Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 180 of 297
Found at i:60674692 original size:20 final size:20
Alignment explanation
Indices: 60674649--60674692 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
60674639 TAAACATGAT
*
60674649 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACACGAC
*
60674669 ATGTATGATATGCACACGAG
1 ATGTATGATATGCACACGAC
60674689 ATGT
1 ATGT
60674693 TCATAAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (20 bp):
ATGTATGATATGCACACGAC
Found at i:60674817 original size:23 final size:24
Alignment explanation
Indices: 60674738--60674867 Score: 210
Period size: 24 Copynumber: 5.4 Consensus size: 24
60674728 GAGGAAGTGC
*
60674738 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
60674762 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
60674786 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
60674810 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
60674833 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
60674858 AAAAGAGGCT
1 AAAAG-GGCT
60674868 AGGCCTCCAA
Statistics
Matches: 101, Mismatches: 1, Indels: 8
0.92 0.01 0.07
Matches are distributed among these distances:
23 28 0.28
24 51 0.50
25 13 0.13
26 9 0.09
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:60675046 original size:59 final size:59
Alignment explanation
Indices: 60674920--60675032 Score: 217
Period size: 59 Copynumber: 1.9 Consensus size: 59
60674910 GAGTTATGGC
*
60674920 GGGGTGGGTCGAGTTAATCCCCACATGGTGTGTTGGTTGGTACGGGTGGAGAGTAGCGA
1 GGGGTGGGTCAAGTTAATCCCCACATGGTGTGTTGGTTGGTACGGGTGGAGAGTAGCGA
60674979 GGGGTGGGTCAAGTTAATCCCCACATGGTGTGTTGGTTGGTACGGGTGGAGAGT
1 GGGGTGGGTCAAGTTAATCCCCACATGGTGTGTTGGTTGGTACGGGTGGAGAGT
60675033 GGCGGATGGT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.17, C:0.13, G:0.43, T:0.27
Consensus pattern (59 bp):
GGGGTGGGTCAAGTTAATCCCCACATGGTGTGTTGGTTGGTACGGGTGGAGAGTAGCGA
Found at i:60675172 original size:31 final size:31
Alignment explanation
Indices: 60675134--60675197 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
60675124 CGTTTACAGT
*
60675134 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAAAATGA
* **
60675165 AAAGGCTTCGGCCCAGTGTTATGAAAAATGA
1 AAAGGCTTCAGCCCAGTAATATGAAAAATGA
60675196 AA
1 AA
60675198 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAAAATGA
Found at i:60682819 original size:20 final size:20
Alignment explanation
Indices: 60682794--60682836 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
60682784 ATTTTGATAA
*
60682794 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
60682814 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
60682834 ACA
1 ACA
60682837 CGAGATGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:60682844 original size:20 final size:20
Alignment explanation
Indices: 60682801--60682844 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
60682791 TAAACATGAT
*
60682801 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACACGAC
*
60682821 ATGTATGATATGCACACGAG
1 ATGTATGATATGCACACGAC
60682841 ATGT
1 ATGT
60682845 TCATAAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (20 bp):
ATGTATGATATGCACACGAC
Found at i:60682969 original size:23 final size:24
Alignment explanation
Indices: 60682890--60683019 Score: 201
Period size: 24 Copynumber: 5.4 Consensus size: 24
60682880 GAGGAAGTGC
*
60682890 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
60682914 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
60682938 AAAAGGGCTTATGACCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
60682962 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
60682985 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
60683010 AAAAGAGGCT
1 AAAAG-GGCT
60683020 AGGCCTCTAG
Statistics
Matches: 99, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
23 27 0.27
24 50 0.51
25 13 0.13
26 9 0.09
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:60683265 original size:31 final size:31
Alignment explanation
Indices: 60683227--60683290 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
60683217 CGTTTACAGT
*
60683227 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAAAATGA
* **
60683258 AAAGGCTTCGGCCCAGTGTTATGAAAAATGA
1 AAAGGCTTCAGCCCAGTAATATGAAAAATGA
60683289 AA
1 AA
60683291 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAAAATGA
Found at i:60685618 original size:12 final size:12
Alignment explanation
Indices: 60685601--60685633 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
60685591 CGGCCCGCCC
60685601 ATATTAATTTTT
1 ATATTAATTTTT
60685613 ATATT-ATTTTT
1 ATATTAATTTTT
60685624 ATA-TAATTTT
1 ATATTAATTTT
60685634 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:60685902 original size:22 final size:22
Alignment explanation
Indices: 60685855--60685904 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
60685845 CAATAACAAC
* * *
60685855 AAAATAGTAGTAACATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
60685877 AAAATAGTAGCAAAATAGAGAG-
1 AAAATAGTAGCAAAATA-AGAGT
60685899 AAAATA
1 AAAATA
60685905 ATAAGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.60, C:0.04, G:0.16, T:0.20
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:60689343 original size:58 final size:56
Alignment explanation
Indices: 60689281--60689390 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 56
60689271 AATTTAAATG
*
60689281 AAAAATATAAAAAATATATT-T-AAATTTTATTAAAAAT-TTGAAAAACTATAAAAATCAT
1 AAAAAAATAAAAAA-A-ATTGTAAAATTTTA-TAAAAATCTT-AAAAA-TATAAAAATCAT
60689339 AAAAAAATAAAAAAAATTGTAAAATTTTATAAAAATCGTTAAAAATATAAAA
1 AAAAAAATAAAAAAAATTGTAAAATTTTATAAAAATC-TTAAAAATATAAAA
60689391 TATATAGAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
56 3 0.06
57 16 0.34
58 26 0.55
59 2 0.04
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (56 bp):
AAAAAAATAAAAAAAATTGTAAAATTTTATAAAAATCTTAAAAATATAAAAATCAT
Found at i:60689410 original size:57 final size:58
Alignment explanation
Indices: 60689281--60689419 Score: 144
Period size: 57 Copynumber: 2.4 Consensus size: 58
60689271 AATTTAAATG
* *
60689281 AAAAATATAAAAAATATATTTAAATTTTATTAAAAATTTGAAAAACTATAAAAATCATAA
1 AAAAATAAAAAAAAT-TA-TAAAATTTTATTAAAAATTTGAAAAACTATAAAAATCATAA
* *
60689341 AAAAATAAAAAAAATTGTAAAATTTTA-TAAAAATCGTT-AAAAA-TAT-AAAAT-ATAT
1 AAAAATAAAAAAAATTATAAAATTTTATTAAAAAT--TTGAAAAACTATAAAAATCATAA
*
60689396 AGAAATACAGAAAAAATTATAAAA
1 AAAAATA-A-AAAAAATTATAAAA
60689420 ATTATTGTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
55 9 0.13
56 6 0.09
57 23 0.33
58 14 0.20
59 3 0.04
60 14 0.20
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (58 bp):
AAAAATAAAAAAAATTATAAAATTTTATTAAAAATTTGAAAAACTATAAAAATCATAA
Found at i:60689625 original size:9 final size:9
Alignment explanation
Indices: 60689613--60689672 Score: 61
Period size: 9 Copynumber: 6.6 Consensus size: 9
60689603 TTTATAATTT
60689613 TTTTTATAA
1 TTTTTATAA
60689622 TTTTTAATAA
1 TTTTT-ATAA
60689632 TTTTTTATAA
1 -TTTTTATAA
*
60689642 TTTTTATTGA
1 TTTTTA-TAA
*
60689652 TTTCTAT--
1 TTTTTATAA
60689659 TTTTTATAA
1 TTTTTATAA
60689668 TTTTT
1 TTTTT
60689673 TCTCACATGT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
7 6 0.14
9 17 0.40
10 15 0.35
11 5 0.12
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (9 bp):
TTTTTATAA
Found at i:60689625 original size:10 final size:10
Alignment explanation
Indices: 60689602--60689646 Score: 63
Period size: 10 Copynumber: 4.3 Consensus size: 10
60689592 TTATGATGCA
60689602 TTTTATAATTTT
1 TTTTATAA--TT
60689614 TTTTATAATT
1 TTTTATAATT
*
60689624 TTTAATAATT
1 TTTTATAATT
60689634 TTTTATAATT
1 TTTTATAATT
60689644 TTT
1 TTT
60689647 ATTGATTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 23 0.74
12 8 0.26
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTATAATT
Found at i:60695162 original size:40 final size:40
Alignment explanation
Indices: 60695118--60695273 Score: 235
Period size: 40 Copynumber: 3.9 Consensus size: 40
60695108 GGATATAGCT
* *
60695118 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
60695158 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
*
60695198 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
60695238 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
60695274 CATCCGAATA
Statistics
Matches: 104, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
40 101 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:60700001 original size:46 final size:46
Alignment explanation
Indices: 60699934--60700025 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
60699924 GTAGAAATAA
* *
60699934 TTATTTTATGATTATGATGAGGTCTATGATATGATTGCATCCTTGT
1 TTATTTTAAGATTATGATGAGGTCTATGATATGATTGAATCCTTGT
60699980 TTATTTTAAGATTATGATGAGGTCTATGATATGATTGAATCCTTGT
1 TTATTTTAAGATTATGATGAGGTCTATGATATGATTGAATCCTTGT
60700026 GTGAAAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.26, C:0.08, G:0.20, T:0.47
Consensus pattern (46 bp):
TTATTTTAAGATTATGATGAGGTCTATGATATGATTGAATCCTTGT
Found at i:60709511 original size:41 final size:41
Alignment explanation
Indices: 60709429--60709615 Score: 240
Period size: 40 Copynumber: 4.6 Consensus size: 41
60709419 TTGAATGATG
* * *
60709429 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
* *
60709469 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
*
60709510 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
*
60709550 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
60709590 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60709616 AACGAGGAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
39 1 0.01
40 85 0.65
41 45 0.34
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:60709567 original size:81 final size:81
Alignment explanation
Indices: 60709429--60709615 Score: 245
Period size: 81 Copynumber: 2.3 Consensus size: 81
60709419 TTGAATGATG
*
60709429 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
60709493 TGTGCGAGATACTAATA
66 TGTGCGAGATACT-ATA
* * * * **
60709510 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
60709573 TTGTGCGAGTTACTATA
65 TTGTGCGAGATACTATA
* *
60709590 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60709616 AACGAGGAGC
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
80 27 0.29
81 59 0.63
82 7 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:60717425 original size:41 final size:41
Alignment explanation
Indices: 60717343--60717529 Score: 240
Period size: 40 Copynumber: 4.6 Consensus size: 41
60717333 TTGAATGATG
* * *
60717343 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
* *
60717383 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
*
60717424 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
*
60717464 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
60717504 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60717530 AACGAGGAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
39 1 0.01
40 85 0.65
41 45 0.34
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:60717481 original size:81 final size:81
