158--58335216 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
58335148 CTACGATTAA
*
58335158 TTTTCAACCTTTAAACTATGTTAAACTAC
1 TTTTCAACCTTTAAACTATGCTAAACTAC
58335187 TTTTCAACCTTTAAACTATGCTAAACTAC
1 TTTTCAACCTTTAAACTATGCTAAACTAC
58335216 T
1 T
58335217 CAATTCATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.41
Consensus pattern (29 bp):
TTTTCAACCTTTAAACTATGCTAAACTAC
Found at i:58353589 original size:35 final size:35
Alignment explanation
Indices: 58353550--58353622 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
58353540 ACACATTCTT
58353550 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAGATCAATCTCACATAAATAATATA
58353585 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAGATCAATCTCACATAAATAATATA
58353620 TAT
1 TAT
58353623 ATCACATACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (35 bp):
TATTCTCGTCAGATCAATCTCACATAAATAATATA
Found at i:58358045 original size:40 final size:40
Alignment explanation
Indices: 58357995--58358070 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
58357985 TATACATAAA
58357995 TAGCCGAAGCTATCTCCAATCGCACACCAAGTGCCACATT
1 TAGCCGAAGCTATCTCCAATCGCACACCAAGTGCCACATT
* * * * *
58358035 TAGCTGAAGCTATTTCGAATTGCACACTAAGTGCCA
1 TAGCCGAAGCTATCTCCAATCGCACACCAAGTGCCA
58358071 TTTTTTTTAG
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:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCCAATCGCACACCAAGTGCCACATT
Found at i:58361741 original size:84 final size:84
Alignment explanation
Indices: 58361613--58361766 Score: 200
Period size: 84 Copynumber: 1.8 Consensus size: 84
58361603 GTCCAACTAT
* * * * * * * *
58361613 GGTCTTACACAAAGTCTCACATCGATGCCATGTCCCAGACATGGTCTTATATGAAATCACATATC
1 GGTCTTACACAAAATCTCACACCAAAGCCATATCCAAGACATGGTCTTACATGAAATCACATATA
58361678 GATGCCGCATCCCAGACAC
66 GATGCCGCATCCCAGACAC
* * * *
58361697 GGTCTTACACAAAATCTCATACCAAAGCCATATCCAAGATATGGTCTTACATGTAATCTCATATA
1 GGTCTTACACAAAATCTCACACCAAAGCCATATCCAAGACATGGTCTTACATGAAATCACATATA
58361762 GATGC
66 GATGC
58361767 TGATGTCATA
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 58 1.00
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (84 bp):
GGTCTTACACAAAATCTCACACCAAAGCCATATCCAAGACATGGTCTTACATGAAATCACATATA
GATGCCGCATCCCAGACAC
Found at i:58361804 original size:48 final size:48
Alignment explanation
Indices: 58361725--58361910 Score: 259
Period size: 48 Copynumber: 3.9 Consensus size: 48
58361715 ATACCAAAGC
* **
58361725 CATATCCAAGATATGGTCTTACATGTA-ATCTCATATAGATGCTGATGT
1 CATATCCCAGATATGGTCTTACA-CAAGATCTCATATAGATGCTGATGT
58361773 CATATCCCAGATATGGTCTTACACAAGATCTCATATCA-ATGCTGATGT
1 CATATCCCAGATATGGTCTTACACAAGATCTCATAT-AGATGCTGATGT
* * *
58361821 CATATCCCAGATATGGTTTTACACAAGATCTCATATCGATGCTGATGC
1 CATATCCCAGATATGGTCTTACACAAGATCTCATATAGATGCTGATGT
* * *
58361869 CATATGCCAGATATGGTCTTACACAGGATCTCATATCGATGC
1 CATATCCCAGATATGGTCTTACACAAGATCTCATATAGATGC
58361911 CATGTACCAG
Statistics
Matches: 126, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
47 1 0.01
48 124 0.98
49 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (48 bp):
CATATCCCAGATATGGTCTTACACAAGATCTCATATAGATGCTGATGT
Found at i:58361934 original size:42 final size:42
Alignment explanation
Indices: 58361594--58361935 Score: 177
Period size: 48 Copynumber: 7.7 Consensus size: 42
58361584 TCGTTTACTT
* *
58361594 GATGCCATAGT-CCA-ACTATGGTCTTACACAAAGTCTCACATC
1 GATGCCAT-GTACCAGAC-ATGGTCTTACACAAAATCTCATATC
* * ** *
58361636 GATGCCATGTCCCAGACATGGTCTTATATGAAATCACATATC
1 GATGCCATGTACCAGACATGGTCTTACACAAAATCTCATATC
*** * * *
58361678 GATGCCGCATCCCAGACACGGTCTTACACAAAATCTCATACC
1 GATGCCATGTACCAGACATGGTCTTACACAAAATCTCATATC
* * * * *** *
58361720 AAAGCCATAT-CCAAGATATGGTCTTACATGTAATCTCATATA
1 GATGCCATGTACC-AGACATGGTCTTACACAAAATCTCATATC
* * *
58361762 GATGCTGATGTCATATCCCAGATATGGTCTTACACAAGATCTCATATC
1 GATGC-CATG---TA--CCAGACATGGTCTTACACAAAATCTCATATC
* * * * *
58361810 AATGCTGATGTCATATCCCAGATATGGTTTTACACAAGATCTCATATC
1 GATGC-CATG---TA--CCAGACATGGTCTTACACAAAATCTCATATC
* * **
58361858 GATGCTGATGCCATATGCCAGATATGGTCTTACACAGGATCTCATATC
1 GATGC-CATG---TA--CCAGACATGGTCTTACACAAAATCTCATATC
58361906 GATGCCATGTACCAGACATGGTCTTACACA
1 GATGCCATGTACCAGACATGGTCTTACACA
58361936 TATCACAATG
Statistics
Matches: 246, Mismatches: 44, Indels: 20
0.79 0.14 0.06
Matches are distributed among these distances:
41 4 0.02
42 112 0.46
43 4 0.02
44 2 0.01
46 1 0.00
47 3 0.01
48 118 0.48
49 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (42 bp):
GATGCCATGTACCAGACATGGTCTTACACAAAATCTCATATC
Found at i:58361990 original size:37 final size:37
Alignment explanation
Indices: 58361923--58362045 Score: 151
Period size: 37 Copynumber: 3.4 Consensus size: 37
58361913 TGTACCAGAC
* * *
58361923 ATGGTCTTACAC-ATATCACAATGCCATAGCCTAGCT
1 ATGGTCTTACACGCTATCACGATGCCATAGCCCAGCT
* * *
58361959 ATGGTCTTACATG-TCATCATGATGCCATAGCCCAACT
1 ATGGTCTTACACGCT-ATCACGATGCCATAGCCCAGCT
* *
58361996 ATGGTCTTACACGCTATTACGATGCCATAGCCGAGCT
1 ATGGTCTTACACGCTATCACGATGCCATAGCCCAGCT
58362033 ATGGTCTTACACG
1 ATGGTCTTACACG
58362046 TGCCACATGT
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
36 12 0.16
37 61 0.82
38 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (37 bp):
ATGGTCTTACACGCTATCACGATGCCATAGCCCAGCT
Found at i:58365867 original size:29 final size:29
Alignment explanation
Indices: 58365834--58365893 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
58365824 ATAACCAAAC
* *
58365834 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
58365863 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
58365892 CT
1 CT
58365894 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:58365886 original size:15 final size:15
Alignment explanation
Indices: 58365840--58365887 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
58365830 AAACCTACAA
*
58365840 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
58365855 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
58365869 AAACTTCATATCCAT
1 AAACTTCATATCCAT
58365884 AAAC
1 AAAC
58365888 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:58367230 original size:30 final size:28
Alignment explanation
Indices: 58367194--58367249 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
58367184 AAGCGAAAAA
* *
58367194 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT
1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT
58367224 GAAAAAGAGAGTGAGCAAAAAGAAAG
1 GAAAAAGAGAGTGAGCAAAAAGAAAG
58367250 CGTGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12
Consensus pattern (28 bp):
GAAAAAGAGAGTGAGCAAAAAGAAAGTT
Found at i:58368359 original size:42 final size:42
Alignment explanation
Indices: 58368300--58368384 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
58368290 GTATTTCTCC
58368300 TACATTTCAGGTTAGTTCAAGTAAAGAGCAACGACTTTACTA
1 TACATTTCAGGTTAGTTCAAGTAAAGAGCAACGACTTTACTA
*
58368342 TACATTTCAGGTTAGTTCAAGTAAAGAGCAATGACTTTACTA
1 TACATTTCAGGTTAGTTCAAGTAAAGAGCAACGACTTTACTA
58368384 T
1 T
58368385 CTTTCCGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (42 bp):
TACATTTCAGGTTAGTTCAAGTAAAGAGCAACGACTTTACTA
Found at i:58370559 original size:29 final size:29
Alignment explanation
Indices: 58370526--58370585 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
58370516 ATAACCAAAC
* *
58370526 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
58370555 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
58370584 CT
1 CT
58370586 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:58370578 original size:15 final size:15
Alignment explanation
Indices: 58370532--58370579 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
58370522 AAACCTACAA
*
58370532 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
58370547 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
58370561 AAACTTCATATCCAT
1 AAACTTCATATCCAT
58370576 AAAC
1 AAAC
58370580 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:58373905 original size:42 final size:43
Alignment explanation
Indices: 58373847--58373950 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
58373837 TCAGAACTTG
* * * *
58373847 TTGAGTGGTCCAAGTTCGTGATATATAAG-GCATCTGAGCTCA
1 TTGAGTGGTCCGAGTTCATGATAGATAAGAGCATCCGAGCTCA
* * ** *
58373889 TTGAGTGGTCCGAGTTCATTATGGATGCGAGCATCCGAGCTCG
1 TTGAGTGGTCCGAGTTCATGATAGATAAGAGCATCCGAGCTCA
