Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 185 of 410
Found at i:56451382 original size:6 final size:7
Alignment explanation
Indices: 56451366--56451391 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
56451356 CCGAAACCCG
56451366 AAAAACA
1 AAAAACA
56451373 AAAAACA
1 AAAAACA
56451380 AAAAACA
1 AAAAACA
56451387 AAAAA
1 AAAAA
56451392 AACCTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAACA
Found at i:56461072 original size:24 final size:24
Alignment explanation
Indices: 56461040--56461086 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
56461030 CTGTCAGGAG
**
56461040 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
56461064 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
56461087 GGAAATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:56462603 original size:54 final size:53
Alignment explanation
Indices: 56462505--56462615 Score: 150
Period size: 54 Copynumber: 2.1 Consensus size: 53
56462495 AGGAAGCATC
* *
56462505 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTACCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACACTACCACAT-TATCTGTT
* * * **
56462559 CTGGTGGCTCTGCCATAATTATCTGTTCTAGTGACACTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACACTACCACATTATCTGTT
56462612 CTGG
1 CTGG
56462616 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 12 0.24
54 38 0.76
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGACACTACCACATTATCTGTT
Found at i:56462611 original size:26 final size:26
Alignment explanation
Indices: 56462505--56462615 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
56462495 AGGAAGCATC
*
56462505 CTGGTGGCTA-TGCCACAATTATCTGAT
1 CTGGTGGC-ACTGCCAC-ATTATCTGTT
*
56462532 CTGGTGGCACTACCACATATATCTGTT
1 CTGGTGGCACTGCCACAT-TATCTGTT
* *
56462559 CTGGTGGCTCTGCCATAATTATCTGTT
1 CTGGTGGCACTGCCA-CATTATCTGTT
* * *
56462586 CTAGTGACACTGTCACATTATCTGTT
1 CTGGTGGCACTGCCACATTATCTGTT
56462612 CTGG
1 CTGG
56462616 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 16 0.23
27 52 0.74
28 2 0.03
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGGCACTGCCACATTATCTGTT
Found at i:56481627 original size:38 final size:39
Alignment explanation
Indices: 56481571--56481754 Score: 231
Period size: 39 Copynumber: 4.9 Consensus size: 39
56481561 AAATGTTCGA
*
56481571 GTGATATCCGGGCTAAGCCCGAAGGC-ATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
*
56481609 GTGACATCCGGGCTAAGCCCGAAGGCAATTGTGC-AA-T
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
56481646 -TG---TCC-GGCTAAGCCCGAAGGCAATTATGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
56481680 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
56481719 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
56481755 GGTTACCATA
Statistics
Matches: 130, Mismatches: 7, Indels: 16
0.85 0.05 0.10
Matches are distributed among these distances:
32 23 0.18
33 4 0.03
34 1 0.01
35 2 0.02
36 2 0.02
37 1 0.01
38 30 0.23
39 50 0.38
40 17 0.13
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
Found at i:56481696 original size:71 final size:70
Alignment explanation
Indices: 56481581--56481713 Score: 212
Period size: 71 Copynumber: 1.9 Consensus size: 70
56481571 GTGATATCCG
* *
56481581 GGCTAAGCCCGAAGGCATTGTGCAAATTGTGACATCCGGGCTAAGCCCGAAGGCAATTGTGCAAT
1 GGCTAAGCCCGAAGGCATTATGCAAATTATGACATCCGGGCTAAGCCCGAAGGCAATTGTGCAAT
56481646 TGTCC
66 TGTCC
* * *
56481651 GGCTAAGCCCGAAGGCAATTATGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGC
1 GGCTAAGCCCGAAGGC-ATTATGCAAATTATGACATCCGGGCTAAGCCCGAAGGCAATTGTGC
56481714 GAGTTGTGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
70 16 0.28
71 41 0.72
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.21
Consensus pattern (70 bp):
GGCTAAGCCCGAAGGCATTATGCAAATTATGACATCCGGGCTAAGCCCGAAGGCAATTGTGCAAT
TGTCC
Found at i:56481701 original size:39 final size:40
Alignment explanation
Indices: 56481651--56481785 Score: 175
Period size: 39 Copynumber: 3.4 Consensus size: 40
56481641 GCAATTGTCC
*
56481651 GGCTAAG-CCCGAAGGCAATTATGCGAGTTATGATATCCG
1 GGCTAAGTCCCGAAGGCAATTGTGCGAGTTATGATATCCG
*
56481690 GGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATATCCG
1 GGCTAAGTCCCGAAGGCAATTGTGCGAGTTATGATATCCG
* * * ** *
56481729 GGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAACCG
1 GGCTAAGTCCCGAAGGCAATTGTGCGAGTTATGATATCCG
*
56481769 GGCTATGTCCCGAAGGC
1 GGCTAAGTCCCGAAGGC
56481786 GTTTGAACGA
Statistics
Matches: 84, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 43 0.51
40 41 0.49
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCAATTGTGCGAGTTATGATATCCG
Found at i:56489664 original size:39 final size:39
Alignment explanation
Indices: 56489605--56489795 Score: 285
Period size: 39 Copynumber: 4.9 Consensus size: 39
56489595 AAATGTTCGA
*
56489605 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
*
56489644 GTGACATCCGGGCTAAGCCCGAAGGCAATTGTGC-AATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* * *
56489682 GTGACATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
56489721 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
56489760 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
56489796 GGTTACCATA
Statistics
Matches: 141, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 37 0.26
39 87 0.62
40 17 0.12
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
Found at i:56489704 original size:77 final size:78
Alignment explanation
Indices: 56489605--56489794 Score: 283
Period size: 77 Copynumber: 2.4 Consensus size: 78
56489595 AAATGTTCGA
*
56489605 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGACATCCGGGCTAAGCCCGAAGGC
56489670 AATTGTGC-AATT
66 AATTGTGCGAATT
* * * * *
56489682 GTGACATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGACATCCGGGCTAAGCCCGAAGGC
*
56489747 AATTGTGCGAGTT
66 AATTGTGCGAATT
* *
56489760 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGC
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGC
56489795 GGGTTACCAT
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
77 67 0.67
78 17 0.17
79 16 0.16
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (78 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGACATCCGGGCTAAGCCCGAAGGC
AATTGTGCGAATT
Found at i:56489862 original size:79 final size:79
Alignment explanation
Indices: 56489651--56489864 Score: 177
Period size: 79 Copynumber: 2.7 Consensus size: 79
56489641 ATTGTGACAT
** * * * * *
56489651 CCGGGCTAAGCCCGAAGGCAATTGTGC-AATTGTGACATCCAGGCT-AA-GCCCGAAGGCAATTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCC-GGATAAACTCCCGAAGGCAATTG
** *
56489713 TGCGAGTTATGATAT
65 TGCGAGTTACCATAA
** * * * * *
56489728 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
*
56489793 GCGGGTTACCATAA
66 GCGAGTTACCATAA
* **
56489807 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCCGGATAAACT-CCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGATAAACTCCCGAAGG
56489865 TATGTGATTC
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
77 30 0.26
78 13 0.11
79 40 0.35
80 30 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.22
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
GCGAGTTACCATAA
Found at i:56492714 original size:40 final size:40
Alignment explanation
Indices: 56492663--56492814 Score: 259
Period size: 40 Copynumber: 3.8 Consensus size: 40
56492653 GGATATAGCT
* ***
56492663 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAGTA
*
56492703 GCTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAGTA
56492743 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAGTA
56492783 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
56492815 TTATCATCCG
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAGTA
Found at i:56500875 original size:40 final size:40
Alignment explanation
Indices: 56500807--56500974 Score: 241
Period size: 40 Copynumber: 4.2 Consensus size: 40
56500797 CCTTCGGGGT
* *
56500807 TTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGAGAC
1 TTAGCCCGGAAATAG-TAACTCGCACAAATGCCTTCGAGAC
*** *
56500846 TTAGCCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGAGAC
*
56500886 TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGAGAC
*
56500926 TTAGCCCAGAAATAGTAACTCGCACAAATGCCTTCGAGAC
1 TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGAGAC
56500966 TTAGCCCGG
1 TTAGCCCGG
56500975 TTATCATCCG
Statistics
Matches: 117, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 5 0.04
40 112 0.96
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGAAATAGTAACTCGCACAAATGCCTTCGAGAC
Found at i:56502377 original size:11 final size:11
Alignment explanation
Indices: 56502361--56502385 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56502351 AACATGAGAG
56502361 CTTTTTTTTTT
1 CTTTTTTTTTT
56502372 CTTTTTTTTTT
1 CTTTTTTTTTT
56502383 CTT
1 CTT
56502386 CTAGGTACGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:56502687 original size:42 final size:42
Alignment explanation
Indices: 56502607--56502691 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 42
56502597 AAGTCCACCC
56502607 TTTTGACTACATACACTAATGAGATACTTATAGATTAACACTA
1 TTTTGACTACATACACTAATGAGATACTTATAGATTAAC-CTA
56502650 TTTTGACTACATACACTAAT-AGATACTTATAGATTAACCTA
1 TTTTGACTACATACACTAATGAGATACTTATAGATTAACCTA
56502691 T
1 T
56502692 CACATTTCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 4 0.10
42 18 0.43
43 20 0.48
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.36
Consensus pattern (42 bp):
TTTTGACTACATACACTAATGAGATACTTATAGATTAACCTA
Found at i:56509450 original size:28 final size:28
Alignment explanation
Indices: 56509405--56509480 Score: 68
Period size: 27 Copynumber: 2.8 Consensus size: 28
56509395 TAGAATATGG
* *
56509405 CACAAAGGCCTTCC-TTTCTATAGGTCAC
1 CACAAA-GACTTCCATTTCTATAGATCAC
**
56509433 CACAAAGACTTCCATTTC-ATAGATTGC
1 CACAAAGACTTCCATTTCTATAGATCAC
* *
56509460 TACAAAGGCTTCCATTT-TATA
1 CACAAAGACTTCCATTTCTATA
56509481 ACGTGTTCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
27 30 0.75
28 10 0.25
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
CACAAAGACTTCCATTTCTATAGATCAC
Found at i:56510996 original size:28 final size:27
Alignment explanation
Indices: 56510933--56511002 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
56510923 ATAGTGAGTC
56510933 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
56510960 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
56510988 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56511003 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:56519177 original size:50 final size:50
Alignment explanation
Indices: 56519118--56519218 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 50
56519108 TTCTTTTAGT
** * *
56519118 TCTTTCCATATGATGCCATAACCCACC-AGTAATGGTCTTACACAATATGG
1 TCTTTCCATAAAACGCCATAACCCACCAACT-ATGGTCTTACACAATATGG
* *
56519168 TCTTTCCATAAAACGCCATAGCCCACCAACTATGGTCTTACTCAATATGG
1 TCTTTCCATAAAACGCCATAACCCACCAACTATGGTCTTACACAATATGG
56519218 T
1 T
56519219 GCCATGAGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
50 42 0.95
51 2 0.05
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (50 bp):
TCTTTCCATAAAACGCCATAACCCACCAACTATGGTCTTACACAATATGG
Found at i:56527609 original size:22 final size:22
Alignment explanation
Indices: 56527582--56527655 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
56527572 TACATATATG
56527582 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * * ** *
56527604 TGTGATGAATG-TGAAAGTGATATG
1 TGTGAT-AAGGCCGAATG-GCCA-A
56527628 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
56527650 TGTGAT
1 TGTGAT
56527656 GAATGTGAAA
Statistics
Matches: 36, Mismatches: 12, Indels: 8
0.64 0.21 0.14
Matches are distributed among these distances:
22 16 0.44
23 10 0.28
24 10 0.28
ACGTcount: A:0.31, C:0.11, G:0.32, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:56527772 original size:49 final size:47