Alignment explanation
Indices: 60717343--60717529 Score: 245
Period size: 81 Copynumber: 2.3 Consensus size: 81
60717333 TTGAATGATG
*
60717343 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
60717407 TGTGCGAGATACTAATA
66 TGTGCGAGATACT-ATA
* * * * **
60717424 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
60717487 TTGTGCGAGTTACTATA
65 TTGTGCGAGATACTATA
* *
60717504 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60717530 AACGAGGAGC
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
80 27 0.29
81 59 0.63
82 7 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:60720605 original size:33 final size:32
Alignment explanation
Indices: 60720554--60720617 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
60720544 ACGAAGTCAC
* *
60720554 CAGATACAAATATTGTGGCTAGGCCACCAGAA
1 CAGATACAAATATTGTGGCGAAGCCACCAGAA
* *
60720586 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAAATAT-TGTGGCGAAGCCACCAGA
60720618 TTTTAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (32 bp):
CAGATACAAATATTGTGGCGAAGCCACCAGAA
Found at i:60742720 original size:46 final size:46
Alignment explanation
Indices: 60742648--60742824 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
60742638 TGTAACCCAC
*
60742648 CCATAAGTGAACTCGGACTCAGCTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
60742694 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
60742744 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
60742787 CCAATTAAGTGAACTCGAACTCAACTCAACGAGTTCGG
1 CC-A-TAAGTGAACTCGGACTCAACTCAACGAGCTCGG
60742825 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
46 35 0.33
47 28 0.26
48 29 0.27
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:60742770 original size:93 final size:95
Alignment explanation
Indices: 60742656--60742828 Score: 269
Period size: 93 Copynumber: 1.8 Consensus size: 95
60742646 ACCCATAAGT
* ** * *
60742656 GAACTCGGACTCAGCTCAACGAGCTCGGGCGTTCGCATCC-A-TAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCAATTAAGTGAACTCGAACTCAACTC
60742719 AACGAGCTCGGATGCCTAGTTACATCTCAC
66 AACGAGCTCGGATGCCTAGTTACATCTCAC
*
60742749 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCAATTAAGTGAACTCGAACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCAATTAAGTGAACTCGAACTCAACTC
*
60742814 AACGAGTTCGGATGC
66 AACGAGCTCGGATGC
60742829 TCAACCATCG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 35 0.49
94 1 0.01
95 35 0.49
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (95 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCAATTAAGTGAACTCGAACTCAACTC
AACGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:60743545 original size:56 final size:56
Alignment explanation
Indices: 60743459--60743571 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
60743449 GTGTTTTCAT
* *
60743459 GCAATTTCTTTCACAAAAGTTGTTTATTAGACAGCTAGGACTCATAATCTTCCATA
1 GCAATTTCTTCCACAAAAGTTGTTTATTAGACAACTAGGACTCATAATCTTCCATA
60743515 GCAATTTCTTCCACAAAAGTTGTTTATTAGACAACTAGGACTCATAATCTTCCATA
1 GCAATTTCTTCCACAAAAGTTGTTTATTAGACAACTAGGACTCATAATCTTCCATA
60743571 G
1 G
60743572 AAACACAGCA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (56 bp):
GCAATTTCTTCCACAAAAGTTGTTTATTAGACAACTAGGACTCATAATCTTCCATA
Found at i:60746355 original size:46 final size:45
Alignment explanation
Indices: 60746261--60746420 Score: 200
Period size: 46 Copynumber: 3.5 Consensus size: 45
60746251 GTGTCAATGC
* *
60746261 CATGTCCCAGACATGTCTTACACTAGC-ACATCTCGTA-GCCGACG
1 CATGTCCCAGACATGTCTTACACTGGCTACATCTCG-AGGCCGATG
*
60746305 CATGTCCCAGACATGTCTGACACTGGCTAACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-ACATCTCGAGGCCGATG
* * *
60746351 CATGTCCCAGACATGTCTTACACTGGCTCTCATGCT-GTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCT-ACAT-CTCGAGGCCGATG
*
60746397 CGTGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
60746421 AGCCCTCGTC
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
44 25 0.24
45 1 0.01
46 75 0.73
47 2 0.02
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTACATCTCGAGGCCGATG
Found at i:60765456 original size:50 final size:49
Alignment explanation
Indices: 60765381--60765615 Score: 242
Period size: 50 Copynumber: 4.7 Consensus size: 49
60765371 TGAATACGCG
* * *
60765381 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTATTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCATACTATTAA-TCACA
* **
60765431 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTA-TC-AT-ACTATTAATCACA
* * * *
60765482 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGA-TGATGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCATACT-ATTA-ATCACA
* * * * * *
60765532 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGA-ATTATTGATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATC-ATACTATTAATCACA
60765581 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCA
60765616 GATAGCTTCG
Statistics
Matches: 154, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 36 0.23
50 69 0.45
51 39 0.25
52 4 0.03
53 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCATACTATTAATCACA
Found at i:60765511 original size:26 final size:26
Alignment explanation
Indices: 60765430--60765513 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
60765420 ATTAAGTCGC
60765430 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
* * ** *
60765456 ATGCGTACT-C-AA-TGACTTCGATCAC-
1 ATGTGTAGTACTAAGTG-C-AGGCT-ACT
60765481 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
60765507 ATGTGTA
1 ATGTGTA
60765514 TCAGATGATG
Statistics
Matches: 41, Mismatches: 10, Indels: 14
0.63 0.15 0.22
Matches are distributed among these distances:
23 2 0.05
24 3 0.07
25 12 0.29
26 19 0.46
27 3 0.07
28 2 0.05
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (26 bp):
ATGTGTAGTACTAAGTGCAGGCTACT
Found at i:60765611 original size:99 final size:100
Alignment explanation
Indices: 60765381--60765619 Score: 322
Period size: 101 Copynumber: 2.4 Consensus size: 100
60765371 TGAATACGCG
* * * * *
60765381 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTATTAAGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGA-TATGAAGTCACATGTGTAGTACTAAGT
*
60765446 GCAGGCTACTATGCGTACTCAATGACTTCGATCACA
65 GCAGGCTACTACGCGTACTCAATGACTTCGATCACA
* *
60765482 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGATGAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGAT-ATGAAGTCACATGTGTAGTACTAAGT
* * * *
60765547 GTAGGCTACTACGTGTAC-CGAATTA-TT-GATCGCA
65 GCAGGCTACTACGCGTACTC-AATGACTTCGATCACA
60765581 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATA
60765620 GCTTCGTCTG
Statistics
Matches: 124, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
98 1 0.01
99 44 0.35
100 4 0.03
101 75 0.60
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATATGAAGTCACATGTGTAGTACTAAGTG
CAGGCTACTACGCGTACTCAATGACTTCGATCACA
Found at i:60771895 original size:49 final size:46
Alignment explanation
Indices: 60771840--60771946 Score: 128
Period size: 46 Copynumber: 2.3 Consensus size: 46
60771830 ATTATGTCTA
*
60771840 GGACATGGCATCAGCTTTGATTTCGAT-AGTCAGTGTAAGACCATGTT-T
1 GGACATGGCATCAGC-TTGA--TCGATGAGCCAGTGTAAGACCAT-TTCT
* *
60771888 GGGACATGGCATCGGCTTGATGGATGAGCCAGTGTAAGACCATTTCT
1 -GGACATGGCATCAGCTTGATCGATGAGCCAGTGTAAGACCATTTCT
60771935 GGACATGGCATC
1 GGACATGGCATC
60771947 GGCATTATAC
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
46 18 0.34
47 17 0.32
48 4 0.08
49 14 0.26
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (46 bp):
GGACATGGCATCAGCTTGATCGATGAGCCAGTGTAAGACCATTTCT
Found at i:60780249 original size:48 final size:48
Alignment explanation
Indices: 60780206--60780525 Score: 383
Period size: 48 Copynumber: 6.6 Consensus size: 48
60780196 TCATATCGGT
* * * *
60780206 GCCGATGCCATGTCCTAGACATGATCTTACACTAGCACACATATCATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
* * * * *
60780254 GTCGATGTCATGTCCCAAACATGGCCTTACACTGGCACACATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
*
60780302 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
* * * *
60780350 GTCGATGCCATGTCCTAGACATGGCCTTACATTGGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
* *
60780398 GTCGATGCCATGTCCCAGACATGGTTTTACACTGGCACACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
* * * * * *
60780446 GCCAATGCCATATCCCATACATGGTCTTACACTGG--CTCTTATCTAGGAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATC-A--AC
* *
60780495 GTCGATGCCATGTCCCAAACATGGTCTTACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACA
60780526 GGGGATCTCA
Statistics
Matches: 233, Mismatches: 36, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
46 6 0.03
47 1 0.00
48 198 0.85
49 28 0.12
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAAC
Found at i:60780379 original size:144 final size:144
Alignment explanation
Indices: 60780208--60780481 Score: 440
Period size: 144 Copynumber: 1.9 Consensus size: 144
60780198 ATATCGGTGC
* * *
60780208 CGATGCCATGTCCTAGACATGATCTTACACTAGCACACATATCATCGTCGATGTCATGTCCCAAA
1 CGATGCCATGTCCTAGACATGACCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAAA
* *
60780273 CATGGCCTTACACTGGCACACATATCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGC
66 CATGGCCTTACACTGGCACACATATCAACGCCAATGCCATATCCCAGACATGGTCTTACACTGGC
60780338 ACACATATCAACGT
131 ACACATATCAACGT
* * * *
60780352 CGATGCCATGTCCTAGACATGGCCTTACATTGGCACACATATCAACGTCGATGCCATGTCCCAGA
1 CGATGCCATGTCCTAGACATGACCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAAA
** *
60780417 CATGGTTTTACACTGGCACACATATCAACGCCAATGCCATATCCCATACATGGTCTTACACTGGC
66 CATGGCCTTACACTGGCACACATATCAACGCCAATGCCATATCCCAGACATGGTCTTACACTGGC
60780482 TCTTATCTAG
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
144 118 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (144 bp):
CGATGCCATGTCCTAGACATGACCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAAA
CATGGCCTTACACTGGCACACATATCAACGCCAATGCCATATCCCAGACATGGTCTTACACTGGC
ACACATATCAACGT
Found at i:60782815 original size:22 final size:22
Alignment explanation
Indices: 60782787--60782861 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
60782777 TTCCACATCC
60782787 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * * *
60782809 ATCACATATGTACACTTTC-ACATT
1 ATCACAT-TG-GC-CATTCGGCCTT
60782833 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
60782856 ATCACA
1 ATCACA
60782862 CATACACATG
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 17 0.43
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:60782823 original size:47 final size:47
Alignment explanation
Indices: 60782780--60783660 Score: 1649
Period size: 47 Copynumber: 18.7 Consensus size: 47
60782770 TATACACTTC
* *
60782780 CACATCCATCACATTGGCCATTCGGCCTTATCACATATGTACAC-T-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACA--TACACATGTT
60782827 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
60782874 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
60782921 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