58373932 TTGAGTGGTCCGAGTTCAT
1 TTGAGTGGTCCGAGTTCAT
58373951 TATGGATGTG
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
42 22 0.42
43 30 0.58
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (43 bp):
TTGAGTGGTCCGAGTTCATGATAGATAAGAGCATCCGAGCTCA
Found at i:58373936 original size:43 final size:43
Alignment explanation
Indices: 58373876--58373958 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
58373866 GATATATAAG
*
58373876 GCATCTGAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGA
*
58373919 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATTATGGATG
1 GCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGGATG
58373959 TGTTACATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.30
Consensus pattern (43 bp):
GCATCCGAGCTCATTGAGTGGTCCGAGTTCATTATGGATGCGA
Found at i:58375879 original size:23 final size:23
Alignment explanation
Indices: 58375853--58375899 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
58375843 AACTGTGATA
* *
58375853 GTGTGATGTCTCCCGACGTGAAC
1 GTGTGATGTCCCCCGACGCGAAC
58375876 GTGTGATGTCCCCCGACGCGAAC
1 GTGTGATGTCCCCCGACGCGAAC
58375899 G
1 G
58375900 AGAACCATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.30, G:0.32, T:0.21
Consensus pattern (23 bp):
GTGTGATGTCCCCCGACGCGAAC
Found at i:58377339 original size:15 final size:14
Alignment explanation
Indices: 58377319--58377389 Score: 97
Period size: 15 Copynumber: 4.8 Consensus size: 14
58377309 GTATTGTATA
58377319 TTGGATTTCTATATC
1 TTGGATTTCT-TATC
58377334 TTGGATTTCTGTATC
1 TTGGATTTCT-TATC
58377349 TTGGATTTCTTCATC
1 TTGGATTTCTT-ATC
*
58377364 TTGGATTTTTCTATC
1 TTGGATTTCT-TATC
58377379 TTGGATTTCTT
1 TTGGATTTCTT
58377390 TATTTTAGTC
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
14 2 0.04
15 48 0.94
16 1 0.02
ACGTcount: A:0.14, C:0.14, G:0.15, T:0.56
Consensus pattern (14 bp):
TTGGATTTCTTATC
Found at i:58377353 original size:30 final size:30
Alignment explanation
Indices: 58377313--58377389 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
58377303 GGTACGGTAT
*
58377313 TGTATATTGGATTTCTAT-ATCTTGGATTTC
1 TGTATCTTGGATTTCT-TCATCTTGGATTTC
*
58377343 TGTATCTTGGATTTCTTCATCTTGGATTTT
1 TGTATCTTGGATTTCTTCATCTTGGATTTC
*
58377373 TCTATCTTGGATTTCTT
1 TGTATCTTGGATTTCTT
58377390 TATTTTAGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 1 0.02
30 42 0.98
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.56
Consensus pattern (30 bp):
TGTATCTTGGATTTCTTCATCTTGGATTTC
Found at i:58380542 original size:42 final size:43
Alignment explanation
Indices: 58380439--58380543 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
58380429 ATCCGAGCTC
* *
58380439 GTTGAGCGGTCCGAGTTCATGATATATGTGAGAATCCAAACTT
1 GTTGAGTGGTCCGAGTTCATGATATATGAGAGAATCCAAACTT
* * **
58380482 GTTGAGTGGTCCAAGTTCATGATATATGAG-GCATCTGAACTCT
1 GTTGAGTGGTCCGAGTTCATGATATATGAGAGAATCCAAACT-T
*
58380525 -TTGAGTGGTTCGAGTTCAT
1 GTTGAGTGGTCCGAGTTCAT
58380544 AATGGATGCG
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 25 0.47
43 28 0.53
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (43 bp):
GTTGAGTGGTCCGAGTTCATGATATATGAGAGAATCCAAACTT
Found at i:58380591 original size:51 final size:51
Alignment explanation
Indices: 58380513--58380612 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
58380503 ATATATGAGG
* *
58380513 CATCTGAACTCTTTGAGTGGTTCGAGTTCATAATGGATGCGATACATGTAA
1 CATCTGAACTCGTTGAGAGGTTCGAGTTCATAATGGATGCGATACATGTAA
* * * *
58380564 CATCTGAGCTCGTTGAGAGG-TCTGAGTTCATTATGGATGTGTTACATGT
1 CATCTGAACTCGTTGAGAGGTTC-GAGTTCATAATGGATGCGATACATGT
58380613 TATAAGGTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.05
51 40 0.95
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (51 bp):
CATCTGAACTCGTTGAGAGGTTCGAGTTCATAATGGATGCGATACATGTAA
Found at i:58382892 original size:53 final size:53
Alignment explanation
Indices: 58382710--58382964 Score: 225
Period size: 55 Copynumber: 4.8 Consensus size: 53
58382700 ATTAGGGTTT
* * * *
58382710 AAGGATACCATGTAAGACTATGCTAAGGCATGGCAATTGGTAAGGTTTC-TAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCATAAGGA
* * * * *
58382765 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGG-A
* * * *
58382821 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGA
* * *
58382873 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCA--A
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGA
* * * * *
58382922 AAGGATACCAAGTACGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
58382965 GTACCCGTGT
Statistics
Matches: 166, Mismatches: 29, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
49 39 0.23
51 2 0.01
52 6 0.04
53 43 0.26
54 8 0.05
55 64 0.39
56 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGA
Found at i:58382916 original size:108 final size:110
Alignment explanation
Indices: 58382717--58382917 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
58382707 TTTAAGGATA
* * * *
58382717 CCATGTAAGACTATGCTAAGGCATGGCAATTGGTAAGGTTTCTAAGGTAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
58382782 CCATGTCAAGACATGACATTGATAAGTTACTATAAGGAAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTACTATAAGGAAAAGGTC
* *
58382827 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* *
58382889 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGACAATGATAAGTT
58382918 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 7 0.09
110 25 0.31
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTACTATAAGGAAAAGGTC
Found at i:58385842 original size:30 final size:30
Alignment explanation
Indices: 58385747--58385843 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
58385737 AGCTCACTCC
* * *
58385747 TAGCTC-ACTTTCAACTCATGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * **
58385777 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
58385807 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
58385837 TAGCTCA
1 TAGCTCA
58385844 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.82
31 7 0.14
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:58391528 original size:49 final size:47
Alignment explanation
Indices: 58391432--58391742 Score: 541
Period size: 49 Copynumber: 6.5 Consensus size: 47
58391422 TTAGGATTTT
58391432 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
58391479 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCA
58391528 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
**
58391575 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGTTCA
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
58391622 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCA
*
58391671 ATGTGATGAATGTGAAAGTGTATGTATATGTGACAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCA
58391720 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
58391743 AACTGTGATA
Statistics
Matches: 255, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
47 116 0.45
49 139 0.55
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCA
Found at i:58391593 original size:143 final size:144
Alignment explanation
Indices: 58391432--58391742 Score: 579
Period size: 143 Copynumber: 2.2 Consensus size: 144
58391422 TTAGGATTTT
58391432 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
*
58391497 TGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG-TATGTGATA
66 TGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGATATGTGACA
58391561 AGGCCGAATGGCCA
131 AGGCCGAATGGCCA
**
58391575 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGTTCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
58391640 TGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTGAC
66 TGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATG-ATATGTGAC
58391705 AAGGCCGAATGGCCA
130 AAGGCCGAATGGCCA
58391720 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
58391743 AACTGTGATA
Statistics
Matches: 163, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
143 118 0.72
145 45 0.28
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (144 bp):
ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
TGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGATATGTGACA
AGGCCGAATGGCCA
Found at i:58391654 original size:27 final size:27
Alignment explanation
Indices: 58391622--58391703 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
58391612 CGAATGTTCA