Alignment explanation
Indices: 56527576--56527887 Score: 473
Period size: 49 Copynumber: 6.5 Consensus size: 47
56527566 ATGATATACA
* * *
56527576 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
56527623 -ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
56527669 TATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
56527716 TATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
56527763 TATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
1 TA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
56527812 TATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
1 TA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
56527861 TATGTATATGTGATAAGGCCTAATGGC
1 TA--TATATGTGATAAGGCCTAATGGC
56527888 TAATGTAAAA
Statistics
Matches: 258, Mismatches: 4, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
46 46 0.18
47 91 0.35
49 121 0.47
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:56528039 original size:37 final size:37
Alignment explanation
Indices: 56527989--56528073 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
56527979 GGAATATGTT
*
56527989 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
56528026 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
56528063 CCGGGTAAGAC
1 CCGGGTAAGAC
56528074 TTCGTAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:56530194 original size:29 final size:29
Alignment explanation
Indices: 56530161--56530350 Score: 362
Period size: 29 Copynumber: 6.6 Consensus size: 29
56530151 CGTTAACCGA
*
56530161 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATTGAG
56530190 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATTGAG
56530219 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATTGAG
56530248 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATTGAG
56530277 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATTGAG
56530306 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATTGAG
*
56530335 GCACTGTGTGTGCGAG
1 GCACTATGTGTGCGAG
56530351 TTTTTCAACA
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 159 1.00
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCAGTAATTGAG
Found at i:56534103 original size:49 final size:47
Alignment explanation
Indices: 56533891--56534208 Score: 458
Period size: 49 Copynumber: 6.7 Consensus size: 47
56533881 ATGATATACA
* *
56533891 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
56533938 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
56533985 CATATGTGTGATAAGGCCT-ATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
56534031 TATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
56534078 TATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
1 TA--TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
56534127 TATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
1 TA--TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
*
56534176 TATGTATATGTGATAAGGCCTAATGGCTAATGT
1 TA--TATATGTGATAAGGCCTAATGGCCAATGT
56534209 AAAATATATG
Statistics
Matches: 260, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
46 44 0.17
47 91 0.35
49 125 0.48
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:56534354 original size:37 final size:37
Alignment explanation
Indices: 56534304--56534388 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
56534294 GGAATATGTT
*
56534304 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
56534341 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
56534378 CTGGGTAAGAC
1 CCGGGTAAGAC
56534389 TTCGTAATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:56539743 original size:50 final size:50
Alignment explanation
Indices: 56539684--56539783 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
56539674 AAATAGAAAT
56539684 GAGATTGAGAAGTTGGAGTATGTGAAATGTGTATCGAATTCGAGGCACTA
1 GAGATTGAGAAGTTGGAGTATGTGAAATGTGTATCGAATTCGAGGCACTA
56539734 GAGATTGAGAAGTTGGAGTATGTGAAATGTGTATCGAATTCGAGGCACTA
1 GAGATTGAGAAGTTGGAGTATGTGAAATGTGTATCGAATTCGAGGCACTA
56539784 AGTGTGCGAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (50 bp):
GAGATTGAGAAGTTGGAGTATGTGAAATGTGTATCGAATTCGAGGCACTA
Found at i:56541783 original size:12 final size:12
Alignment explanation
Indices: 56541766--56541795 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
56541756 CTCACACACA
56541766 CGTGTGCTAGGC
1 CGTGTGCTAGGC
56541778 CGTGTGCTAGGC
1 CGTGTGCTAGGC
56541790 CGTGTG
1 CGTGTG
56541796 AAGCTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.43, T:0.27
Consensus pattern (12 bp):
CGTGTGCTAGGC
Found at i:56547145 original size:29 final size:30
Alignment explanation
Indices: 56547085--56547146 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
56547075 ATTTATTTTA
*
56547085 TTGTTAATTTTCTTATTATTTTAAAGGTAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
56547115 TTGTTAATTTT-TTATTATTTTAGAA-GCAT
1 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
56547144 TTG
1 TTG
56547147 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAGGCAT
Found at i:56553035 original size:39 final size:38
Alignment explanation
Indices: 56552990--56553069 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 38
56552980 TTTTTAAAAT
* *
56552990 AAAAATC-GATA-AAAAAACAAGTTTTAACAAAATTATTTA
1 AAAAATCTGATATAAAAAA-AA-TTATAACAAAA-TATTCA
56553029 AAAAATCTGATATAAAAAAAATTATAACAAAATATTCA
1 AAAAATCTGATATAAAAAAAATTATAACAAAATATTCA
56553067 AAA
1 AAA
56553070 TGAGAGTGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
38 8 0.22
39 17 0.46
40 6 0.16
41 6 0.16
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.26
Consensus pattern (38 bp):
AAAAATCTGATATAAAAAAAATTATAACAAAATATTCA
Found at i:56553801 original size:21 final size:23
Alignment explanation
Indices: 56553776--56553829 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
56553766 TTATATTAGT
56553776 ATATTTTATATTG-TTT-AAATC
1 ATATTTTATATTGTTTTAAAATC
* *
56553797 GTATTTTA-ATTGTTTTAAAATT
1 ATATTTTATATTGTTTTAAAATC
56553819 ATATTTTATAT