60782968 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
60783015 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
60783062 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
60783109 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
60783156 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
60783203 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
60783250 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
60783297 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
60783344 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
60783391 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
60783438 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
60783485 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* * * **
60783532 CACATTCATCATATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
60783579 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* *
60783626 CACATTCATCACATTGGCCACTCGGCCCTATCACA
1 CACATTCATCACATTGGCCATTCGGCCTTATCACA
60783661 TATATATACT
Statistics
Matches: 818, Mismatches: 14, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
45 5 0.01
46 1 0.00
47 812 0.99
ACGTcount: A:0.27, C:0.32, G:0.11, T:0.30
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
Found at i:60799414 original size:18 final size:18
Alignment explanation
Indices: 60799391--60799427 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
60799381 TGGCCACACG
60799391 GCTGTGTGATACGGTCGT
1 GCTGTGTGATACGGTCGT
60799409 GCTGTGTGATACGGTCGT
1 GCTGTGTGATACGGTCGT
60799427 G
1 G
60799428 TGACACTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.16, G:0.41, T:0.32
Consensus pattern (18 bp):
GCTGTGTGATACGGTCGT
Found at i:60803360 original size:48 final size:48
Alignment explanation
Indices: 60803308--60803636 Score: 419
Period size: 48 Copynumber: 6.9 Consensus size: 48
60803298 TACGAAGTCT
* * *
60803308 CATATCAGTGCCAATGCCATGTCCCAAACATAGTCTTACACTGGCACA
1 CATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACA
* * *
60803356 CATATC-ATCGTCGATGCCATGTCCTAGACATGGTCTTACACTGGCACA
1 CATATCAAT-GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACA
*
60803404 CATATCAA-GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCACA
1 CATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACA
* * *
60803451 CATATTAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACA
1 CATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACA
* *
60803499 CATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
1 CATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACA
*** * * * *
60803547 CATATCAACATCGATGCCATATCCCAAACATGGTCTAACACTGGCTCT
1 CATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACA
* * * *
60803595 CATCTCAGATGCCGATGCCATGTCCTAGACGTGGTCTTACAC
1 CATATCA-ATGCCGATGCCATGTCCCAAACATGGTCTTACAC
60803637 GGGATCTCGT
Statistics
Matches: 244, Mismatches: 33, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
47 43 0.18
48 174 0.71
49 27 0.11
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (48 bp):
CATATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACA
Found at i:60803443 original size:95 final size:96
Alignment explanation
Indices: 60803321--60803636 Score: 429
Period size: 95 Copynumber: 3.3 Consensus size: 96
60803311 ATCAGTGCCA
* *
60803321 ATGCCATGTCCCAAACATAGTCTTACACTGGCACACATATCATCGTCGATGCCATGTCCTAGACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCGTCGATGCCATGTCCCAGACA
60803386 TGGTCTTACACTGGCACACATATCAA-GCCG
66 TGGTCTTACACTGGCACACATATCAACGCCG
* * *
60803416 ATGCCATGTTCCAAACATGGTCTTACACTGGCACACATATTAAT-GCCGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCACACATA-TCATCGTCGATGCCATGTCCCAGAC
*
60803480 ATGGTCTTACACTAGCACACATATCAACGCCG
65 ATGGTCTTACACTGGCACACATATCAACGCCG
* * * * *
60803512 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACATCGATGCCATATCCCAAACA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCGTCGATGCCATGTCCCAGACA
* * * * *
60803577 TGGTCTAACACTGGCTCTCATCTCAGATGCCG
66 TGGTCTTACACTGGCACACATATCA-ACGCCG
* * *
60803609 ATGCCATGTCCTAGACGTGGTCTTACAC
1 ATGCCATGTCCCAAACATGGTCTTACAC
60803637 GGGATCTCGT
Statistics
Matches: 195, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
95 83 0.43
96 81 0.42
97 31 0.16
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (96 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCGTCGATGCCATGTCCCAGACA
TGGTCTTACACTGGCACACATATCAACGCCG
Found at i:60803487 original size:143 final size:144
Alignment explanation
Indices: 60803308--60803636 Score: 475
Period size: 143 Copynumber: 2.3 Consensus size: 144
60803298 TACGAAGTCT
* * * * * *
60803308 CATATCAG-TGCCAATGCCATGTCCCAAACATAGTCTTACACTGGCACACATATCATCGTCGATG
1 CATATCAGATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATG
* * *
60803372 CCATGTCCTAGACATGGTCTTACACTGGCACACATATCAAGC-CGATGCCATGTTCCAAACATGG
66 CCATGTCCCAGACATGGTCTTACACTGGCACACATATCAA-CACGATGCCATATCCCAAACATGG
*
60803436 TCTTACACTGGCACA
130 TCTAACACTGGCACA
*
60803451 CATATTA-ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATG
1 CATATCAGATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATG
60803515 CCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACATCGATGCCATATCCCAAACATGG
66 CCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACA-CGATGCCATATCCCAAACATGG
* *
60803580 TCTAACACTGGCTCT
130 TCTAACACTGGCACA
* * *
60803595 CATCTCAGATGCCGATGCCATGTCCTAGACGTGGTCTTACAC
1 CATATCAGATGCCGATGCCATGTCCCAGACATGGTCTTACAC
60803637 GGGATCTCGT
Statistics
Matches: 165, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
142 1 0.01
143 95 0.58
144 37 0.22
145 32 0.19
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (144 bp):
CATATCAGATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATG
CCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACACGATGCCATATCCCAAACATGGT
CTAACACTGGCACA
Found at i:60807168 original size:26 final size:26
Alignment explanation
Indices: 60807139--60807191 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
60807129 GGATACAAAT
60807139 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60807165 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
60807191 T
1 T
60807192 TATGAGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:60808371 original size:8 final size:8
Alignment explanation
Indices: 60808358--60808387 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
60808348 AGATCGGCAC
60808358 AAGCCGAA
1 AAGCCGAA
60808366 AAGCCGAA
1 AAGCCGAA
*
60808374 ATGCCGAA
1 AAGCCGAA
60808382 AAGCCG
1 AAGCCG
60808388 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:60808819 original size:27 final size:26
Alignment explanation
Indices: 60808779--60808883 Score: 108
Period size: 27 Copynumber: 3.9 Consensus size: 26
60808769 AGGAAGCGTC
60808779 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCT-TGCCACAATTATCTGAT
*
60808806 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCT-TGCCACAAT-TATCTGAT
60808833 CTGGTGGCTTCGCCACAA-TATCTGTAT
1 CTGGTGGCTT-GCCACAATTATCTG-AT
* *
60808860 CTGGTGACTTCGTCACAA-TATCTG
1 CTGGTGGCTT-GCCACAATTATCTG
60808884 GCAACCTCGC
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 9 0.13
27 59 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTTGCCACAATTATCTGAT
Found at i:60812750 original size:39 final size:39
Alignment explanation
Indices: 60812696--60812788 Score: 143
Period size: 39 Copynumber: 2.4 Consensus size: 39
60812686 TGCATGGTAT
* *
60812696 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TGC
1 TGGAAAAATATCCGGACTTAAAGTCCGCAGGC-TAAGTGC
*
60812735 TGGAAATATATCCGGACTTAAAGTCCGCAGGCTAAGTGC
1 TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTAAGTGC
60812774 TGGAAAAATATCCGG
1 TGGAAAAATATCCGG
60812789 GCTAAGTCCC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 2 0.04
39 47 0.96
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTAAAGTCCGCAGGCTAAGTGC
Found at i:60812813 original size:39 final size:39
Alignment explanation
Indices: 60812732--60812957 Score: 249
Period size: 39 Copynumber: 5.7 Consensus size: 39
60812722 GCAGGCTTTA
* * **
60812732 TGCTGGAAATATATCCGGACTTAAAGT-CCGCAGGC-TAAG
1 TGCTGGAAATATATCCGGGC-T-AAGTCCCGAAGGCATTCG
*
60812771 TGCTGGAAAAATATCCGGGCTAAGTCCCGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
* * * *
60812810 TGCTGGTATTATATCCGGGCTAAGTCCTGAAGGCATTTG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
***
60812849 TGCTGGTGCTATATCCGGGCTAAGTCCCGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
* * *
60812888 TGCTGGCATTATATCCGGGCTAAGTCCTGAAGGCATTCG
1 TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
* *
60812927 TGCTGGTATTATATCCGGGCTTAAAGTCCCG
1 TGCTGGAAATATATCCGGGC-T-AAGTCCCG
60812958 CATGCTTTGT
Statistics
Matches: 163, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
37 4 0.02
38 8 0.05
39 143 0.88
40 1 0.01
41 7 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
TGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATTCG
Found at i:60812825 original size:78 final size:78
Alignment explanation
Indices: 60812696--60812957 Score: 253
Period size: 78 Copynumber: 3.3 Consensus size: 78
60812686 TGCATGGTAT
* * ** *
60812696 TGGAAAAATATCCGGACTTGAAGT-CCGCAGGC-TTTATGCTGGAAATATATCCGGACTTAAAGT
1 TGGAAAAATATCCGGGC-T-AAGTCCCGAAGGCATTCGTGCTGGAATTATATCCGGAC-T-AAGT
*
60812759 CC-GCAGGC-TAAGTGC
62 CCTGAAGGCATAAGTGC
* *
60812774 TGGAAAAATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCTG
1 TGGAAAAATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGAATTATATCCGGACTAAGTCCTG
**
60812839 AAGGCATTTGTGC
66 AAGGCATAAGTGC
**** * *
60812852 TGGTGCTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGCATTATATCCGGGCTAAGTCCTG
1 TGGAAAAATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGAATTATATCCGGACTAAGTCCTG
**
60812917 AAGGCATTCGTGC
66 AAGGCATAAGTGC
* **
60812930 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGAAAAATATCCGGGC-T-AAGTCCCG
60812958 CATGCTTTGT
Statistics
Matches: 160, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
76 10 0.06
77 14 0.09
78 127 0.79
79 1 0.01
80 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (78 bp):
TGGAAAAATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGAATTATATCCGGACTAAGTCCTG
AAGGCATAAGTGC
Found at i:60821588 original size:46 final size:46
Alignment explanation
Indices: 60821542--60821946 Score: 661
Period size: 46 Copynumber: 8.8 Consensus size: 46
60821532 GGCATTCGAA
* * * *
60821542 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAA
1 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAG
* *** * * * *
60821588 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGCATCCGAG
1 CTCGTTGAGTTGAGTCTGAGTTC-ACTTATGGATGCGAACGC--CCGAG
60821635 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAG
60821681 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAG
60821727 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAG
60821773 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAG
60821819 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAG
60821865 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAG
60821911 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCG
1 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCG
60821947 TTACATGGTA
Statistics
Matches: 337, Mismatches: 17, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
45 2 0.01
46 300 0.89
47 32 0.09
48 3 0.01
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAG
Found at i:60831299 original size:16 final size:16
Alignment explanation
Indices: 60831256--60831302 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
60831246 AATTTAATAT
60831256 AATATTTATCTTGAT-
1 AATATTTATCTTGATA
*
60831271 AA-A-TTA-GTTGATA
1 AATATTTATCTTGATA
60831284 AATATTTATCTTGATA
1 AATATTTATCTTGATA
60831300 AAT
1 AAT
60831303 TTAATATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
12 5 0.19
13 5 0.19
14 2 0.08
15 5 0.19
16 9 0.35
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (16 bp):
AATATTTATCTTGATA
Found at i:60843459 original size:6 final size:6
Alignment explanation
Indices: 60843450--60843623 Score: 90
Period size: 6 Copynumber: 27.8 Consensus size: 6
60843440 TATTAGAACT
*
60843450 AGAATC AGAATC AGAATC AGAATC A-AGTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * * *
60843499 A-ATATC AGGTAA-C AAAATC AAAATC AGAATC AGTATC AGGTAA-C AGAAAC
1 AGA-ATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
* * * * *
60843549 AAAATC AGAATT AGTATC AGGTAA-C AGAATC AAAAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC -AGAATC AGAATC AGAATC
*
60843599 AGGTAAT- AGAATC AAAAATC AGAAT
1 A-G-AATC AGAATC -AGAATC AGAAT
60843624 GTGAATGCAA
Statistics
Matches: 130, Mismatches: 19, Indels: 38
0.70 0.10 0.20
Matches are distributed among these distances:
5 12 0.09
6 88 0.68
7 22 0.17
8 7 0.05
9 1 0.01
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:60843485 original size:31 final size:31
Alignment explanation
Indices: 60843450--60843623 Score: 240
Period size: 31 Copynumber: 5.5 Consensus size: 31
60843440 TATTAGAACT
* * * *
60843450 AGAATCAGAATCAGAATCAGAATCAAGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
60843481 AGAATCAGAATCAGAATCAATATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
60843512 AAAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
60843543 AGAAACAAAATCAGAATTAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
*
60843574 AGAATCAAAAATCAGAATCAGTATCAGGTAAT
1 AGAATC-AAAATCAGAATCAGTATCAGGTAAC
60843606 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
60843624 GTGAATGCAA
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
31 88 0.68
32 41 0.32
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:60843791 original size:27 final size:26
Alignment explanation
Indices: 60843760--60843818 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
60843750 GCTCAGTTAT
* *
60843760 CAGATATTGCGATAGAGTCACCAGATA
1 CAGATATTGCGACAGAGCCACCAGA-A
* *
60843787 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGCGACAGAGCCACCAGAA
60843813 CAGATA
1 CAGATA
60843819 ATATGGCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGCGACAGAGCCACCAGAA
Found at i:60843825 original size:26 final size:27
Alignment explanation
Indices: 60843773--60843833 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
60843763 ATATTGCGAT
* * *
60843773 AGAGTCACCAGATACAGATATTGTGGC
1 AGAGCCACCAGATACAGATAATATGGC
60843800 AGAGCCACCAGA-ACAGATAATATGGC
1 AGAGCCACCAGATACAGATAATATGGC
*
60843826 AAAGCCAC
1 AGAGCCAC
60843834 TTAACAGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (27 bp):
AGAGCCACCAGATACAGATAATATGGC
Found at i:60844020 original size:22 final size:22
Alignment explanation
Indices: 60843992--60844056 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
60843982 GCAAATACGT
*
60843992 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
60844014 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
60844036 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
60844057 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:60844539 original size:27 final size:27
Alignment explanation
Indices: 60844483--60844613 Score: 158
Period size: 27 Copynumber: 4.9 Consensus size: 27
60844473 GGAGCAAAAT
* * * *
60844483 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
60844509 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
60844536 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
60844563 GGTAATTCTACCCTACA-GGGTAATTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
60844589 AGTAATTCTACCTTACAGAGGTATT
1 GGTAATTCTACCCTACAGGGGTATT
60844614 CAACCACACA
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 37 0.41
27 53 0.59
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:60844584 original size:53 final size:54
Alignment explanation
Indices: 60844482--60844613 Score: 169
Period size: 53 Copynumber: 2.5 Consensus size: 54
60844472 AGGAGCAAAA
* * * *
60844482 TGGTAATTTTACCCCACA-AGGTATCTCGGTAATTCCACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGAGGTATTTCGGTAATTCCACCCTACAGGGGTAATT
* *
60844535 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACA-GGGTAATT
1 TGGTAATTCTACCCTACAGAGGTATTTCGGTAATTCCACCCTACAGGGGTAATT
** *
60844588 CAGTAATTCTACCTTACAGAGGTATT
1 TGGTAATTCTACCCTACAGAGGTATT
60844614 CAACCACACA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 45 0.66
54 23 0.34
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (54 bp):
TGGTAATTCTACCCTACAGAGGTATTTCGGTAATTCCACCCTACAGGGGTAATT
Found at i:60844757 original size:202 final size:203
Alignment explanation
Indices: 60844411--60844816 Score: 780
Period size: 202 Copynumber: 2.0 Consensus size: 203
60844401 ATCAAATTCG
60844411 TCAACCACACAGTCCAAGTTAGTCACTTGGCCACAAGGGCAAAACAGTCATTTAACACCTTAGGA
1 TCAACCACACAGTCCAAGTTAGTCACTTGGCCACAAGGGCAAAACAGTCATTTAACACCTTAGGA
60844476 GCAAAATGGTAATTTTACCCCACAAGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTGGTAA
66 GCAAAATGGTAATTTTACCCCACAAGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTGGTAA
60844541 TTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACA-GGGTAATTCAGTAATTCTACCTTAC
131 TTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTAATTCAGTAATTCTACCTTAC
60844605 -AGAGGTAT
196 AAG-GGTAT
60844613 TCAACCACACAGTCCAAGTTAGTCACTTGGCCACAAGGGCAAAACAGTCATTTAACACCTTAGGA
1 TCAACCACACAGTCCAAGTTAGTCACTTGGCCACAAGGGCAAAACAGTCATTTAACACCTTAGGA
60844678 GCAAAATGGTAATTTTACCCCACAAGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTGGTAA
66 GCAAAATGGTAATTTTACCCCACAAGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTGGTAA
*
60844743 TTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTAC
131 TTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTAATTCAGTAATTCTACCTTAC
60844808 AAGGGTAT
196 AAGGGTAT
60844816 T
1 T
60844817 TCAATAATTT
Statistics
Matches: 201, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
202 169 0.84
203 30 0.15
204 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (203 bp):
TCAACCACACAGTCCAAGTTAGTCACTTGGCCACAAGGGCAAAACAGTCATTTAACACCTTAGGA
GCAAAATGGTAATTTTACCCCACAAGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTGGTAA
TTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTAATTCAGTAATTCTACCTTAC
AAGGGTAT
Found at i:60844770 original size:54 final size:53
Alignment explanation
Indices: 60844684--60844852 Score: 187
Period size: 54 Copynumber: 3.2 Consensus size: 53
60844674 AGGAGCAAAA
* * * *
60844684 TGGTAATTTTACCCCACAAGGTATCTCGGTAATTCCACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGTATTTCGGTAATTCCACCCTACAGGGGTATTT
*
60844737 TGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACA-GGGTATTTCGGTAATTCCACCCTACAGGGGTATTT
** * ** * **
60844791 CAGTAATTCTACCTTACAAGGGTATTTCAATAATTTCA-CAAATCAGGGGTATTT
1 TGGTAATTCTACCCTAC-AGGGTATTTCGGTAATTCCACCCTA-CAGGGGTATTT
60844845 TGGTAATT
1 TGGTAATT
60844853 TTATTGATCG
Statistics
Matches: 97, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
53 18 0.19
54 78 0.80
55 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (53 bp):
TGGTAATTCTACCCTACAGGGTATTTCGGTAATTCCACCCTACAGGGGTATTT
Found at i:60844819 original size:27 final size:27
Alignment explanation
Indices: 60844685--60844818 Score: 180
Period size: 27 Copynumber: 5.0 Consensus size: 27
60844675 GGAGCAAAAT
* * * *
60844685 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
60844711 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
60844738 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
60844765 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
60844792 AGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
60844819 AATAATTTCA
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 14 0.15
27 82 0.85
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:60844892 original size:81 final size:81
Alignment explanation
Indices: 60844807--60845257 Score: 367
Period size: 81 Copynumber: 5.6 Consensus size: 81
60844797 TTCTACCTTA
* * *** * *
60844807 CAAGGGTATTTCAATAATTTCACAAATCAGGGGTATTTTGGTAATTTTATTGATCGATGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTT
**
60844872 TGGTAATTTTGTAAAC
66 TGGTAATTTTACAAAC
** *** * * ** *
60844888 CAAGGGTATTTCAGTAATTTTGTAAATC-GAGGGTAAAATGGTTATTCTGTAAATCAAGGGTACT
1 CAAGGGTATTTCAGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAATCAAGGGTATT
* **
60844952 TAGGTAATTTTACAAGT
65 TTGGTAATTTTACAAAC
* * * ** ** * * *
60844969 CGAGGGTACTTCAATAATTTTACAGGTC-GAGGGTATTTCAGTAATTTCACAAATTAGGGGTATT
1 CAAGGGTATTTCAGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAATCAAGGGTATT
60845033 TTGGTAATTTTACAAAC
65 TTGGTAATTTTACAAAC
* * ** *
60845050 TAGGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTATAAA-CAAAGGGTAT
1 CAAGGGTATTTCAGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAATC-AAGGGTAT
*
60845113 TTTAGTAATTTTACAAAC
64 TTTGGTAATTTTACAAAC
** * * **
60845131 C-AGAGGTATTTTC-GTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAA-CCGGGGTAT
1 CAAG-GGTA-TTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCAAGGGTAT
* *
60845193 TTTGGTGATTTTATAAAC
64 TTTGGTAATTTTACAAAC
* *
60845211 CAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 CAAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTT
60845258 GGTAAACTAA
Statistics
Matches: 286, Mismatches: 75, Indels: 19
0.75 0.20 0.05
Matches are distributed among these distances:
79 3 0.01
80 60 0.21
81 218 0.76
82 5 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
CAAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAATCAAGGGTATTT
TGGTAATTTTACAAAC
Found at i:60844895 original size:27 final size:27
Alignment explanation
Indices: 60844807--60845257 Score: 321
Period size: 27 Copynumber: 16.7 Consensus size: 27
60844797 TTCTACCTTA
*** * *
60844807 CAAGGGTATTTCAATAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** *
60844834 CAGGGGTATTTTGGTAATTTTATTGAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * **
60844861 CGATGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
** ** *
60844888 CAAGGGTATTTCAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** * * ** *
60844915 CGAGGGTAAAATGGTTATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * **
60844942 CAAGGGTACTTAGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *** ***
60844969 CGAGGGTACTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** * *
60844996 CGAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
60845023 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
60845050 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
60845077 TAGGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
60845104 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
60845131 C-AGAGGTATTTTCGTAATTTTGTAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
60845158 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
60845185 C-GGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
60845211 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
60845238 CAGGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
60845258 GGTAAACTAA
Statistics
Matches: 345, Mismatches: 76, Indels: 6
0.81 0.18 0.01
Matches are distributed among these distances:
26 25 0.07
27 318 0.92
28 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:60844895 original size:54 final size:54
Alignment explanation
Indices: 60844837--60845257 Score: 368
Period size: 54 Copynumber: 7.8 Consensus size: 54
60844827 CACAAATCAG
* *** * *
60844837 GGGTATTTTGGTAATTTTATTGATCGATGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAACCAA
* ** *** * * * *
60844891 GGGTATTTCAGTAATTTTGTAAATCGAGGGTAAAATGGTTATTCTGTAAATCAA
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAACCAA
* * * *** * *** *
60844945 GGGTA-CTTAGGTAATTTTACAAGTCGAGGGTACTTCAATAATTTTACAGGTCGA
1 GGGTATTTTA-GTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAACCAA
* * * * * *
60844999 GGGTATTTCAGTAATTTCACAAAT-TAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTAGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTATAAACCAA
* * *
60845053 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTATAAACCAA
* * *
60845107 GGGTATTTTAGTAATTTTACAAA-CCAGAGGTATTTTCGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAATCGAG-GGTATTTTGGTAATTTTATAAACCAA
* * *
60845161 GGGTATTTTGGTAATTTTACAAACCG-GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAACCAA
*
60845214 GGGTATTTTAGTAATTTTACAAA-CCAGGGGTATTTTGGTAATTT
1 GGGTATTTTAGTAATTTTACAAATCGA-GGGTATTTTGGTAATTT
60845258 GGTAAACTAA
Statistics
Matches: 295, Mismatches: 64, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
52 1 0.00
53 49 0.17
54 242 0.82
55 3 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAACCAA
Found at i:60845264 original size:27 final size:27
Alignment explanation
Indices: 60844999--60845257 Score: 331
Period size: 27 Copynumber: 9.6 Consensus size: 27
60844989 TACAGGTCGA
** * **
60844999 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
60845026 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
60845053 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
60845080 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
60845107 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * ** *
60845134 AGGTATTTTCGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
60845161 GGGTATTTTGGTAATTTTACAAACC-G
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
60845187 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
60845214 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
60845241 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
60845258 GGTAAACTAA
Statistics
Matches: 202, Mismatches: 29, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 23 0.11
27 179 0.89
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:60852481 original size:40 final size:40
Alignment explanation
Indices: 60852377--60852481 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 40
60852367 GGGCTTCAAG
* * *
60852377 CCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTG-ATGAATTCAGACTTAAAA
* *** * **
60852418 TCTAGCAGGCTTCGTGCCGGTGATGAATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
*
60852458 CCTAGCAGGCTAAATGCCAGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
60852482 TTGATAAAAG
Statistics
Matches: 49, Mismatches: 15, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
40 32 0.65
41 17 0.35
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
Found at i:60855979 original size:2 final size:2
Alignment explanation
Indices: 60855972--60856010 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
60855962 AATTCATGTT
*
60855972 AC AC AC AC AC AC AG AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
60856011 TACATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.46, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:60858050 original size:46 final size:47
Alignment explanation
Indices: 60857938--60858106 Score: 168
Period size: 46 Copynumber: 3.6 Consensus size: 47
60857928 CACTTGTGTA
* * *
60857938 AGCCAGTGTAAGACCATGTCTGGGACATGGCAT-GGACATTGAGATGAG
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGG-CCTCGAGACGAG
* *
60857986 TGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGACGTA-
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACG-AG
* * * *
60858032 AGCCAGTGTAAGA-CATGTCTAGGACATGCGTCGG-CTACGAAACGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGACGAG
* *
60858078 AGTCAGTGTAAGAGCATGTCTGGGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATG
60858107 GCCTCAACTT
Statistics
Matches: 104, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
45 3 0.03
46 59 0.57
47 31 0.30
48 11 0.11
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGAG
Found at i:60858132 original size:47 final size:45
Alignment explanation
Indices: 60857938--60858138 Score: 154
Period size: 46 Copynumber: 4.3 Consensus size: 45
60857928 CACTTGTGTA
* *
60857938 AGCCAGTGTAAGACCATGTCTGGGACATGGCATGGACATTGAGATGA-G
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-TCGAGAT-ATG
* * * ** *
60857986 TGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATC-GACTCGAGATATG
* * * * *
60858032 AGCCAGTGTAAGACATGTCTAGGACATGCGTCGGCTACGAAACGAT-
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGACT-CGAGA-TATG
* * * *
60858078 AGTCAGTGTAAGAGCATGTCTGGGACATGGCCTCAACTTGAGATATG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTCGAGATATG
60858125 AGCCAGTGTAAGAC
1 AGCCAGTGTAAGAC
60858139 CGTATCTAGG
Statistics
Matches: 121, Mismatches: 25, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
45 3 0.02
46 56 0.46
47 45 0.37
48 17 0.14
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (45 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGACTCGAGATATG
Found at i:60861700 original size:43 final size:43
Alignment explanation
Indices: 60861635--60861717 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
60861625 CGGTCAGTCA
* *
60861635 GAAAGAGTGATTCAGATTTTAGAAGACATGTTGCGGTGTTATG
1 GAAAGAGTGATTCAGATCTTAGAAGACATGTTGCAGTGTTATG
*
60861678 GAAAGAGTGATTCAGATCTTAGAGGACATGTTGCAGTGTT
1 GAAAGAGTGATTCAGATCTTAGAAGACATGTTGCAGTGTT
60861718 GTATTCTTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.31
Consensus pattern (43 bp):
GAAAGAGTGATTCAGATCTTAGAAGACATGTTGCAGTGTTATG
Found at i:60863753 original size:46 final size:46
Alignment explanation
Indices: 60863648--60863779 Score: 140
Period size: 46 Copynumber: 2.8 Consensus size: 46
60863638 GGTCACTTCT
* * * *
60863648 GTAAGTCATTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT
1 GTAAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGAC
* * *
60863696 G-AGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAC
1 GTA-AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
** *
60863742 GTAAGCCAGTGTAAGACATGTCTAAGACATGCTTCGGC
1 GTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
60863780 TACGAAACAA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
46 44 0.63
47 16 0.23
48 10 0.14
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (46 bp):
GTAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
Found at i:60869288 original size:40 final size:40
Alignment explanation
Indices: 60869183--60869362 Score: 283
Period size: 40 Copynumber: 4.5 Consensus size: 40
60869173 CGGATGATAA
*
60869183 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
60869223 TCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
60869262 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
60869302 CCGGGCTAAGTCCCGAAGGCATGTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
60869342 CCGGGCTAAGTCCCAAAGGCA
1 CCGGGCTAAGTCCCGAAGGCA
60869363 GTAGGAGCCA
Statistics
Matches: 129, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 35 0.27
40 94 0.73
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:60871084 original size:22 final size:22
Alignment explanation
Indices: 60871036--60871094 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
60871026 GAAAATATGT
*
60871036 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
60871058 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
60871080 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
60871095 GATCTGAATA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:60871304 original size:41 final size:41
Alignment explanation
Indices: 60871242--60871403 Score: 234
Period size: 41 Copynumber: 4.0 Consensus size: 41
60871232 TAAAAGTCAC
* * *
60871242 CGGTGGATCCACGGTCATCAAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCATGGTCGTCAAGCAACCATGCGATCCTCAAT
* * *
60871283 CGATGGATCCATGGTCGTCAAGCAACCATGTGATTCTCAAT
1 CGGTGGATCCATGGTCGTCAAGCAACCATGCGATCCTCAAT
* * *
60871324 CGGTGGATCTATGGTAGTCAAGCAACCATGTGATCCTCAAT
1 CGGTGGATCCATGGTCGTCAAGCAACCATGCGATCCTCAAT
*
60871365 CGGTGGATCCATGGTCGTGAAGCAACCATGCGATCCTCA
1 CGGTGGATCCATGGTCGTCAAGCAACCATGCGATCCTCA
60871404 TATACTTCCT
Statistics
Matches: 107, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 107 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (41 bp):
CGGTGGATCCATGGTCGTCAAGCAACCATGCGATCCTCAAT
Found at i:60871697 original size:27 final size:27
Alignment explanation
Indices: 60871667--60871728 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
60871657 TATGCCGGTT
*
60871667 ATTTTACACTATAAGGGTATTTCAATA
1 ATTTTACACTACAAGGGTATTTCAATA
*
60871694 ATTTTACACTACAAGTGTATTTCAATA
1 ATTTTACACTACAAGGGTATTTCAATA
60871721 ATTTTACA
1 ATTTTACA
60871729 AATTGGGCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCAATA
Found at i:60871878 original size:23 final size:23
Alignment explanation
Indices: 60871852--60871895 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
60871842 CATGCTAATA
60871852 ATAAATGCAATC-ATTATGCATTC
1 ATAAAT-CAATCAATTATGCATTC
*
60871875 ATAAATCATTCAATTATGCAT
1 ATAAATCAATCAATTATGCAT
60871896 ATTAGGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (23 bp):
ATAAATCAATCAATTATGCATTC
Found at i:60878010 original size:71 final size:71