58391622 ATGTGATGAATGTGAAAGTGTATGTAT
1 ATGTGATGAATGTGAAAGTGTATGTAT
* * *
58391649 ATGTGAT-AAGGCCG-AA-TG---GCCA-
1 ATGTGATGAATG-TGAAAGTGTATG-TAT
58391671 ATGTGATGAATGTGAAAGTGTATGTAT
1 ATGTGATGAATGTGAAAGTGTATGTAT
58391698 ATGTGA
1 ATGTGA
58391704 CAAGGCCGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 2 0.05
25 2 0.05
26 6 0.15
27 15 0.38
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.32
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTATGTAT
Found at i:58391750 original size:96 final size:96
Alignment explanation
Indices: 58391432--58391754 Score: 553
Period size: 96 Copynumber: 3.4 Consensus size: 96
58391422 TTAGGATTTT
*
58391432 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATGAATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
58391497 TGTATGTATATGTGATAAGGCCGAATGGCCA
66 TGTATGTATATGTGATAAGGCCGAATGGCCA
*
58391528 ATGTGATGAATGTGAAAGTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATGAATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
**
58391593 TGTATG--TATGTGATAAGGCCGAATGTTCA
66 TGTATGTATATGTGATAAGGCCGAATGGCCA
58391622 ATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATG-A-ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
*
58391687 AGTGTATGTATATGTGACAAGGCCGAATGGCCA
64 AGTGTATGTATATGTGATAAGGCCGAATGGCCA
58391720 ATGTGATGAATGTGAAAGTGTAT-AACTGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATGAA-TGTGATAAG
58391755 TCCCGAAGAA
Statistics
Matches: 216, Mismatches: 6, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
94 45 0.21
95 1 0.00
96 127 0.59
98 43 0.20
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (96 bp):
ATGTGATGAATGTGAAAGTGTATGAATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
TGTATGTATATGTGATAAGGCCGAATGGCCA
Found at i:58395960 original size:55 final size:54
Alignment explanation
Indices: 58395873--58396127 Score: 262
Period size: 55 Copynumber: 4.8 Consensus size: 54
58395863 ATTAGAGTTT
*
58395873 AAGGATACCATGTAAGACCATG-CTAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
58395928 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTT--TCTAAGG-C
* * * *
58395984 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
58396036 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
58396085 AAGGATACCAAGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAG
58396128 GTACCCGCGT
Statistics
Matches: 170, Mismatches: 22, Indels: 22
0.79 0.10 0.10
Matches are distributed among these distances:
49 40 0.24
52 7 0.04
53 40 0.24
54 12 0.07
55 66 0.39
56 5 0.03
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:58396079 original size:108 final size:110
Alignment explanation
Indices: 58395880--58396080 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
58395870 TTTAAGGATA
* *
58395880 CCATGTAAGACCATGCTAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
58395945 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAGGTC
* *
58395990 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
58396052 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
58396081 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGAAAAGGTC
Found at i:58396339 original size:16 final size:16
Alignment explanation
Indices: 58396318--58396348 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58396308 ATAAATTTGA
58396318 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
58396334 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
58396349 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:58401019 original size:28 final size:28
Alignment explanation
Indices: 58400979--58401049 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
58400969 CTCGATAAAG
58400979 TCGCACACTTAGTGCT-TA-ATAGTCAAAC
1 TCGCACACTTAGTGCTATACA-A-TCAAAC
*
58401007 TCGCACACTTAGTGCTATACAATTAAAC
1 TCGCACACTTAGTGCTATACAATCAAAC
58401035 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
58401050 CAATCTCATT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 36 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATACAATCAAAC
Found at i:58408732 original size:28 final size:28
Alignment explanation
Indices: 58408692--58408762 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
58408682 CTCGATAAAG
58408692 TCGCACACTTAGTGCT-TA-ATAGTCAAAC
1 TCGCACACTTAGTGCTATACA-A-TCAAAC
*
58408720 TCGCACACTTAGTGCTATACAATTAAAC
1 TCGCACACTTAGTGCTATACAATCAAAC
58408748 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
58408763 CAATCTCATT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 36 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (28 bp):
TCGCACACTTAGTGCTATACAATCAAAC
Found at i:58415723 original size:55 final size:53
Alignment explanation
Indices: 58415656--58415910 Score: 238
Period size: 55 Copynumber: 4.8 Consensus size: 53
58415646 ATTAGGGTTT
*
58415656 AAGGATACCATGTAAGACCATG-CTAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * *
58415711 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * * *
58415766 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTC-TAAGGC
* *
58415819 AAGGATACCATGTAAGACAATGTCAAGACATGGAAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTCTAAGGC
* * *
58415868 AAGGATACCAAGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-AATTGGTAAG
58415911 GTACCCGCGT
Statistics
Matches: 167, Mismatches: 25, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
49 36 0.22
50 2 0.01
52 7 0.04
53 40 0.24
54 11 0.07
55 66 0.40
56 5 0.03
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:58415862 original size:108 final size:110
Alignment explanation
Indices: 58415663--58415863 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
58415653 TTTAAGGATA
* *
58415663 CCATGTAAGACCATGCTAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* * *
58415728 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CAATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTC
* * *
58415773 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
58415835 ACAATGTCAAGACATGGAAATGGTAAGTT
65 ACAATGTCAAGACATGGAAATGATAAGTT
58415864 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 7 0.09
110 25 0.31
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CAATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:58416122 original size:16 final size:16
Alignment explanation
Indices: 58416101--58416131 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58416091 ATAAATTTGA
58416101 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
58416117 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
58416132 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:58422830 original size:22 final size:23
Alignment explanation
Indices: 58422812--58422882 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
58422802 AAACTTATTG
*
58422812 TTCAGCTCGATAGAGCTTACCGT
1 TTCAGCTCAATAGAGCTTACCGT
**
58422835 TTCAGCTCAATAGAGCTTACTAT
1 TTCAGCTCAATAGAGCTTACCGT
*
58422858 TCATCAGCTCAAGAGGAGCTTACCG
1 T--TCAGCTCAATA-GAGCTTACCG
58422883 ATCATGGCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
23 21 0.54
25 10 0.26
26 8 0.21
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (23 bp):
TTCAGCTCAATAGAGCTTACCGT
Found at i:58432932 original size:40 final size:40
Alignment explanation
Indices: 58432849--58433066 Score: 275
Period size: 40 Copynumber: 5.5 Consensus size: 40
58432839 AAGCCAAGTA
* * *
58432849 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
58432887 CCTTCGGGACATAGCCCGGATATAGTAAATCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
58432927 TCTTCGGGACTTAGCCCGGATATATTAACTCGCAGAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58432967 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
58433007 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
58433048 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58433067 TTATCATCCA
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 12 0.08
39 17 0.11
40 102 0.64
41 24 0.15
42 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58443417 original size:43 final size:43
Alignment explanation
Indices: 58443369--58443493 Score: 205
Period size: 43 Copynumber: 2.9 Consensus size: 43
58443359 TTCAACAAAC
* * *
58443369 TCGCACACTTAATGCTAATTAATTAACCGAAGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
58443412 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
* *