1 ATATTTTATAT
56553830 AACTTATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.15
21 10 0.37
22 11 0.41
23 2 0.07
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (23 bp):
ATATTTTATATTGTTTTAAAATC
Found at i:56554763 original size:21 final size:19
Alignment explanation
Indices: 56554726--56554764 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
56554716 TTTAATAATT
56554726 AAAAAGGATATAAATTTTA
1 AAAAAGGATATAAATTTTA
*
56554745 AAAAGAGGACTATATATTTT
1 AAAA-AGGA-TATAAATTTT
56554765 GAATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 9 0.53
ACGTcount: A:0.51, C:0.03, G:0.13, T:0.33
Consensus pattern (19 bp):
AAAAAGGATATAAATTTTA
Found at i:56556146 original size:24 final size:22
Alignment explanation
Indices: 56556110--56556159 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
56556100 AATTAACTTA
*
56556110 AAAATCAATAAAA-TAAAATTATT
1 AAAATCAACAAAACT-AAATTA-T
56556133 AAAATCTAACAAAACTAAATTAT
1 AAAATC-AACAAAACTAAATTAT
56556156 AAAA
1 AAAA
56556160 CAAACTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 11 0.46
24 12 0.50
25 1 0.04
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAATCAACAAAACTAAATTAT
Found at i:56558204 original size:47 final size:47
Alignment explanation
Indices: 56558131--56558412 Score: 159
Period size: 47 Copynumber: 5.8 Consensus size: 47
56558121 ATTTGTTTGT
* *
56558131 GAGCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGA
56558177 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGACATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACATT---ATGA
* * ** *
56558225 GAGCTAGTGTAAGACATGTCTGGGACATGTTTGGGACATGCATCGGCCTCAAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACA----T--G----GCATCGGCCACATTATG-A
* * * **
56558283 -AGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCTATGA-GATTT
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCA-CATTATGA
* * * ***
56558328 TAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGA-TAT-A
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACATTATGA
*
56558374 TGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGC
1 -GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC
56558413 ACCTTACCCA
Statistics
Matches: 190, Mismatches: 22, Indels: 47
0.73 0.08 0.18
Matches are distributed among these distances:
45 4 0.02
46 35 0.18
47 79 0.42
48 32 0.17
51 1 0.01
53 2 0.01
57 34 0.18
58 1 0.01
60 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGA
Found at i:56566230 original size:47 final size:47
Alignment explanation
Indices: 56566176--56566500 Score: 517
Period size: 47 Copynumber: 6.9 Consensus size: 47
56566166 TTAGGATTTT
**
56566176 ATGTGATGAATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
56566223 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGG-CA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** * *
56566269 ATGTGATGAATGTGAGTATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
56566316 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
**
56566363 ATGTGATGAATGTGAGTATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
56566410 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
56566457 ACGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGG
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGG
56566501 ATAGTGTGAA
Statistics
Matches: 257, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 42 0.16
47 215 0.84
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:56566714 original size:37 final size:37
Alignment explanation
Indices: 56566664--56566813 Score: 228
Period size: 37 Copynumber: 4.1 Consensus size: 37
56566654 GGAAATATAT
*
56566664 TCCGGGTAAGACCCGATGACTACGCGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
56566701 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
56566738 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * * *
56566775 TCCGGATAAGACCTGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
56566812 TC
1 TC
56566814 TGAGCTAAAG
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:56568400 original size:40 final size:40
Alignment explanation
Indices: 56568077--56568388 Score: 435
Period size: 40 Copynumber: 7.8 Consensus size: 40
56568067 GAGAATTGAG
* * *
56568077 AGTGATATGTCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
56568117 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
56568157 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
56568197 AGTGATGTATCCGGACTAAGTCCCGAAGAACATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
56568237 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
56568277 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * **
56568317 AGTGATATATCTGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
56568357 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
56568389 ATCATGCTGG
Statistics
Matches: 247, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 247 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:56572282 original size:47 final size:47
Alignment explanation
Indices: 56572228--56572600 Score: 593
Period size: 47 Copynumber: 7.9 Consensus size: 47
56572218 TTAGGATTTC
**
56572228 ATGTGATGAATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
56572275 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGGCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
**
56572322 ATGTGATGAATGTGAGTATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
56572369 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
56572416 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
**
56572463 ATGTGATGAATGTGAGTATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
56572510 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
56572557 ACGTAATGAATATGAACATGCATATATGTGGTAAAGCTGAATGG
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGG
56572601 ATAGTGTGGA
Statistics