Alignment explanation
Indices: 60877914--60878055 Score: 243
Period size: 71 Copynumber: 2.0 Consensus size: 71
60877904 TTATTTTATA
60877914 AAAATTAATTATTTTTCGACAGGAATTTTATCAAAACTGCATGAATTTAAGTT-AAAAAGGACAT
1 AAAATTAATTATTTTTCGACAGGAATTTTATCAAAACTGCATGAATTTAAGTTAAAAAAGG-CAT
60877978 GAAAGAG
65 GAAAGAG
*
60877985 NAAAATTAATTATTTTT-GACAGGAATTTTATCGAAACTGCATGAATTTAAGTTAAAAAAGGCAT
1 -AAAATTAATTATTTTTCGACAGGAATTTTATCAAAACTGCATGAATTTAAGTTAAAAAAGGCAT
60878049 GAAAGAG
65 GAAAGAG
60878056 TGTGTAAATT
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
71 45 0.66
72 23 0.34
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.31
Consensus pattern (71 bp):
AAAATTAATTATTTTTCGACAGGAATTTTATCAAAACTGCATGAATTTAAGTTAAAAAAGGCATG
AAAGAG
Found at i:60880337 original size:43 final size:43
Alignment explanation
Indices: 60880289--60880397 Score: 114
Period size: 43 Copynumber: 2.5 Consensus size: 43
60880279 ATATGATTTT
* *
60880289 GTGTAAGACCACGTCTGGGACATTGGCATCAACTT-GAGA-TATC
1 GTGTAAGACCATGTCTGGGACATTAGCATCAA-TTAGAGATTA-C
* * * * *
60880332 GTGTAAGATCGTGCCTGGGACACTAGCATCGATTAGAGATTAC
1 GTGTAAGACCATGTCTGGGACATTAGCATCAATTAGAGATTAC
*
60880375 ATGTAAGACCATGTCTGGGACAT
1 GTGTAAGACCATGTCTGGGACAT
60880398 CGACATCGTA
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 2 0.04
43 48 0.92
44 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTAGCATCAATTAGAGATTAC
Found at i:60900423 original size:6 final size:6
Alignment explanation
Indices: 60900414--60900493 Score: 101
Period size: 6 Copynumber: 13.5 Consensus size: 6
60900404 AATAAAATTG
* *
60900414 AAATGA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA-AT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
* *
60900461 AAA-AA AAATAA AAATAA GAGTAA ATAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA A-AATAA AAA
60900494 AATAGGAGGA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
5 8 0.12
6 52 0.80
7 5 0.08
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:60902063 original size:46 final size:46
Alignment explanation
Indices: 60902013--60902917 Score: 1658
Period size: 46 Copynumber: 19.7 Consensus size: 46
60902003 TTGAGCATCC
60902013 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
60902059 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
60902105 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
60902151 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
60902197 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
60902243 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
60902289 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
60902335 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
60902381 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
60902427 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
60902473 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
60902519 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
60902565 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
60902611 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
60902657 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
60902703 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
60902749 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * * * *
60902795 GAACTCGTTGAGTTGAGTCCGAG-TC-GTGA--AATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCT
* *
60902841 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
*
60902887 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
60902918 GGGGCGGGTT
Statistics
Matches: 838, Mismatches: 11, Indels: 20
0.96 0.01 0.02
Matches are distributed among these distances:
41 2 0.00
42 4 0.00
44 3 0.00
45 2 0.00
46 816 0.97
47 2 0.00
48 3 0.00
50 4 0.00
51 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
Found at i:60906188 original size:22 final size:23
Alignment explanation
Indices: 60906163--60906205 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
60906153 AAAGCCGAGG
60906163 AGCTCAGTAT-GGAG-AAAAGAAA
1 AGCTCA-TATGGGAGCAAAAGAAA
*
60906185 AGCTGATATGGGAGCAAAAGA
1 AGCTCATATGGGAGCAAAAGA
60906206 GTTTTGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 3 0.17
22 9 0.50
23 6 0.33
ACGTcount: A:0.47, C:0.09, G:0.30, T:0.14
Consensus pattern (23 bp):
AGCTCATATGGGAGCAAAAGAAA
Found at i:60911705 original size:40 final size:40
Alignment explanation
Indices: 60911646--60911754 Score: 166
Period size: 40 Copynumber: 2.7 Consensus size: 40
60911636 TATTCGGATG
*
60911646 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
60911686 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
60911726 ATAACAGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
60911755 AGCAAGTAGT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
39 1 0.02
40 60 0.97
41 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:60912054 original size:22 final size:21
Alignment explanation
Indices: 60912013--60912056 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
60912003 GAATGTGCAT
60912013 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
60912035 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
60912057 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:60926683 original size:43 final size:43
Alignment explanation
Indices: 60926633--60926798 Score: 158
Period size: 43 Copynumber: 3.9 Consensus size: 43
60926623 ATTATTGATA
* *
60926633 TGTGATTACATGTAAGACCTTGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
60926676 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAA
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* *** * * * *
60926720 T-CGATTTTGTGTAAGACCTTGTTTGGGAGAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
60926761 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
60926799 TGTACGATCT
Statistics
Matches: 99, Mismatches: 21, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 88 0.89
44 3 0.03
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:60927075 original size:16 final size:17
Alignment explanation
Indices: 60927044--60927076 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60927034 GATATGCAAA
60927044 TATTTATATGATGGCTT
1 TATTTATATGATGGCTT
*
60927061 TATTTGTAT-ATGGCTT
1 TATTTATATGATGGCTT
60927077 ACTAAGCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.55
Consensus pattern (17 bp):
TATTTATATGATGGCTT
Found at i:60930324 original size:75 final size:75
Alignment explanation
Indices: 60930201--60930350 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
60930191 CTAGCCTAAG
*
60930201 AATAAAGAGGTTTTGTTTTAATTAACTAATTATCTAATCTAAGAACGCAAAGAGAAAAGAATTGA
1 AATAAAGAGGTTTTGTTTTAATTAACTAATTATCTAAACTAAGAACGCAAAGAGAAAAGAATTGA
60930266 GGAATTGCTT
66 GGAATTGCTT
60930276 AATAAAGAGGTTTTGTTTTAATTAACTAATTATCTAAACTAAGAACGCAAAGAGAAAAGAATTGA
1 AATAAAGAGGTTTTGTTTTAATTAACTAATTATCTAAACTAAGAACGCAAAGAGAAAAGAATTGA
60930341 GGAATTGCTT
66 GGAATTGCTT
60930351 TTGGGAAAAA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.31
Consensus pattern (75 bp):
AATAAAGAGGTTTTGTTTTAATTAACTAATTATCTAAACTAAGAACGCAAAGAGAAAAGAATTGA
GGAATTGCTT
Found at i:60933136 original size:6 final size:6
Alignment explanation
Indices: 60933125--60933153 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
60933115 AAATCTGCTA
60933125 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
60933154 GTGGCTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:60934799 original size:31 final size:31
Alignment explanation
Indices: 60934756--60934819 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
60934746 CCTTTTCATG
60934756 TTTCATAATTCATAACACTGGGCCGATGCCT
1 TTTCATAATTCATAACACTGGGCCGATGCCT
* **
60934787 TTTCATATTTCATATTACTGGGCCGATGCCT
1 TTTCATAATTCATAACACTGGGCCGATGCCT
60934818 TT
1 TT
60934820 ACTATAGACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGATGCCT
Found at i:60935084 original size:25 final size:25
Alignment explanation
Indices: 60935028--60935110 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
60935018 CTGGAGGCCT
*
60935028 AGCCTCTTTTAAT-AACTAGGGC-AA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
60935052 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
60935077 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
60935102 AGCCCTTTT
1 AGCCCTTTT
60935111 CAGTAAATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
23 7 0.13
24 12 0.22
25 35 0.65
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:60935206 original size:20 final size:20
Alignment explanation
Indices: 60935183--60935229 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
60935173 TTATGAATAC
60935183 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
60935202 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
60935223 ATCATGT
1 ATCATGT
60935230 ACATCAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:60938517 original size:27 final size:27
Alignment explanation
Indices: 60938487--60938664 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
60938477 ATATTGAGTC
* * * *
60938487 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
60938514 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
60938541 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
60938569 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
60938596 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
60938623 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
60938650 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60938665 GTTCAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:60938626 original size:82 final size:81
Alignment explanation
Indices: 60938508--60938663 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
60938498 TGCTATATAA
* *
60938508 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
60938573 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
60938590 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
60938654 CACTTAGTGC
65 CACTTAGTGC
60938664 TGTTCAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:60953899 original size:16 final size:16
Alignment explanation
Indices: 60953878--60953908 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
60953868 GTTTCAGCCA
60953878 CCAAGAATATGAACAT
1 CCAAGAATATGAACAT
60953894 CCAAGAATATGAACA
1 CCAAGAATATGAACA
60953909 CTCAAATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.13, T:0.16
Consensus pattern (16 bp):
CCAAGAATATGAACAT
Found at i:60958826 original size:40 final size:40
Alignment explanation
Indices: 60958782--60959007 Score: 221
Period size: 40 Copynumber: 5.7 Consensus size: 40
60958772 GCTCCTCGTT
* *
60958782 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAATTCGCA
* *
60958822 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCA
*
60958862 CGAATGCCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAT-TCGCA
* *
60958902 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAAT-TCGCA
** * * * * *
60958942 CAAATGCCTTC-GGATCTTAGTCCGGGTATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AATTCGCA