58443455 TCACACACTTGGTGCCAATTAATTAGCCGAAGCTATAAT
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAAT
58443494 ACCTTCTTAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 77 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.30
Consensus pattern (43 bp):
TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
Found at i:58443635 original size:43 final size:43
Alignment explanation
Indices: 58443572--58443854 Score: 478
Period size: 43 Copynumber: 6.6 Consensus size: 43
58443562 TTCAACGAAC
* *
58443572 TCGCACACTTAGTGCTAATTAATTAACCGAAGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
58443615 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
*
58443658 TCGCACACTTGGTGCCAATTAATTAGCCGAAGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
*
58443701 TCGCACACTTGGTGCCAATTAATTAGCCGAAGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
*
58443744 TCGCACACTTGGTGCCAATTAATTAGCCGAAGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
*
58443787 TCGCACATTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
* *
58443830 TCGTACATTTAGTGCC-ATTACATTA
1 TCGCACACTTAGTGCCAATTA-ATTA
58443855 AACTGAACTT
Statistics
Matches: 233, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
42 4 0.02
43 229 0.98
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (43 bp):
TCGCACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTA
Found at i:58443639 original size:203 final size:203
Alignment explanation
Indices: 58443290--58443696 Score: 778
Period size: 203 Copynumber: 2.0 Consensus size: 203
58443280 CCTGTACCAT
*
58443290 TACCTTCTTATTTGTCACGCTTATCATTTCAATGCTCGAAACATTAATTCATTCGATCATCTTTG
1 TACCTTCTTATTTGTCACGCTTACCATTTCAATGCTCGAAACATTAATTCATTCGATCATCTTTG
58443355 AACATTCAACAAACTCGCACACTTAATGCTAATTAATTAACCGAAGCTATAATTGTATCGCACAC
66 AACATTCAACAAACTCGCACACTTAATGCTAATTAATTAACCGAAGCTATAATTGTATCGCACAC
58443420 TTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCACACACTTGGTGCCAATTAATTAGCCGA
131 TTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCACACACTTGGTGCCAATTAATTAGCCGA
58443485 AGCTATAA
196 AGCTATAA
58443493 TACCTTCTTATTTGTCACGCTTACCATTTCAATGCTCGAAACATTAATTCATTCGATCATCTTTG
1 TACCTTCTTATTTGTCACGCTTACCATTTCAATGCTCGAAACATTAATTCATTCGATCATCTTTG
* *
58443558 AACATTCAACGAACTCGCACACTTAGTGCTAATTAATTAACCGAAGCTATAATTGTATCGCACAC
66 AACATTCAACAAACTCGCACACTTAATGCTAATTAATTAACCGAAGCTATAATTGTATCGCACAC
*
58443623 TTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCGCACACTTGGTGCCAATTAATTAGCCGA
131 TTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCACACACTTGGTGCCAATTAATTAGCCGA
58443688 AGCTATAA
196 AGCTATAA
58443696 T
1 T
58443697 TGTATCGCAC
Statistics
Matches: 200, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
203 200 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (203 bp):
TACCTTCTTATTTGTCACGCTTACCATTTCAATGCTCGAAACATTAATTCATTCGATCATCTTTG
AACATTCAACAAACTCGCACACTTAATGCTAATTAATTAACCGAAGCTATAATTGTATCGCACAC
TTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCACACACTTGGTGCCAATTAATTAGCCGA
AGCTATAA
Found at i:58457526 original size:20 final size:20
Alignment explanation
Indices: 58457501--58457560 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
58457491 GGACATGGGT
58457501 GTGTCCCCAAGCACACGGGC
1 GTGTCCCCAAGCACACGGGC
*
58457521 GTGTCCCTAAGCACACGGGC
1 GTGTCCCCAAGCACACGGGC
58457541 GTGTCCCCAAGCACACGGGC
1 GTGTCCCCAAGCACACGGGC
58457561 ATGTAAGGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.20, C:0.38, G:0.30, T:0.12
Consensus pattern (20 bp):
GTGTCCCCAAGCACACGGGC
Found at i:58460304 original size:68 final size:66
Alignment explanation
Indices: 58460187--58460383 Score: 177
Period size: 68 Copynumber: 2.9 Consensus size: 66
58460177 ATACAGATGG
* ** * *
58460187 TATGTAGCTAGGTCACATGTATGATGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACGAGAC
1 TATGTAGCTAGGTCGCATGCGTGATACT-ATGTGCACACCATGTAG-ACAAGAGAGCTACGAGAC
58460250 ATTA
64 A-TA
* * *
58460254 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACG-G-GA
1 T-ATGTAGCTAGGTCGCATGCGTGATACTATGTGCACACCATGTAGACAAGAGAGCTACGAGACA
58460317 TA
65 TA
* * * * * *
58460319 TATATAGCTAGGTCGCATGCGTGGTTCGAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCGCATGCGTGATACTA--TG-TGCACACCATGTAGACAAGAGAGCTACGAGA
58460384 TAAACTGGCT
Statistics
Matches: 108, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
64 23 0.21
65 3 0.03
66 3 0.03
67 29 0.27
68 49 0.45
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.24
Consensus pattern (66 bp):
TATGTAGCTAGGTCGCATGCGTGATACTATGTGCACACCATGTAGACAAGAGAGCTACGAGACAT
A
Found at i:58462074 original size:4 final size:4
Alignment explanation
Indices: 58462030--58462055 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
58462020 TTTGTCTTAG
58462030 AACA AACA AACA AACA AACA AACA AA
1 AACA AACA AACA AACA AACA AACA AA
58462056 AATTGGATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:58462296 original size:18 final size:17
Alignment explanation
Indices: 58462265--58462299 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
58462255 GATTTTGGGT
58462265 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
58462282 TTAAATTTATTTAATTAA
1 TTAAATTT-TTTAATTAA
58462300 AAATCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Found at i:58462543 original size:31 final size:31
Alignment explanation
Indices: 58462508--58462566 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
58462498 AAAAGACTTA
58462508 AAATTT-ATAAAATTCTAAAAT-ATATAAATAT
1 AAATTTCA-AAAATTC-AAAATAATATAAATAT
58462539 AAATTTCAAAAATTCAAAATAATATAAA
1 AAATTTCAAAAATTCAAAATAATATAAA
58462567 AAATTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 5 0.19
31 20 0.77
32 1 0.04
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (31 bp):
AAATTTCAAAAATTCAAAATAATATAAATAT
Found at i:58463194 original size:12 final size:12
Alignment explanation
Indices: 58463172--58463205 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
58463162 AGTTGAACCC
58463172 AATAA-TTAAAT
1 AATAATTTAAAT
58463183 AATAATTTAAAT
1 AATAATTTAAAT
*
58463195 ATTAATTTAAA
1 AATAATTTAAA
58463206 ATAAAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AATAATTTAAAT
Found at i:58463216 original size:22 final size:23
Alignment explanation
Indices: 58463191--58463239 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
58463181 ATAATAATTT
*
58463191 AAATATTA-AT-TTAAAATAAAA
1 AAATATTAGATATCAAAATAAAA
58463212 GAAAT-TTAGATATCAAAATAAAA
1 -AAATATTAGATATCAAAATAAAA
58463235 AAATA
1 AAATA
58463240 AACCTAGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 3 0.13
22 10 0.43
23 10 0.43
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (23 bp):
AAATATTAGATATCAAAATAAAA
Found at i:58472584 original size:17 final size:19
Alignment explanation
Indices: 58472558--58472594 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
58472548 TGTAAAACCC
58472558 ATGAGTATGAACTC-TGGT
1 ATGAGTATGAACTCTTGGT
58472576 ATGAG-ATGAACTCTTGGT
1 ATGAGTATGAACTCTTGGT
58472594 A
1 A
58472595 AGAATGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (19 bp):
ATGAGTATGAACTCTTGGT
Found at i:58476754 original size:40 final size:40
Alignment explanation
Indices: 58476710--58476897 Score: 322
Period size: 40 Copynumber: 4.7 Consensus size: 40
58476700 GCAAACACAT
* * *
58476710 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
58476750 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
58476790 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
58476830 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
58476870 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
58476898 TCCAATGCTC
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:58490331 original size:47 final size:47
Alignment explanation
Indices: 58490253--58490708 Score: 741
Period size: 47 Copynumber: 9.6 Consensus size: 47
58490243 CCCTTCGGGA
* * * * *
58490253 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58490300 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58490347 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58490394 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58490441 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58490490 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58490537 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58490586 CTAATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58490633 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58490682 CTTACCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