Matches: 304, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 304 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:56572817 original size:37 final size:37
Alignment explanation
Indices: 56572764--56572913 Score: 228
Period size: 37 Copynumber: 4.1 Consensus size: 37
56572754 GGAAATATAT
*
56572764 TCCGGGTAAGACCCGATGACTACGCGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
56572801 TCTGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
56572838 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
56572875 TCCGGGTAAGACCTGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
56572912 TC
1 TC
56572914 TGAGCTAAAG
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:56574513 original size:19 final size:19
Alignment explanation
Indices: 56574482--56574532 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
56574472 CTACAGAAAC
56574482 TCACAATTT-CAA-TTATT
1 TCACAATTTACAATTTATT
56574499 TCACACATTTACAATTTATT
1 TCACA-ATTTACAATTTATT
*
56574519 TTACAACTTTACAA
1 TCACAA-TTTACAA
56574533 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (19 bp):
TCACAATTTACAATTTATT
Found at i:56577639 original size:41 final size:41
Alignment explanation
Indices: 56577593--56577807 Score: 161
Period size: 41 Copynumber: 5.1 Consensus size: 41
56577583 GCTTTAAGCT
* *
56577593 GGTGAATATTATTGGGCTCCGAGCCTAGCAGGCGTAATGCC
1 GGTGAATATTATCGGGCTCCGAGCCTAGCAAGCGTAATGCC
* *** * * *
56577634 GGTGAA-ATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAT-CT
1 GGTGAATAT--TATCGGGCTCCGA-GCCTAGCAAGC-GTAATGCC
*
56577677 GGTGAATATTATCGGGCTCCGTA-CCTAGCAGGCGTAATGCC
1 GGTGAATATTATCGGGCTCCG-AGCCTAGCAAGCGTAATGCC
* *** * * *
56577718 GGTGAA-ATGATATCGGACTTAAAGGTCTAGCAAGCTTTAA-GCT
1 GGTGAATAT--TATCGGGCTCCGA-GCCTAGCAAGC-GTAATGCC
56577761 GGTGAATATTATCGGGCTCCGAGCCTAGCAAGCGTAATGCC
1 GGTGAATATTATCGGGCTCCGAGCCTAGCAAGCGTAATGCC
56577802 GGTGAA
1 GGTGAA
56577808 ATGATATCGG
Statistics
Matches: 128, Mismatches: 32, Indels: 28
0.68 0.17 0.15
Matches are distributed among these distances:
40 11 0.09
41 40 0.31
42 33 0.26
43 33 0.26
44 11 0.09
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (41 bp):
GGTGAATATTATCGGGCTCCGAGCCTAGCAAGCGTAATGCC
Found at i:56577650 original size:84 final size:84
Alignment explanation
Indices: 56577529--56577838 Score: 559
Period size: 84 Copynumber: 3.7 Consensus size: 84
56577519 TTCGAGCTTT
*
56577529 GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTATCAAGCTTTAAGCTG
1 GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCTG
*
56577594 GTGAATATTATTGGGCTCC
66 GTGAATATTATCGGGCTCC
*
56577613 GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAATCTG
1 GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCTG
56577678 GTGAATATTATCGGGCTCC
66 GTGAATATTATCGGGCTCC
56577697 GTA-CCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCT
1 G-AGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCT
56577761 GGTGAATATTATCGGGCTCC
65 GGTGAATATTATCGGGCTCC
* *
56577781 GAGCCTAGCAAGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAGGCTT
1 GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTT
56577839 ATTGCCAGTG
Statistics
Matches: 218, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
83 1 0.00
84 216 0.99
85 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (84 bp):
GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCTG
GTGAATATTATCGGGCTCC
Found at i:56577732 original size:42 final size:42
Alignment explanation
Indices: 56577606--56577817 Score: 124
Period size: 42 Copynumber: 5.0 Consensus size: 42
56577596 GAATATTATT
*
56577606 GGGCTCCG-AGCCTAGCAGGCGTAATGCCGGTGAAATGATATC
1 GGGCTCCGTA-CCTAGCAAGCGTAATGCCGGTGAAATGATATC
* ** * *
56577648 GGACTTAAAGGT--CTAGCAAGCTTTAAT-CTGGTG-AAT-ATTATC
1 GGGC-T--CCGTACCTAGCAAGC-GTAATGCCGGTGAAATGA-TATC
*
56577690 GGGCTCCGTACCTAGCAGGCGTAATGCCGGTGAAATGATATC
1 GGGCTCCGTACCTAGCAAGCGTAATGCCGGTGAAATGATATC
* ** * *
56577732 GGACTTAAAGGT--CTAGCAAGCTTTAA-GCTGGTG-AAT-ATTATC
1 GGGC-T--CCGTACCTAGCAAGC-GTAATGCCGGTGAAATGA-TATC
56577774 GGGCTCCG-AGCCTAGCAAGCGTAATGCCGGTGAAATGATATC
1 GGGCTCCGTA-CCTAGCAAGCGTAATGCCGGTGAAATGATATC
56577816 GG
1 GG
56577818 ACTTAAAGGT
Statistics
Matches: 125, Mismatches: 23, Indels: 44
0.65 0.12 0.23
Matches are distributed among these distances:
39 3 0.02
40 7 0.06
41 32 0.26
42 42 0.34
43 31 0.25
44 7 0.06
45 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (42 bp):
GGGCTCCGTACCTAGCAAGCGTAATGCCGGTGAAATGATATC
Found at i:56582422 original size:42 final size:42
Alignment explanation
Indices: 56582375--56582526 Score: 166
Period size: 42 Copynumber: 3.6 Consensus size: 42
56582365 AATCATACCA
* ** *
56582375 ATGCCATATCCCAAATATGGTCTTACATGGGATCTCATTTCG
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
* * *
56582417 ATGCCA-ATACCCAGCTATGGTCTTACA-CAATTCTCATATCG
1 ATGCCATAT-CCCAGATATGGTCTTACATGAAATCTCATATCG
* * * *
56582458 ATGCCATGTCCTAGACATGGTCCTACATGAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCAT-ATCG
56582500 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
56582527 CGTAAACTCA
Statistics
Matches: 88, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 31 0.35
42 55 0.62
43 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAATCTCATATCG
Found at i:56585218 original size:23 final size:23
Alignment explanation
Indices: 56585192--56585449 Score: 171
Period size: 23 Copynumber: 10.7 Consensus size: 23
56585182 CAAAGTGCCA
* * *
56585192 CACTGTAATATAGCCTAAGCTAT
1 CACTGTAATGTAGCCGAAGCTAC
* *
56585215 CACTGTAACGTAGTCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
56585238 CACTGTATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
56585261 CACT-AAGATGTAGCCGAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* *
56585284 CGCTGTATTGTAGCCGAAGCTCAGTGCTAC
1 CACTGTAATGTAGCCG-A----A--GCTAC
* * *
56585314 CACTATATTGTAGCTGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
56585337 CACTG-AGATGTAGCCAAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* * *