*
60958983 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
60959008 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
39 5 0.03
40 134 0.85
41 17 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCA
Found at i:60958886 original size:80 final size:78
Alignment explanation
Indices: 60958782--60959007 Score: 251
Period size: 80 Copynumber: 2.8 Consensus size: 78
60958772 GCTCCTCGTT
*
60958782 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCACAAA-GCCTTCGGGACTTAACCCGG
60958847 ATTTAATAACTCGCA
65 ATTT-ATAACTCGCA
* * *
60958862 CGAATGCCTTCGGGACTTAACCCGGATT-TAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAAT-TCGCACAAA-GCCTTCGGGACTTAACCC
* *
60958925 GGAATTTGTATCTCGCA
63 GG-ATTTATAACTCGCA
* * * * * *
60958942 CAAATGCCTTC-GGATCTTAGTCCGGGTATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCACAAAGCCTTCGGGACTTAACCCG
60959006 GA
64 GA
60959008 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
79 7 0.06
80 101 0.82
81 14 0.11
82 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCACAAAGCCTTCGGGACTTAACCCGGA
TTTATAACTCGCA
Found at i:60968280 original size:49 final size:50
Alignment explanation
Indices: 60968206--60968642 Score: 499
Period size: 49 Copynumber: 8.8 Consensus size: 50
60968196 TGAGGTCACG
*
60968206 TGTGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
* ** * * * * *
60968255 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGGTCGCA
** * * **
60968306 TGTGTAGCGCTAAGTACAGGCTACTACGTGTATCAGATGGTTAGGT--CA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
60968354 TGTGTTTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCA
1 TGTG--TAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
* ** * * * * *
60968405 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGGTCGCA
* * * ** ***
60968456 TGTGTAGCACTAAGTACAGGCTACTACGTGTATCAGATGGTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
60968506 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
60968555 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
* *
60968604 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
60968643 GCTTTAGCTA
Statistics
Matches: 324, Mismatches: 56, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
48 5 0.02
49 160 0.49
50 84 0.26
51 75 0.23
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCGCA
Found at i:60968469 original size:150 final size:150
Alignment explanation
Indices: 60968198--60968629 Score: 733
Period size: 150 Copynumber: 2.9 Consensus size: 150
60968188 AGCTATTGTG
* *
60968198 AGGTCACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
1 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
*
60968263 ACTAAGTGCAGGCTACTATGCATACCTGATAACTTCGATCACGTGTGTAGCGCTAAGTACAGGCT
66 ACTAAGTGCAGGCTACTATGCATACCTGATAACTTCGATCACGTGTGTAGCACTAAGTACAGGCT
60968328 ACTACGTGTATCAGATGGTT
131 ACTACGTGTATCAGATGGTT
*
60968348 AGGTCATGTGTTTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
1 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
60968413 ACTAAGTGCAGGCTACTATGCATACCTGATAACTTCGATCACGTGTGTAGCACTAAGTACAGGCT
66 ACTAAGTGCAGGCTACTATGCATACCTGATAACTTCGATCACGTGTGTAGCACTAAGTACAGGCT
60968478 ACTACGTGTATCAGATGGTT
131 ACTACGTGTATCAGATGGTT
60968498 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
1 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
* ** * * * * * *
60968563 ACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCGCATGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCATACCTGATAACTTCGATCACGTGTGTAGCACTAAGTACAGGCT
60968626 ACTA
131 ACTA
60968630 TGCGTACCAG
Statistics
Matches: 268, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
148 28 0.10
149 2 0.01
150 238 0.89
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (150 bp):
AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCATACCTGATAACTTCGATCACGTGTGTAGCACTAAGTACAGGCT
ACTACGTGTATCAGATGGTT
Found at i:60971424 original size:16 final size:15
Alignment explanation
Indices: 60971386--60971424 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
60971376 TGGATTCTCG
*
60971386 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
60971401 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
60971416 TATTCTTGG
1 TA-TCTTGG
60971425 CTTCTCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:60981240 original size:21 final size:21
Alignment explanation
Indices: 60981211--60981250 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60981201 TTCGAATTTT
60981211 TTTACCTATAATTATTATTCA
1 TTTACCTATAATTATTATTCA
* *
60981232 TTTATCTATTATTATTATT
1 TTTACCTATAATTATTATT
60981251 GTTTATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTACCTATAATTATTATTCA
Found at i:60983857 original size:40 final size:40
Alignment explanation
Indices: 60983768--60984031 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
60983758 TTGAATGATG
* *
60983768 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
60983807 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
60983847 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60983886 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60983926 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
60983966 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
60984007 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60984032 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60984049 original size:120 final size:118
Alignment explanation
Indices: 60983768--60984064 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
60983758 TTGAATGATG
* *
60983768 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
60983828 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
60983886 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
60983951 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
60984007 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
60984065 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:60993133 original size:40 final size:40
Alignment explanation
Indices: 60993044--60993307 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
60993034 TTGAATGATG
* *
60993044 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
60993083 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
60993123 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60993162 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60993202 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
60993242 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
60993283 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60993308 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60993325 original size:120 final size:118
Alignment explanation
Indices: 60993044--60993340 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
60993034 TTGAATGATG
* *
60993044 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
60993104 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
60993162 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
60993227 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
60993283 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
60993341 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:61000483 original size:22 final size:21
Alignment explanation
Indices: 61000437--61000485 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
61000427 GGGGTTCGAT
*
61000437 ACTCTAATAAAAAATTCAGTT
1 ACTCTAATAAAAAATTCAGTG
*
61000458 ACTCTAATAAAAAATTTAGTAG
1 ACTCTAATAAAAAATTCAGT-G
61000480 ACTCTA
1 ACTCTA
61000486 CAGGAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (21 bp):
ACTCTAATAAAAAATTCAGTG
Found at i:61003953 original size:47 final size:47
Alignment explanation
Indices: 61003899--61004092 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
61003889 TTAGGATTTT
** * *
61003899 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
61003946 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
61003993 ATGCGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
61004040 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
61004087 ATGTGA
1 ATGTGA
61004093 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:61004450 original size:37 final size:37
Alignment explanation
Indices: 61004299--61004448 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
61004289 GGAAATATAT
61004299 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
61004336 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
61004373 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
61004410 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
61004447 TC
1 TC
61004449 TGAGCTAAAG
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:61004852 original size:71 final size:71
Alignment explanation
Indices: 61004764--61004973 Score: 420
Period size: 71 Copynumber: 3.0 Consensus size: 71
61004754 GATGTGCATA
61004764 TTCGGTAAAGGGGATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACGAACAACTATGTTATAA
1 TTCGGTAAAGGGGATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACGAACAACTATGTTATAA
61004829 TTTTAT
66 TTTTAT
61004835 TTCGGTAAAGGGGATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACGAACAACTATGTTATAA
1 TTCGGTAAAGGGGATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACGAACAACTATGTTATAA
61004900 TTTTAT
66 TTTTAT
61004906 TTCGGTAAAGGGGATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACGAACAACTATGTTATAA
1 TTCGGTAAAGGGGATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACGAACAACTATGTTATAA
61004971 TTT
66 TTT
61004974 GATTGTTATC
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 139 1.00
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (71 bp):
TTCGGTAAAGGGGATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACGAACAACTATGTTATAA
TTTTAT
Found at i:61006003 original size:27 final size:27
Alignment explanation
Indices: 61005973--61006058 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
61005963 ATTACCAAAG
* *
61005973 TACCCTCAATTTATAGAATTATTGTTT
1 TACCCTCAATTTACAGAATTACTGTTT
**
61006000 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACTGTTT
* * *
61006027 TACCCTCGATTGT-GA-AATTACAGTTT
1 TACCCTCAATT-TACAGAATTACTGTTT
61006053 TACCCT
1 TACCCT
61006059 TGATTGTGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 16 0.31
27 34 0.67
28 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACTGTTT
Found at i:61006052 original size:26 final size:26
Alignment explanation
Indices: 61006016--61006073 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
61006006 TGATTTACAG
*
61006016 AATTACTGTTTTACCCTCGATTGTGA
1 AATTACAGTTTTACCCTCGATTGTGA
*
61006042 AATTACAGTTTTACCCTTGATTGTGA
1 AATTACAGTTTTACCCTCGATTGTGA
61006068 AATTAC
1 AATTAC
61006074 TGAAATACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (26 bp):
AATTACAGTTTTACCCTCGATTGTGA
Found at i:61006082 original size:26 final size:26
Alignment explanation
Indices: 61006027--61006219 Score: 69
Period size: 27 Copynumber: 7.2 Consensus size: 26