58490709 TATTCAAATA
Statistics
Matches: 385, Mismatches: 18, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
47 250 0.65
49 135 0.35
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58490483 original size:96 final size:96
Alignment explanation
Indices: 58490253--58490708 Score: 794
Period size: 96 Copynumber: 4.8 Consensus size: 96
58490243 CCCTTCGGGA
* * * *
58490253 CTTATCACAT-T-TATACACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
58490316 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
58490347 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
58490410 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
58490441 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
58490506 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
58490537 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTAATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
58490602 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
58490633 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTACCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
58490698 ACTTTCACATT
66 ACTTTCACATT
58490709 TATTCAAATA
Statistics
Matches: 343, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
93 1 0.00
94 93 0.27
96 249 0.73
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58490509 original size:143 final size:141
Alignment explanation
Indices: 58490253--58490708 Score: 741
Period size: 143 Copynumber: 3.2 Consensus size: 141
58490243 CCCTTCGGGA
* * * * * * *
58490253 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
58490318 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
58490383 GGCCATTAGGC
131 GGCCATTAGGC
58490394 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
58490459 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
58490524 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
58490537 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTAATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58490602 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
* *
58490667 CATTGGCCATTCGGC
127 CATCGGCCATTAGGC
*
58490682 CTTACCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
58490709 TATTCAAATA
Statistics
Matches: 294, Mismatches: 15, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
141 48 0.16
143 156 0.53
145 90 0.31
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:58492785 original size:21 final size:22
Alignment explanation
Indices: 58492745--58492785 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
58492735 TCACCTCATG
* *
58492745 TTTTATTATTCTTAATTCATTC
1 TTTTATTATTCTAAACTCATTC
58492767 TTTTATT-TTCTAAACTCAT
1 TTTTATTATTCTAAACTCAT
58492786 AGTGCTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTATTATTCTAAACTCATTC
Found at i:58494495 original size:40 final size:40
Alignment explanation
Indices: 58494463--58495134 Score: 1047
Period size: 40 Copynumber: 16.8 Consensus size: 40
58494453 CCAGCATGAT
** * * *
58494463 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
* * * *
58494503 TGCTCTTCGGAACTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
* *
58494543 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
* *
58494583 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
* *
58494623 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
*
58494663 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
* ** *
58494703 TGCTCTTCGGGACTTAGTTCGGATACATCACTAACACGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
58494743 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
* *
58494783 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
58494823 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
* * *
58494863 TGCTCTTCGAGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
* *
58494903 TGCTCTTCGGGATTTAGCCCGGATATATCACCAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
58494943 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
*
58494983 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
* *
58495023 TGCTCTTCGGGATTTAGCCCGGATATATCACCAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
*
58495063 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
* *
58495103 TGCTCTTCAGGATTTAGCCCGGATATATCACT
1 TGCTCTTCGGGATTTAGCCCGGATACATCACT
58495135 CTCAATTCTC
Statistics
Matches: 591, Mismatches: 41, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 591 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGATTTAGCCCGGATACATCACTAGCACGAA
Found at i:58497148 original size:39 final size:40
Alignment explanation
Indices: 58497105--58497272 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
58497095 CTCGTTCAAG
* * * *
58497105 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
58497144 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
58497184 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * * *
58497224 GGCCTTCGGGACTTAACCCGAAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCG-GATTATAAAACTCACACGAA
58497264 TGCCTTCGG
1 TGCCTTCGG
58497273 ATCTTAGTCC
Statistics
Matches: 109, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
39 26 0.24
40 79 0.72
41 3 0.03
42 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:58497194 original size:40 final size:39
Alignment explanation
Indices: 58497142--58497272 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 39
58497132 TAACTCATAC
* *
58497142 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* *
58497182 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
* *
58497222 AAGGCCTTCGGGACTTAACCCGAAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
58497262 AATGCCTTCGG
1 AATGCCTTCGG
58497273 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.04
40 77 0.96
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:58497256 original size:80 final size:79
Alignment explanation
Indices: 58497140--58497323 Score: 214
Period size: 80 Copynumber: 2.3 Consensus size: 79
58497130 AGTAACTCAT
* ** *
58497140 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCC-GAAATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
58497204 GA-ATTAGT-A-TCTCGC
64 GATA-TAGTCACT-TAGC
**
58497219 ACAAAGGCCTTCGGGACTTAACCCGAAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 ACAAA-GCCTTCGGGACTTAACCCGAAATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCCG
58497284 GATATAGTCACTTAGC
64 GATATAGTCACTTAGC
*
58497300 ACAAAGCCTTCGGGACTTAGCCCG
1 ACAAAGCCTTCGGGACTTAACCCG
58497324 GACAGCATTC
Statistics
Matches: 91, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 13 0.14
80 67 0.74
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
ACAAAGCCTTCGGGACTTAACCCGAAATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTCACTTAGC
Found at i:58505062 original size:39 final size:41
Alignment explanation
Indices: 58504991--58505211 Score: 136
Period size: 40 Copynumber: 5.5 Consensus size: 41
58504981 CTCGTTCAAG
* * * *
58504991 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* *
58505030 TGCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* * * * * *
58505070 TGCCTTCAGGACTTAACCCGGAAT-TAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* * * * *
58505110 GGCCTTCGGGACTTAACCTGGAATTA-A-TAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAGAAACTCACACGAA
** ** *
58505150 TGCCTTC-GGATCTTAGTCCGGA-TATAGTCACTTAGCAC-AA
1 TGCCTTCGGGA-CTTAACCCGGATTATAGAAACTCA-CACGAA
* *
58505190 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
58505212 CAGCATTCAA
Statistics
Matches: 147, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
38 2 0.01
39 33 0.22
40 103 0.70
41 9 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (41 bp):
TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
Found at i:58505082 original size:40 final size:39
Alignment explanation
Indices: 58505028--58505158 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 39
58505018 TAACTCATAC
* *
58505028 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* * *
58505068 AATGCCTTCAGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
* *