56585360 CACTATATTGTACCCGAAGCTACC
1 CACTGTAATGTAGCCGAAGCTA-C
* *
56585384 ACTACTACTGAGATGTAGCCAAAGCTAC
1 -C-ACT-GT-A-ATGTAGCCGAAGCTAC
* *
56585412 CACTATATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
56585435 CACTG-AGATGTAGCC
1 CACTGTA-ATGTAGCC
56585450 TATAGATTCC
Statistics
Matches: 184, Mismatches: 33, Indels: 36
0.73 0.13 0.14
Matches are distributed among these distances:
22 3 0.02
23 131 0.71
24 5 0.03
25 3 0.02
26 6 0.03
27 2 0.01
28 3 0.02
29 13 0.07
30 18 0.10
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGTAATGTAGCCGAAGCTAC
Found at i:56585359 original size:76 final size:76
Alignment explanation
Indices: 56585233--56585438 Score: 238
Period size: 76 Copynumber: 2.7 Consensus size: 76
56585223 CGTAGTCGAA
* * * * *
56585233 GCTACCACTGTATTGTAGCCGAAGCTACCACTAAGATGTAGCCGAAGCTACCGCTGTATTGTAGC
1 GCTACCACTATATTGTAGCCGAAGCTACCACTAAGATGTAGCCAAAGCTACCACTATATTGTACC
56585298 CGAAGCTCAGT
66 CGAAGCTCAGT
* *
56585309 GCTACCACTATATTGTAGCTGAAGCTACCACTGAGATGTAGCCAAAGCTACCACTATATTGTACC
1 GCTACCACTATATTGTAGCCGAAGCTACCACTAAGATGTAGCCAAAGCTACCACTATATTGTACC
**
56585374 CGAAGCT-ACC
66 CGAAGCTCAGT
* * * * * *
56585384 ACTACTACTGAGA-TGTAGCCAAAGCTACCACTATA-TTGTAGCCGAAGCTACCACT
1 GCTACCACT-ATATTGTAGCCGAAGCTACCACTA-AGATGTAGCCAAAGCTACCACT
56585439 GAGATGTAGC
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
75 43 0.39
76 68 0.61
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (76 bp):
GCTACCACTATATTGTAGCCGAAGCTACCACTAAGATGTAGCCAAAGCTACCACTATATTGTACC
CGAAGCTCAGT
Found at i:56585379 original size:46 final size:46
Alignment explanation
Indices: 56585309--56585449 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 46
56585299 GAAGCTCAGT
*
56585309 GCTACCACTATATTGTAGCTGAAGCTACCACTGAGATGTAGCCAAA
1 GCTACCACTATATTGTAGCCGAAGCTACCACTGAGATGTAGCCAAA
*
56585355 GCTACCACTATATTGTACCCGAAGCTACCACTACTACTGAGATGTAGCCAAA
1 GCTACCACTATATTGTAGCCGAAGCT---AC--C-ACTGAGATGTAGCCAAA
56585407 GCTACCACTATATTGTAGCCGAAGCTACCACTGAGATGTAGCC
1 GCTACCACTATATTGTAGCCGAAGCTACCACTGAGATGTAGCC
56585450 TATAGATTCC
Statistics
Matches: 86, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
46 38 0.44
47 1 0.01
49 4 0.05
51 1 0.01
52 42 0.49
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (46 bp):
GCTACCACTATATTGTAGCCGAAGCTACCACTGAGATGTAGCCAAA
Found at i:56585400 original size:29 final size:29
Alignment explanation
Indices: 56585333--56585416 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 29
56585323 GTAGCTGAAG
*
56585333 CTACCACTGAGATGTAGCCAAAGCTACCA
1 CTACTACTGAGATGTAGCCAAAGCTACCA
* *
56585362 CTA-TA-T----TGTACCCGAAGCTACCA
1 CTACTACTGAGATGTAGCCAAAGCTACCA
56585385 CTACTACTGAGATGTAGCCAAAGCTACCA
1 CTACTACTGAGATGTAGCCAAAGCTACCA
56585414 CTA
1 CTA
56585417 TATTGTAGCC
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
23 18 0.41
24 2 0.05
25 1 0.02
27 1 0.02
28 1 0.02
29 21 0.48
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.21
Consensus pattern (29 bp):
CTACTACTGAGATGTAGCCAAAGCTACCA
Found at i:56585951 original size:29 final size:29
Alignment explanation
Indices: 56585914--56585970 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
56585904 CATATCAAAT
* * *
56585914 TTTTGAAAATTTACAATTTTGCCCCTAAC
1 TTTTCAAAAATTACAATTTTACCCCTAAC
*
56585943 TTTTCAAAAATTACACTTTTACCCCTAA
1 TTTTCAAAAATTACAATTTTACCCCTAA
56585971 GCTCGTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (29 bp):
TTTTCAAAAATTACAATTTTACCCCTAAC
Found at i:56589945 original size:46 final size:47
Alignment explanation
Indices: 56589796--56590018 Score: 169
Period size: 46 Copynumber: 4.7 Consensus size: 47
56589786 GTTGTTGTTG
* *
56589796 GCTAGTGTAAGACATGTC-AGGGACATGCATCGGCC---ACATTATGAGA
1 GCTAGTGTAAGACATGTCTA-GGACATGCATCGGCCTTGAGATCAT-A-A
* * *** *
56589842 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGATATTTGAGA-CGA-GA
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCG-GCCTTGAGATC-ATAA
56589891 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTTGAGA-CATAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTTGAGATCATAA
* * * *
56589937 GCTAGTGTAAGACATGTATGGGACATGCATCGG-CTACGAGATGAT-A
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCT-TGAGATCATAA
56589983 G-TCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 GCT-AGTGTAAGA-CATGTCTAGGACAT-GCATCGGC
56590019 ACCTTACCCA
Statistics
Matches: 142, Mismatches: 20, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
45 4 0.03
46 66 0.46
47 31 0.22
48 25 0.18
49 13 0.09
52 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTTGAGATCATAA
Found at i:56591603 original size:20 final size:20
Alignment explanation
Indices: 56591578--56591620 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
56591568 TTCCAACCAT
*
56591578 ATCCTTTACTGTAAATTCAA
1 ATCCTTTACCGTAAATTCAA
56591598 ATCCTTTACCGTAAATTCAA
1 ATCCTTTACCGTAAATTCAA
56591618 ATC
1 ATC
56591621 ATTTTGAGTC
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:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (20 bp):
ATCCTTTACCGTAAATTCAA
Found at i:56595234 original size:20 final size:20
Alignment explanation
Indices: 56595186--56595234 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
56595176 ACTTCACACG
*
56595186 CCCTGGGCACATGCCCATGT
1 CCCTGGGCCCATGCCCATGT
*
56595206 CCCTAGGCCCATGCCCATGT
1 CCCTGGGCCCATGCCCATGT
*
56595226 CCTTGGGCC
1 CCCTGGGCC
56595235 GTGTCTTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.12, C:0.43, G:0.24, T:0.20
Consensus pattern (20 bp):
CCCTGGGCCCATGCCCATGT
Found at i:56598027 original size:2 final size:2
Alignment explanation
Indices: 56598020--56598049 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
56598010 CAATGGAATG
56598020 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56598050 CATAAGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56599455 original size:31 final size:31
Alignment explanation
Indices: 56599417--56599480 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