61006017 ATTACTGTTT
***
61006027 TACCCTCGATTGTGAAATTACAGTTT
1 TACCCTCGATTGTGAAATTACAGAAA
* *
61006053 TACCCTTGATTGTGAAATTACTGAAA
1 TACCCTCGATTGTGAAATTACAGAAA
* *
61006079 TACCC-CTATAG-GATAGAATTACCA-AAA
1 TACCCTCGATTGTG--A-AATTA-CAGAAA
* *
61006106 TACCC-CTAGTTCGTAAAATTACCA-AAA
1 TACCCTCGA-TT-GTGAAATTA-CAGAAA
* * * *
61006133 TACCACTGGTTTGTGAAATTACCGATA
1 TACC-CTCGATTGTGAAATTACAGAAA
* *
61006160 TACCCTCAATTTGTAAAATTACCA-AAA
1 TACCCTCGA-TTGTGAAATTA-CAGAAA
*
61006187 TACCC-CTGATT-TACAAAATTACAGAAA
1 TACCCTC-GATTGT--GAAATTACAGAAA
61006214 TACCCT
1 TACCCT
61006220 TGACTTTCTA
Statistics
Matches: 126, Mismatches: 24, Indels: 32
0.69 0.13 0.18
Matches are distributed among these distances:
24 1 0.01
25 4 0.03
26 35 0.28
27 78 0.62
28 7 0.06
29 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (26 bp):
TACCCTCGATTGTGAAATTACAGAAA
Found at i:61006125 original size:27 final size:27
Alignment explanation
Indices: 61006095--61006218 Score: 119
Period size: 27 Copynumber: 4.6 Consensus size: 27
61006085 TATAGGATAG
*
61006095 AATTACCAAAATACCCCTAGTTCGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
61006122 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
61006149 AATTACCGATATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
61006176 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
61006203 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
61006219 TTGACTTTCT
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
26 5 0.06
27 69 0.88
28 4 0.05
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:61006269 original size:27 final size:27
Alignment explanation
Indices: 61006174--61006281 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
61006164 CTCAATTTGT
** * *
61006174 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
61006201 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
61006228 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
61006257 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
61006282 GTAGATTTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
27 41 0.61
28 7 0.10
29 19 0.28
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:61006373 original size:27 final size:27
Alignment explanation
Indices: 61006322--61006399 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
61006312 AAATGACTAA
* *
61006322 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAATGACCGT
* *
61006349 AA-AGCCCTTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAATGACCGT
*
61006376 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
61006400 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:61007246 original size:25 final size:25
Alignment explanation
Indices: 61007208--61007277 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
61007198 AGGAAGTGCT
* *
61007208 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
61007233 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
61007258 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
61007278 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:61007290 original size:24 final size:24
Alignment explanation
Indices: 61007207--61007302 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
61007197 GAGGAAGTGC
*
61007207 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
61007232 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
61007256 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
61007280 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
61007303 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:61007301 original size:50 final size:50
Alignment explanation
Indices: 61007208--61007302 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
61007198 AGGAAGTGCT
**
61007208 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
61007258 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
61007303 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:61007549 original size:31 final size:30
Alignment explanation
Indices: 61007497--61007579 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 30
61007487 TGCTTACAGT
*
61007497 AAAGGCTTCGGCCAGTGATATGATTTATGA
1 AAAGGCTTCGCCCAGTGATATGATTTATGA
*
61007527 AAAGGCTTCAGCCCTGTGATATGATTTATGA
1 AAAGGCTTC-GCCCAGTGATATGATTTATGA
61007558 AAAGGCTTCGACCCAGT-ATATG
1 AAAGGCTTCG-CCCAGTGATATG
61007580 TCGAGACTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
30 15 0.31
31 33 0.69
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (30 bp):
AAAGGCTTCGCCCAGTGATATGATTTATGA
Found at i:61011033 original size:42 final size:42
Alignment explanation
Indices: 61010980--61011106 Score: 143
Period size: 42 Copynumber: 3.0 Consensus size: 42
61010970 TTGTTATCAA
* * *
61010980 ATAT-CGATGCCACTGTCCCAAACAAGGTCTTACACGAAATC
1 ATATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATC
*
61011021 ATATACGATGCCAATGTCCCAGACATTGTCTTACAC-ATAATC
1 ATATACGATGCCAATGTCCCAGACATGGTCTTACACGA-AATC
* * *
61011063 -TCATATCAATGCCAATGTCCTAGACATGGTCTTACACGATATC
1 AT-ATA-CGATGCCAATGTCCCAGACATGGTCTTACACGAAATC
61011106 A
1 A
61011107 CATCTCAGAA
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
41 6 0.08
42 34 0.47
43 31 0.43
44 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (42 bp):
ATATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATC
Found at i:61030939 original size:84 final size:84
Alignment explanation
Indices: 61030793--61030961 Score: 293
Period size: 84 Copynumber: 2.0 Consensus size: 84
61030783 ATTATAATCG
* *
61030793 TTTTGTATGTTGTCCGTCGAGAGGTATGGAAATGTTGGTAACAGTTAGCCATGGGAATGGTTATT
1 TTTTGTATGTTGTCCATCGAGAGGTATGGAAATGTTGGTAACAGTTAGCCATGGGAAGGGTTATT
*
61030858 CATGATCATTTTTGGAATA
66 CATGATCACTTTTGGAATA
*
61030877 TTTTGTATGTTGTCCATCGAGAGGTATGGAAATGTTGGTAACGGTTAGCCATGGGAAGGGTTATT
1 TTTTGTATGTTGTCCATCGAGAGGTATGGAAATGTTGGTAACAGTTAGCCATGGGAAGGGTTATT
*
61030942 CTTGATCACTTTTGGAATA
66 CATGATCACTTTTGGAATA
61030961 T
1 T
61030962 GTATGACAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.24, C:0.10, G:0.28, T:0.38
Consensus pattern (84 bp):
TTTTGTATGTTGTCCATCGAGAGGTATGGAAATGTTGGTAACAGTTAGCCATGGGAAGGGTTATT
CATGATCACTTTTGGAATA
Found at i:61050852 original size:26 final size:26
Alignment explanation
Indices: 61050823--61050872 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
61050813 ACACCAATAT
*
61050823 CGCAACAAAGCTGCCAGTAACAGTAA
1 CGCAACAAAGCTACCAGTAACAGTAA
* *
61050849 CGCAGCAAAGCTACCAGTATCAGT
1 CGCAACAAAGCTACCAGTAACAGT
61050873 GTATGTGGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.28, G:0.20, T:0.14
Consensus pattern (26 bp):
CGCAACAAAGCTACCAGTAACAGTAA
Found at i:61057029 original size:42 final size:43
Alignment explanation
Indices: 61056921--61057034 Score: 117
Period size: 42 Copynumber: 2.7 Consensus size: 43
61056911 AACGGGTACA
* *
61056921 ATGCCAATGTCCCAGACGTGGTCTTACATATAATTCAGTATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATATAAATCAGTATCG
** * *
61056964 ATGCCTCTGTCCCAGATAGGGTCTTAC-TCA-AAATCAG-ATACG
1 ATGCCAATGTCCCAGACATGGTCTTACAT-ATAAATCAGTAT-CG
* *
61057006 ATGCCGATGTCCTAGACATGGTCTTACAT
1 ATGCCAATGTCCCAGACATGGTCTTACAT
61057035 GATGTCTCAG
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
41 2 0.04
42 31 0.54
43 24 0.42
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATATAAATCAGTATCG
Found at i:61066193 original size:46 final size:46
Alignment explanation
Indices: 61066143--61066299 Score: 253
Period size: 46 Copynumber: 3.4 Consensus size: 46
61066133 TCACTATAAC
*
61066143 GTAGCCGAAGCTACCACTGTATTGTAGTCGAAGCTACCACTGAGAT
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAT
61066189 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAT
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAT
* * * *
61066235 GTAGCTGAAGCTACCACTATATTATAGCCGAAGCTACCACTGTA-TT
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTG-AGAT
61066281 GTAGCCGAAGCTACCACTG
1 GTAGCCGAAGCTACCACTG
61066300 AGATGTAGTT
Statistics
Matches: 103, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
46 102 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (46 bp):
GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAT
Found at i:61066238 original size:69 final size:70
Alignment explanation
Indices: 61066143--61066308 Score: 259
Period size: 69 Copynumber: 2.4 Consensus size: 70
61066133 TCACTATAAC
* *
61066143 GTAGCCGAAGCTACCACTGTA-TTGTAGTC-GAAGCTACCACTGAGA-TGTAGCCGAAGCTACCA
1 GTAGCCGAAGCTACCACTG-AGATGTAGTCTGAAGCTACCACT-AGATTATAGCCGAAGCTACCA
61066205 CTGTATT
64 CTGTATT
*
61066212 GTAGCCGAAGCTACCACTGAGATGTAG-CTGAAGCTACCACTATATTATAGCCGAAGCTACCACT
1 GTAGCCGAAGCTACCACTGAGATGTAGTCTGAAGCTACCACTAGATTATAGCCGAAGCTACCACT
61066276 GTATT
66 GTATT
61066281 GTAGCCGAAGCTACCACTGAGATGTAGT
1 GTAGCCGAAGCTACCACTGAGATGTAGT
61066309 TGATAGATTC
Statistics
Matches: 90, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
68 4 0.04
69 86 0.96
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (70 bp):
GTAGCCGAAGCTACCACTGAGATGTAGTCTGAAGCTACCACTAGATTATAGCCGAAGCTACCACT
GTATT
Found at i:61066299 original size:23 final size:23
Alignment explanation
Indices: 61066143--61066299 Score: 228
Period size: 23 Copynumber: 6.8 Consensus size: 23
61066133 TCACTATAAC
61066143 GTAGCCGAAGCTACCACTGTATT
1 GTAGCCGAAGCTACCACTGTATT
* *
61066166 GTAGTCGAAGCTACCACTG-AGAT
1 GTAGCCGAAGCTACCACTGTA-TT
61066189 GTAGCCGAAGCTACCACTGTATT
1 GTAGCCGAAGCTACCACTGTATT
*
61066212 GTAGCCGAAGCTACCACTG-AGAT
1 GTAGCCGAAGCTACCACTGTA-TT
* *
61066235 GTAGCTGAAGCTACCACTATATT
1 GTAGCCGAAGCTACCACTGTATT
*
61066258 ATAGCCGAAGCTACCACTGTATT
1 GTAGCCGAAGCTACCACTGTATT
61066281 GTAGCCGAAGCTACCACTG
1 GTAGCCGAAGCTACCACTG
61066300 AGATGTAGTT
Statistics
Matches: 118, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
22 2 0.02
23 114 0.97
24 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (23 bp):
GTAGCCGAAGCTACCACTGTATT
Found at i:61071631 original size:31 final size:31
Alignment explanation
Indices: 61071586--61071667 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
61071576 TTAACCCATT
* * *
61071586 ACAGAAT-AAGAATCAGAATCGGAATTAGGTG
1 ACAGAATCAA-AATCAGAATCAGAATCAGGTA
*
61071617 ACAGAATCAAAATCAGAATCAGTATCAGGTA
1 ACAGAATCAAAATCAGAATCAGAATCAGGTA
61071648 ACAGAATCAAAAATCAGAAT
1 ACAGAATC-AAAATCAGAAT
61071668 GTGAATGCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
31 32 0.71
32 13 0.29
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.18
Consensus pattern (31 bp):
ACAGAATCAAAATCAGAATCAGAATCAGGTA
Found at i:61071846 original size:27 final size:26
Alignment explanation
Indices: 61071804--61071905 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
61071794 GCTCAGTTAT
* *
61071804 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
61071831 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
61071857 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
61071885 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
61071906 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Done.