58505108 AAGGCCTTCGGGACTTAACCTGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
58505148 AATGCCTTCGG
1 AATGCCTTCGG
58505159 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:58505142 original size:80 final size:80
Alignment explanation
Indices: 58505026--58505211 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
58505016 AGTAACTCAT
* * *
58505026 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCAGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
58505090 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
* **
58505105 ACAAAGGCCTTCGGGACTTAACCTGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
58505169 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
58505186 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
58505212 CAGCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
79 11 0.12
80 70 0.76
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:58507375 original size:27 final size:27
Alignment explanation
Indices: 58507337--58507613 Score: 256
Period size: 27 Copynumber: 10.3 Consensus size: 27
58507327 TTAGTTTACT
* *
58507337 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
58507364 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** * * *
58507391 AAATTATTGAAATACCCTTGGTTTTTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
58507418 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
58507445 AAATTACCAAAATACCC-CTGATTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
58507472 AAATTACTAAAATACCCCCGATTTGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
58507499 AAATTACCGAAATA-CATCCGATTTGCA
1 AAATTACCAAAATACCCT-CGATTTGTA
**
58507526 AAATTACTGAAATACCC-CGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
58507552 AAATTACTAAAATACCTTCAACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
58507579 AAATTACCAAAGTACCCCCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
58507606 AAATTACC
1 AAATTACC
58507614 GTTTTACTCT
Statistics
Matches: 210, Mismatches: 35, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
26 24 0.11
27 184 0.88
28 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:58507472 original size:81 final size:81
Alignment explanation
Indices: 58507337--58507613 Score: 299
Period size: 81 Copynumber: 3.4 Consensus size: 81
58507327 TTAGTTTACT
* * * * *
58507337 AAATTACCAAAATA-CCCTCGATTAGCAAAATTACCAAAATACCCTTGGTTTGTAAAATTATTGA
1 AAATTACCAAAATACCCCT-GATTTGCAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAA
** * **
58507401 AATACCCTTGGTTTTTA
65 AATACCCCCGATTTGCA
* *
58507418 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCCTGATTTGCAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAA
58507483 ATACCCCCGATTTGCA
66 ATACCCCCGATTTGCA
* * **
58507499 AAATTACCGAAATACATCC-GATTTGCAAAATTACTGAAATACCCC-GATTTGTAAAATTACTAA
1 AAATTACCAAAATAC-CCCTGATTTGCAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAA
** * * *
58507562 AATACCTTCAACTTGTA
65 AATACCCCCGATTTGCA
* * *
58507579 AAATTACCAAAGTACCCCCGATTTACAAAATTACC
1 AAATTACCAAAATACCCCTGATTTGCAAAATTACC
58507614 GTTTTACTCT
Statistics
Matches: 165, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
79 2 0.01
80 57 0.35
81 100 0.61
82 6 0.04
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGATTTGCAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAA
ATACCCCCGATTTGCA
Found at i:58507596 original size:107 final size:108
Alignment explanation
Indices: 58507337--58507651 Score: 298
Period size: 107 Copynumber: 2.9 Consensus size: 108
58507327 TTAGTTTACT
* * ** * ** **
58507337 AAATTACCAAAATA-CCCTCGA-TTAGCAAAATTACCAAAATACCCTTGGTTTGTAAAATTATTG
1 AAATTACCAAAATACCCCT-AACTT-GTAAAATTACCAAAATACCCCCGATTTACAAAATTACCG
* * * ** * *
58507400 AAATACCCTTGGTTTTTAAAATTACCAAAATACCCCTGGTTTGTA
64 AAATACTCTCGATTTACAAAATTACCGAAATACCCCTGATTTGTA
* * * *
58507445 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCCCGATTTGCAAAATTACCGAA
1 AAATTACCAAAATACCCCTAACTTGTAAAATTACCAAAATACCCCCGATTTACAAAATTACCGAA
* *
58507510 ATACATC-CGATTTGCAAAATTACTGAAATACCCC-GATTTGTA
66 ATAC-TCTCGATTTACAAAATTACCGAAATACCCCTGATTTGTA
* * * *
58507552 AAATTACTAAAATA-CCTTCAACTTGTAAAATTACCAAAGTACCCCCGATTTACAAAATTACCGT
1 AAATTACCAAAATACCCCT-AACTTGTAAAATTACCAAAATACCCCCGATTTACAAAATTACCGA
** *
58507616 TTTACTCTCGATTTACAAAATTACCGAAACACCCCT
65 AATACTCTCGATTTACAAAATTACCGAAATACCCCT
58507652 ATAGGGTAGA
Statistics
Matches: 172, Mismatches: 29, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
106 5 0.03
107 86 0.50
108 74 0.43
109 7 0.04
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (108 bp):
AAATTACCAAAATACCCCTAACTTGTAAAATTACCAAAATACCCCCGATTTACAAAATTACCGAA
ATACTCTCGATTTACAAAATTACCGAAATACCCCTGATTTGTA
Found at i:58507701 original size:27 final size:27
Alignment explanation
Indices: 58507634--58507721 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
58507624 CGATTTACAA
* *
58507634 AATTACCGAAACACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
58507661 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
58507688 AATTACCGAGATA-CCCTCGTGGGGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
58507715 AATTACC
1 AATTACC
58507722 ATTTTGCCCC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
26 4 0.08
27 49 0.92
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:58508102 original size:22 final size:22
Alignment explanation
Indices: 58508069--58508127 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
58508059 CACGTTATCG
58508069 ATGGC-TCTGTGCCAACCTAAAT
1 ATGGCTTC-GTGCCAACCTAAAT
* * * *
58508091 ATGGCTTCGTGCCATCTTGACT
1 ATGGCTTCGTGCCAACCTAAAT
58508113 ATGGCTTCGTGCCAA
1 ATGGCTTCGTGCCAA
58508128 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTCGTGCCAACCTAAAT
Found at i:58508365 original size:27 final size:27
Alignment explanation
Indices: 58508285--58508373 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
58508275 ATTATGTTAA
* * * *
58508285 GTGGCTTTGCCAC-ATTATCTGATTCTA
1 GTGGCTCTGCCACAAATATTTG-TTCTG
*
58508312 GTGGCTATGCCACAAATATTTGTTCTG
1 GTGGCTCTGCCACAAATATTTGTTCTG
58508339 GTGGCTCTGCCA-AAATATTTGTATCTG
1 GTGGCTCTGCCACAAATATTTGT-TCTG
*
58508366 GTGACTCT
1 GTGGCTCT
58508374 ATAACAATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
26 10 0.19
27 38 0.70
28 6 0.11
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (27 bp):
GTGGCTCTGCCACAAATATTTGTTCTG
Found at i:58508382 original size:27 final size:26
Alignment explanation
Indices: 58508325--58508392 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 26
58508315 GCTATGCCAC
* *
58508325 AAATATTTGTTCTGGTGGCTCTGCCA
1 AAATATTTGTTCTGGTGACTCTGACA
*
58508351 AAATATTTGTATCTGGTGACTCT-ATA
1 AAATATTTGT-TCTGGTGACTCTGACA
*
58508377 ACAATATCTGTTCTGG
1 A-AATATTTGTTCTGG
58508393 CAGCCATGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 17 0.47
27 19 0.53
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (26 bp):
AAATATTTGTTCTGGTGACTCTGACA
Found at i:58508541 original size:25 final size:25
Alignment explanation
Indices: 58508513--58508576 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
58508503 CATTCACATT
* *
58508513 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
*
58508538 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGTCACCTGATA
58508563 CTGATTCTGATTCT
1 CTGATTCTGATTCT
58508577 AGTTCTGATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:58508549 original size:6 final size:6
Alignment explanation
Indices: 58508510--58508585 Score: 59
Period size: 6 Copynumber: 12.3 Consensus size: 6
58508500 TTGCATTCAC
* * *
58508510 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
58508560 ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
58508586 AATGTTTCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
5 4 0.07
6 43 0.77
7 7 0.12
8 2 0.04
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:58510605 original size:27 final size:27
Alignment explanation
Indices: 58510594--58510796 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
58510584 ATACTCTTGG
* *
58510594 TTTGTAAAATTACCAAAATACCCCTGG
1 TTTGTAAAATTACCGAAATACCCCTGA
*
58510621 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTGTAAAATTACCGAAATACCCCTGA
*
58510648 TTTGTAAAATTACTGAAATACCCCTGA
1 TTTGTAAAATTACCGAAATACCCCTGA
*
58510675 TTTGCAAAATTACCGAAATACCTCC-GA
1 TTTGTAAAATTACCGAAATACC-CCTGA
* **
58510702 TTTGCAAAATTACTAAAATACCCC-GA