56599407 AAACTTAGTC
**
56599417 CATAGGCCACCTTAATTTGATATACATGTTA
1 CATAGGCCACCCCAATTTGATATACATGTTA
56599448 CATAGGCCACCCCAATTTGATATACATGTTA
1 CATAGGCCACCCCAATTTGATATACATGTTA
56599479 CA
1 CA
56599481 ACAGAAAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.31
Consensus pattern (31 bp):
CATAGGCCACCCCAATTTGATATACATGTTA
Found at i:56605887 original size:53 final size:54
Alignment explanation
Indices: 56605706--56605912 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 54
56605696 ATTAGGGTTT
* * * *
56605706 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAATAAGGC
* * * ** * * *
56605760 AAGGAAATCATGTAAGACCCTGTTAAGACATGGCATTGATAAACTACAATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGT-AAGTTCAATAAGGC
* * * * *
56605815 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAATAAGGC
* * *
56605868 AAGGATACCACGTAAGACCATGTCAAGACATGGCAGTGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
56605913 TAAAAAGTAA
Statistics
Matches: 120, Mismatches: 32, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 45 0.38
54 35 0.29
55 40 0.33
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.20
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAATAAGGC
Found at i:56613569 original size:40 final size:40
Alignment explanation
Indices: 56613442--56613603 Score: 141
Period size: 40 Copynumber: 4.0 Consensus size: 40
56613432 TTCGAATGAT
* * *
56613442 ATCCGGGCTAAG-TCCCGAAGGCTTT-GTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCTTTCGTGC-GAGTTACTAA
* * *
56613482 ATCCGGACTAAGATTCGACGGCATACGTGCGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGC-T---TTCGTGCGAGTTACTAA
* *
56613526 ATCCGGACTAAGATCCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCTTTCGTGCGAGTTACTAA
** *
56613566 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCTTTCGTGCGAGTTACT
56613604 GTAACCGGGC
Statistics
Matches: 99, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
39 1 0.01
40 62 0.63
41 2 0.02
43 1 0.01
44 29 0.29
45 4 0.04
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCTTTCGTGCGAGTTACTAA
Found at i:56613612 original size:40 final size:40
Alignment explanation
Indices: 56613514--56613630 Score: 130
Period size: 40 Copynumber: 2.9 Consensus size: 40
56613504 ATACGTGCGT
* * *
56613514 GCGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCTTTCGA
1 GCGAGCTACTAAATCCGGGCTAAG-TCCCGAAGGCATTCGA
* *
56613554 GCGAGCTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGT
1 GCGAGCTACTAAATCCGGGCTAAGTCCCGAAGGCATTCGA
* * *
56613594 GCGAGTTACTGTAA-CCGGGCTATGTCCCGAAGGCATT
1 GCGAGCTACT-AAATCCGGGCTAAGTCCCGAAGGCATT
56613631 TGAATGTGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.02
40 63 0.95
41 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
GCGAGCTACTAAATCCGGGCTAAGTCCCGAAGGCATTCGA
Found at i:56616387 original size:80 final size:80
Alignment explanation
Indices: 56616303--56616451 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
56616293 TATGGTAACC
* * * *
56616303 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
56616367 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
56616383 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
56616448 CCGG
66 CCGG
56616452 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:56616393 original size:40 final size:38
Alignment explanation
Indices: 56616344--56616451 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
56616334 ATCACGATTT
*
56616344 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
56616384 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
56616424 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
56616452 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:56624504 original size:80 final size:80
Alignment explanation
Indices: 56624420--56624568 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
56624410 TATGGTAACC
* * * *
56624420 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
56624484 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
56624500 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
56624565 CCGG
66 CCGG
56624569 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:56624510 original size:40 final size:38
Alignment explanation
Indices: 56624461--56624568 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
56624451 ATCACGATTT
*
56624461 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
56624501 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
56624541 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
56624569 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:56628016 original size:54 final size:53
Alignment explanation
Indices: 56627888--56628018 Score: 140
Period size: 54 Copynumber: 2.4 Consensus size: 53
56627878 GGATACCAAG
* * * *
56627888 TAAGACCATGCCAAGGCATGACATTGATAAGTTCTACAAGGCAAGGAAATCATG
1 TAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAA-GAAATCATA
* * *
56627942 TAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC-A-AAATCCCATA
1 TAAGACCATGCCAAGGCATGGCATTGAT-AACTACTACAAGGCAAGAAAT--CATA
*
56627996 TAAGACCATGCCGAGGCATGGCA
1 TAAGACCATGCCAAGGCATGGCA
56628019 ATGGTGAGTT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
52 4 0.06
54 49 0.77
55 11 0.17
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (53 bp):
TAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAGAAATCATA
Found at i:56631016 original size:49 final size:50
Alignment explanation
Indices: 56630936--56631181 Score: 282
Period size: 49 Copynumber: 4.9 Consensus size: 50
56630926 ATCTATTGTG
* **
56630936 AGGTCA-AGTGTGTAGTACTAAGGGCAAGCTACTACGTGTATTAGATAATT
1 AGGTCACA-TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATT
* * * * *
56630986 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAA-TT
* * * * * **
56631036 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATT
* *
56631086 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATT
* *