1 TTTGTAAAATTACCGAAATACCCCTGA
** ** *
58510728 TTTGTAAAATTACTAAAATACCTTTAA
1 TTTGTAAAATTACCGAAATACCCCTGA
* *
58510755 CTTGTAAAATTA-CTAAAGTACCCCTGA
1 TTTGTAAAATTACCGAAA-TACCCCTGA
*
58510782 TTTATAAAATTACCG
1 TTTGTAAAATTACCG
58510797 TTCTACCCTC
Statistics
Matches: 152, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
26 28 0.18
27 121 0.80
28 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TTTGTAAAATTACCGAAATACCCCTGA
Found at i:58510640 original size:54 final size:53
Alignment explanation
Indices: 58510582--58510795 Score: 259
Period size: 54 Copynumber: 4.0 Consensus size: 53
58510572 AACATTATTG
* * *
58510582 AAATACTCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCA
1 AAATAC-CTTGATTTGTAAAATTACTAAAATACCCCTGATTTGTAAAATTACCA
* * * *
58510636 AAATACCCCTGATTTGTAAAATTACTGAAATACCCCTGATTTGCAAAATTACCG
1 AAATA-CCTTGATTTGTAAAATTACTAAAATACCCCTGATTTGTAAAATTACCA
* * *
58510690 AAATACCTCCGATTTGCAAAATTACTAAAATACCCC-GATTTGTAAAATTACTA
1 AAATACCT-TGATTTGTAAAATTACTAAAATACCCCTGATTTGTAAAATTACCA
* * * *
58510743 AAATACCTTTAACTTGTAAAATTACTAAAGTACCCCTGATTTATAAAATTACC
1 AAATACC-TTGATTTGTAAAATTACTAAAATACCCCTGATTTGTAAAATTACC
58510796 GTTCTACCCT
Statistics
Matches: 135, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
53 45 0.33
54 89 0.66
55 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (53 bp):
AAATACCTTGATTTGTAAAATTACTAAAATACCCCTGATTTGTAAAATTACCA
Found at i:58510684 original size:81 final size:81
Alignment explanation
Indices: 58510546--58510795 Score: 290
Period size: 81 Copynumber: 3.1 Consensus size: 81
58510536 TTAGTTTACC
* * * * * *
58510546 AAATTACCAAAATA-CCCTCGATTAGCAACATTATTGAAATACTCTTGGTTTGTAAAATTACCAA
1 AAATTACCAAAATACCCCT-GATTTGTAAAATTACTGAAATACCCTTGATTTGTAAAATTACCAA
*
58510610 AATACCCCTGGTTTGTA
65 AATACCCCTGATTTGTA
* * *
58510627 AAATTACCAAAATACCCCTGATTTGTAAAATTACTGAAATACCCCTGATTTGCAAAATTACCGAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTGAAATACCCTTGATTTGTAAAATTACCAAA
*
58510692 ATACCTCC-GATTTGCA
66 ATACC-CCTGATTTGTA
* * * * * *
58510708 AAATTACTAAAATACCCC-GATTTGTAAAATTACTAAAATACCTTTAACTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTGAAATACCCTTGATTTGTAAAATTACCAAA
* *
58510772 GTACCCCTGATTTATA
66 ATACCCCTGATTTGTA
58510788 AAATTACC
1 AAATTACC
58510796 GTTCTACCCT
Statistics
Matches: 142, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
79 2 0.01
80 55 0.39
81 79 0.56
82 6 0.04
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACTGAAATACCCTTGATTTGTAAAATTACCAAA
ATACCCCTGATTTGTA
Found at i:58510768 original size:107 final size:108
Alignment explanation
Indices: 58510594--58510822 Score: 293
Period size: 107 Copynumber: 2.1 Consensus size: 108
58510584 ATACTCTTGG
* * * *
58510594 TTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATT
1 TTTGCAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAACTTGTAAAATT
*
58510659 ACTGAAA-TACCCCTGATTTGCAAAATTACCGAAATACCTCCGA
66 ACT-AAAGTACCCCTGATTTACAAAATTACCGAAATACCTCCGA
* * **
58510702 TTTGCAAAATTACTAAAATACCCC-GATTTGTAAAATTACTAAAATACCTTTAACTTGTAAAATT
1 TTTGCAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAACTTGTAAAATT
* ***
58510766 ACTAAAGTACCCCTGATTTATAAAATTACCGTTCTACC-CTCGA
66 ACTAAAGTACCCCTGATTTACAAAATTACCGAAATACCTC-CGA
*
58510809 TTTACAAAATTACC
1 TTTGCAAAATTACC
58510823 GAAACAACCC
Statistics
Matches: 104, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
106 4 0.04
107 78 0.75
108 22 0.21
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (108 bp):
TTTGCAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAACTTGTAAAATT
ACTAAAGTACCCCTGATTTACAAAATTACCGAAATACCTCCGA
Found at i:58510818 original size:54 final size:54
Alignment explanation
Indices: 58510594--58510821 Score: 237
Period size: 54 Copynumber: 4.2 Consensus size: 54
58510584 ATACTCTTGG
* * *
58510594 TTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-CTGA
1 TTTGCAAAATTACTAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTC-GA
* * * *
58510648 TTTGTAAAATTACTGAAATACCCCTGATTTGCAAAATTACCGAAATA-CCTCCGA
1 TTTGCAAAATTACTAAAATACCCCTGATTTGTAAAATTACCAAAATACCCT-CGA
* * **
58510702 TTTGCAAAATTACTAAAATACCCC-GATTTGTAAAATTACTAAAATACCTTTAA
1 TTTGCAAAATTACTAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGA
* * * * ****
58510755 CTTGTAAAATTACTAAAGTACCCCTGATTTATAAAATTACCGTTCTACCCTCGA
1 TTTGCAAAATTACTAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGA
*
58510809 TTTACAAAATTAC
1 TTTGCAAAATTAC
58510822 CGAAACAACC
Statistics
Matches: 142, Mismatches: 28, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
53 43 0.30
54 98 0.69
55 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
TTTGCAAAATTACTAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGA
Found at i:58510847 original size:134 final size:134
Alignment explanation
Indices: 58510594--58510859 Score: 302
Period size: 134 Copynumber: 2.0 Consensus size: 134
58510584 ATACTCTTGG
*** *
58510594 TTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATT
1 TTTGTAAAATTACCAAAATACCCCTAACTTGTAAAATTACCAAAATACCCCTGATTTATAAAATT
* * * * **
58510659 ACTGAAATACCCCTGATTTGCAAAATTACCGAAATACCTCCGATTTGCAAAATTACTAAAATACC
66 ACCGAAATACCCCTGATTTACAAAATTACCGAAACAACTCCGATGGGCAAAATTACTAAAATACC
58510724 CCGA
131 CCGA
* ** * *
58510728 TTTGTAAAATTACTAAAATACCTTTAACTTGTAAAATTACTAAAGTACCCCTGATTTATAAAATT
1 TTTGTAAAATTACCAAAATACCCCTAACTTGTAAAATTACCAAAATACCCCTGATTTATAAAATT
*** * * * *
58510793 ACCGTTCTA-CCCTCGATTTACAAAATTACCGAAACAAC-CCTATAGGGTAGAATTACTGAAATA
66 ACCGAAATACCCCT-GATTTACAAAATTACCGAAACAACTCCGAT-GGGCAAAATTACTAAAATA
58510856 CCCC
129 CCCC
58510860 TGTAAGGTAT
Statistics
Matches: 108, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
133 8 0.07
134 100 0.93
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (134 bp):
TTTGTAAAATTACCAAAATACCCCTAACTTGTAAAATTACCAAAATACCCCTGATTTATAAAATT
ACCGAAATACCCCTGATTTACAAAATTACCGAAACAACTCCGATGGGCAAAATTACTAAAATACC
CCGA
Found at i:58510860 original size:27 final size:27
Alignment explanation
Indices: 58510816--58510874 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
58510806 CGATTTACAA
*
58510816 AATTACCGAAACAACCCTATAGGGTAG
1 AATTACCGAAACAACCCTATAAGGTAG
* * * * *
58510843 AATTACTGAAATACCCCTGTAAGGTAT
1 AATTACCGAAACAACCCTATAAGGTAG
58510870 AATTA
1 AATTA
58510875 TCGAGGTACC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (27 bp):
AATTACCGAAACAACCCTATAAGGTAG
Found at i:58511497 original size:27 final size:26
Alignment explanation
Indices: 58511467--58511574 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
58511457 ATTCTGTTAA
* *
58511467 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTATGCCACAATATCTG-TTCTG
58511494 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTATGCCAC-AATATCTGTTCTG
* *
58511521 GTGGCTCTGCCAAAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGT-TCTG
* * **
58511548 GTGACTCTATCACAATATCTGTTCTG
1 GTGGCTATGCCACAATATCTGTTCTG
58511574 G
1 G
58511575 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
26 14 0.20
27 50 0.70
28 7 0.10
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCTGTTCTG
Found at i:58511723 original size:6 final size:6
Alignment explanation
Indices: 58511692--58511791 Score: 98
Period size: 6 Copynumber: 16.3 Consensus size: 6
58511682 TTGCATTCAC
* *
58511692 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
58511741 -TCTCCTG ATTCTG ATTCTA ATTCTG ATTCTA ATTCTG ATTCT- AGTTCTG
1 AT-T-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
58511790 AT
1 AT
58511792 AATATTTCTT
Statistics
Matches: 78, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
5 4 0.05
6 64 0.82
7 8 0.10
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:58511727 original size:31 final size:31
Alignment explanation
Indices: 58511692--58511770 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 31
58511682 TTGCATTCAC
*
58511692 ATTCTGATTTTGATTCTGT-TACCTGATACTG
1 ATTCTGATTCTGATTCTGTCT-CCTGATACTG
*
58511723 ATTCTGATTCTGATTCTGTCTCCTGATTCTG
1 ATTCTGATTCTGATTCTGTCTCCTGATACTG
*
58511754 ATTCTAATTCTGATTCT
1 ATTCTGATTCTGATTCT
58511771 AATTCTGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 43 0.98
32 1 0.02
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCTCCTGATACTG
Found at i:58511800 original size:24 final size:24
Alignment explanation
Indices: 58511748--58511806 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
58511738 CTGTCTCCTG
**
58511748 ATTCTGATTCTAATTCTGATTCTA
1 ATTCTGATTCTAATTCTGATAATA
*
58511772 ATTCTGATTCTAGTTCTGATAATA
1 ATTCTGATTCTAATTCTGATAATA
* *
58511796 TTTCTTATTCT
1 ATTCTGATTCT
58511807 GTAATGGGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.24, C:0.15, G:0.08, T:0.53
Consensus pattern (24 bp):
ATTCTGATTCTAATTCTGATAATA
Found at i:58523630 original size:15 final size:15
Alignment explanation
Indices: 58523602--58523640 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
58523592 TCAATTATTT
* *
58523602 AATTAAAATAAAATA
1 AATTAAATTTAAATA
*
58523617 ATTTAAATTTAAATA
1 AATTAAATTTAAATA
58523632 AATTAAATT
1 AATTAAATT
58523641 AATCATGAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTAAATTTAAATA
Found at i:58523642 original size:20 final size:20
Alignment explanation
Indices: 58523602--58523642 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
58523592 TCAATTATTT
*
58523602 AATTAAAATAAAATAATTTA
1 AATTAAAATAAAATAAATTA
* *
58523622 AATTTAAATAAATTAAATTA
1 AATTAAAATAAAATAAATTA
58523642 A
1 A
58523643 TCATGAAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTAAAATAAAATAAATTA
Found at i:58529935 original size:47 final size:47
Alignment explanation
Indices: 58529872--58530023 Score: 286
Period size: 47 Copynumber: 3.2 Consensus size: 47
58529862 CCCTTCGGGA
* *
58529872 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
58529919 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
58529966 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
58530013 CTTATCACATA
1 CTTATCACATA
58530024 ATTAATACTA
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 103 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:58533660 original size:47 final size:47
Alignment explanation
Indices: 58533597--58533748 Score: 295
Period size: 47 Copynumber: 3.2 Consensus size: 47
58533587 CCCTTCGGGA
*
58533597 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
58533644 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
58533691 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
58533738 CTTATCACATA
1 CTTATCACATA
58533749 ATTAATACTA
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 104 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:58535452 original size:16 final size:16
Alignment explanation
Indices: 58535431--58535463 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
58535421 CATTAGAGAG
58535431 TTAATCAAATTAGCAT
1 TTAATCAAATTAGCAT
58535447 TTAATCAAATTAGCAT
1 TTAATCAAATTAGCAT
58535463 T
1 T
58535464 CAATTATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (16 bp):
TTAATCAAATTAGCAT
Found at i:58537986 original size:40 final size:40
Alignment explanation
Indices: 58537928--58538163 Score: 391
Period size: 40 Copynumber: 5.9 Consensus size: 40
58537918 GAATACACAT
* *
58537928 CACCGGCACGAATGCCCTTCGGGACTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTTGCCCGGATATAA
* * *
58537968 CATCGGCACGAATACCCTTCGGGATTTAGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTTGCCCGGATATAA
* *
58538008 CACCGGCACAAATGCCCTTCGGGATTTTGCCTGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTTGCCCGGATATAA
*
58538048 CACCGGCACGAATGCCCCTCGGGATTTTGCCCGGATATAA
1 CACCGGCACGAATGCCCTTCGGGATTTTGCCCGGATATAA
*
58538088 CACCGGCACGAATGCCCTTCGGGATTTTGCCCGGATATAG
1 CACCGGCACGAATGCCCTTCGGGATTTTGCCCGGATATAA
58538128 CACCGGCACGAATGCCCTTCGGGATTTTGCCCGGAT
1 CACCGGCACGAATGCCCTTCGGGATTTTGCCCGGAT
58538164 CATCGTCGAG
Statistics
Matches: 183, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.22
Consensus pattern (40 bp):
CACCGGCACGAATGCCCTTCGGGATTTTGCCCGGATATAA
Found at i:58540266 original size:47 final size:47
Alignment explanation
Indices: 58540203--58540354 Score: 268
Period size: 47 Copynumber: 3.2 Consensus size: 47
58540193 CCCTTCGGGA
* *
58540203 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
58540250 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
58540297 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGT
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
58540344 CTTATCACATA
1 CTTATCACATA
58540355 ATTAATACTA
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 100 1.00
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:58551879 original size:99 final size:99
Alignment explanation
Indices: 58551657--58551881 Score: 274
Period size: 99 Copynumber: 2.3 Consensus size: 99
58551647 GGAAGAAATG
* * * * * *
58551657 CTCCCAAAAGATAGAGTTCATACAACTCAATCAGTTTACTCAGAGCGCAAGGTTAACTCAATTAA
1 CTCCCAAAAGATGGAGTTTATACAGCTCAACCAGTTTACTCAGAACGCAAGGCTAACTCAATTAA
* *
58551722 AGCAAATCAATTTAATAGTCATATTGGAAGTAGC
66 AGCAAATCAATTCAATAGTCATATTAGAAGTAGC
* * * * * *
58551756 CTCCCAAAAGATGGAGTATATACAGCTCAACCGGTTTACTCGGAACG-TAGGACTAACTTAGTTA
1 CTCCCAAAAGATGGAGTTTATACAGCTCAACCAGTTTACTCAGAACGCAAGG-CTAACTCAATTA
* *
58551820 AAGCTAAT-AATCTCAATGGTCATATTAGAAGTAGC
65 AAGCAAATCAAT-TCAATAGTCATATTAGAAGTAGC
58551855 CTCCCAAAAGATGGAGTTTATACAGCT
1 CTCCCAAAAGATGGAGTTTATACAGCT
58551882 AAATCGATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
98 6 0.06
99 101 0.94
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (99 bp):
CTCCCAAAAGATGGAGTTTATACAGCTCAACCAGTTTACTCAGAACGCAAGGCTAACTCAATTAA
AGCAAATCAATTCAATAGTCATATTAGAAGTAGC
Found at i:58551912 original size:99 final size:99
Alignment explanation
Indices: 58551707--58551914 Score: 265
Period size: 99 Copynumber: 2.1 Consensus size: 99
58551697 CAGAGCGCAA
* *
58551707 GGTTAACTCAATTAAAGCAAATCAATTTAATAGTCATATTGGAAGTAGCCTCCCAAAAGATGGAG
1 GGTTAACTCAATTAAAGCAAATCAATTCAATAGTCATATTAGAAGTAGCCTCCCAAAAGATGGAG
* *
58551772 TATATACAGCTCAACCGGTTTACTCGGAACGTAG
66 TATATACAGCTAAACCGATTTACTCGGAACGTAG
** * * * *
58551806 GACTAACTTAGTTAAAGCTAAT-AATCTCAATGGTCATATTAGAAGTAGCCTCCCAAAAGATGGA
1 GGTTAACTCAATTAAAGCAAATCAAT-TCAATAGTCATATTAGAAGTAGCCTCCCAAAAGATGGA
* * * **
58551870 GTTTATACAGCTAAATCGATTTACTTGGATTGTAG
65 GTATATACAGCTAAACCGATTTACTCGGAACGTAG
58551905 GGTTAACTCA
1 GGTTAACTCA
58551915 CTTCATGAAA
Statistics
Matches: 90, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
98 3 0.03
99 87 0.97
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (99 bp):
GGTTAACTCAATTAAAGCAAATCAATTCAATAGTCATATTAGAAGTAGCCTCCCAAAAGATGGAG
TATATACAGCTAAACCGATTTACTCGGAACGTAG
Found at i:58551934 original size:99 final size:99
Alignment explanation
Indices: 58551739--58551957 Score: 251
Period size: 99 Copynumber: 2.2 Consensus size: 99
58551729 CAATTTAATA
* *
58551739 GTCATATTGGAAGTAGCCTCCCAAAAGATGGAGTATATACAGCTCAACCGGTTTACTCGGAACGT
1 GTCATATTGGAAGTAGCCTCCCAAAAGATGGAGTATATACAGCTAAACCGATTTACTCGGAACGT
* * * * * *
58551804 AGGACTAACTTAGTTAAAGCTAATAATCTCAATG
66 AGGACTAACTCACTTAAAGCAAAAAAACTCAACG
* * * * **
58551838 GTCATATTAGAAGTAGCCTCCCAAAAGATGGAGTTTATACAGCTAAATCGATTTACTTGGATTGT
1 GTCATATTGGAAGTAGCCTCCCAAAAGATGGAGTATATACAGCTAAACCGATTTACTCGGAACGT
** * *
58551903 AGGGTTAACTCACTTCATG-AAAAAACACTCAACG
66 AGGACTAACTCACTTAAAGCAAAAAA-ACTCAACG
*
58551937 GTCATGTTGGAAGTAGCCTCC
1 GTCATATTGGAAGTAGCCTCC
58551958 AAGATGAGCT
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
98 4 0.04
99 95 0.96
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (99 bp):
GTCATATTGGAAGTAGCCTCCCAAAAGATGGAGTATATACAGCTAAACCGATTTACTCGGAACGT
AGGACTAACTCACTTAAAGCAAAAAAACTCAACG
Found at i:58555492 original size:42 final size:42
Alignment explanation
Indices: 58555433--58555554 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 42
58555423 TAGGGTTAGT
* *
58555433 TGAGATTACGTGTAAGACCGTATCTGGGATATGGCATCGATA
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCATCGATA
* * * * *
58555475 TGAGATTTCATGTAAGACCATAGCTGAGCTATTGTCATCGATA
1 TGAGATTACATGTAAGACCATATCTGGGATA-TGGCATCGATA
** * *
58555518 TGAGATCCCATGTAAGATCACATCTGGGATATGGCAT
1 TGAGATTACATGTAAGACCATATCTGGGATATGGCAT
58555555 TGGTATGGTA
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:58559425 original size:14 final size:14
Alignment explanation
Indices: 58559406--58559436 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
58559396 TAGCAAAGAA
58559406 ATTGAATGAATTTG
1 ATTGAATGAATTTG
58559420 ATTGAATGAATTTG
1 ATTGAATGAATTTG
58559434 ATT
1 ATT
58559437 TTACAAGCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.45
Consensus pattern (14 bp):
ATTGAATGAATTTG
Done.