56631136 -GGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATA
56631182 GCTTTGGCTA
Statistics
Matches: 165, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
49 79 0.48
50 48 0.29
51 38 0.23
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATT
Found at i:56631073 original size:28 final size:28
Alignment explanation
Indices: 56631041--56631124 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
56631031 AACTTCGATC
56631041 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
56631069 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
*
56631091 ACGTGTGTAGTACTAAGTGCAAGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
56631119 ACGTGT
1 ACGTGT
56631125 ACCGGATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.20
23 2 0.05
24 3 0.07
25 5 0.12
26 3 0.07
27 2 0.05
28 14 0.34
29 2 0.05
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:56631127 original size:101 final size:98
Alignment explanation
Indices: 56630943--56631168 Score: 308
Period size: 101 Copynumber: 2.3 Consensus size: 98
56630933 GTGAGGTCAA
* * *
56630943 GTGTGTAGTACTAAGGGCAAGCTACTACGTGTATTAGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATAATTGGTCACATGTGTAGTACTAAGT
* *
56631008 GCAGGCTACTATGCGTACCCGATAACTTCGATCAC
66 GCAAGCTACTACGCGTACCCGATAA-TT-GATCAC
* ** *
56631043 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATAATT-GGTCACATGTGTAGTACTAAG
* * *
56631108 TGCAAGCTACTACGTGTACCGGATAATTGGTCAC
65 TGCAAGCTACTACGCGTACCCGATAATTGATCAC
*
56631142 ATGTGTAGTACTAAGTGCAAGCTACTA
1 GTGTGTAGTACTAAGTGCAAGCTACTA
56631169 TGCGTACCAG
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
99 30 0.27
100 40 0.36
101 41 0.37
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (98 bp):
GTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATAATTGGTCACATGTGTAGTACTAAGT
GCAAGCTACTACGCGTACCCGATAATTGATCAC
Found at i:56635705 original size:48 final size:48
Alignment explanation
Indices: 56635634--56635952 Score: 335
Period size: 48 Copynumber: 6.6 Consensus size: 48
56635624 TATGTACGCC
56635634 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCT
* *
56635682 AGTGTAAGACCATGTCTGGGACATGGCATC-AGTCACATTATGAGAGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CCACATTATGAGAGCT
* **** * *
56635730 AGTGTAAGACCATGTTTGGGACATGGCATCAGAATTGA-TATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACCACATTATGAGAGCT
* * *
56635778 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCT
*
56635826 AGTGTAAGACCATGTCTGGGACATGGCATTGA--A-ATTGA-GACGAGATCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATT-ATGA-GAG--CT
* * * * * ** * *
56635874 AGAGTAAAACCATGTCTAGGACATGGCATCGGCCTCAACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCT
*
56635922 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
56635953 GCAAATTACC
Statistics
Matches: 223, Mismatches: 36, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
45 5 0.02
46 5 0.02
47 3 0.01
48 202 0.91
49 1 0.00
50 5 0.02
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCT
Found at i:56635798 original size:96 final size:95
Alignment explanation
Indices: 56635631--56635952 Score: 410
Period size: 96 Copynumber: 3.4 Consensus size: 95
56635621 TGATATGTAC
****
56635631 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGAATTGA-TATGAGAGCTAGTGTAAGACCATG
* *
56635696 TCTGGGACATGGCATCAGTCACATTATGAGA
65 TCTGGGACATGGCATCGGCCACATTATGAGA
* * * *
56635727 GCAAGTGTAAGACCATGTTTGGGACATGGCATCAGAATTGATATGTGCGCTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GAATTGATATGAGAGCTAGTGTAAGACCATG
*
56635792 TCTGGGACATGGCATCGGCCATATTATGAGA
65 TCTGGGACATGGCATCGGCCACATTATGAGA
* * * * * *
56635823 GCCAGTGTAAGACCATGTCTGGGACATGGCATTGAAATTGAGACGAGATCTAGAGTAAAACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG-AATTGATATGAGAGCTAGTGTAAGACCATG
* * ** *
56635888 TCTAGGACATGGCATCGGCCTCAACATGTGA
65 TCTGGGACATGGCATCGGCCACATTATGAGA
*
56635919 GCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
56635953 GCAAATTACC
Statistics
Matches: 195, Mismatches: 29, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
95 1 0.01
96 191 0.98
97 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (95 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGAATTGATATGAGAGCTAGTGTAAGACCATGT
CTGGGACATGGCATCGGCCACATTATGAGA
Found at i:56635886 original size:144 final size:142
Alignment explanation
Indices: 56635621--56635954 Score: 420
Period size: 144 Copynumber: 2.3 Consensus size: 142
56635611 GACATCTGGG
* * *
56635621 TGATATGTACGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCTAGTG
1 TGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
* * * * *
56635686 TAAGACCATGTCTGGGACATGGCATCAGTCACATTATGAGAGCAAGTGTAAGACCATGTTTGGGA
66 TAAGACCATGTCTGGGACATGGCAT-A-TCAAATTATGAGAGCAAGAGTAAAACCATGTCTAGGA
56635751 CATGGCATCAGAAT
129 CATGGCATCAGAAT
* *
56635765 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCAGTG
1 TGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
* *
56635830 TAAGACCATGTCTGGGACATGGCAT-TGAAATTGA-GACGAGATCTAGAGTAAAACCATGTCTAG
66 TAAGACCATGTCTGGGACATGGCATATCAAATT-ATGA-GAG--CAAGAGTAAAACCATGTCTAG
* **
56635893 GACATGGCATCGGCCT
127 GACATGGCATCAGAAT
** * * *
56635909 CAACATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGC
1 TGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
56635955 AAATTACCCT
Statistics
Matches: 165, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
141 7 0.04
142 4 0.02
144 154 0.93
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (142 bp):
TGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
TAAGACCATGTCTGGGACATGGCATATCAAATTATGAGAGCAAGAGTAAAACCATGTCTAGGACA
TGGCATCAGAAT
Found at i:56643566 original size:29 final size:27
Alignment explanation
Indices: 56643534--56643588 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
56643524 CTAGATTACT
56643534 CCTCAATC-CCACAAAACACTCCCACTACC
1 CCTCAATCTCC-CAAAACA--CCCACTACC
56643563 CCTCAATCTCCCAAAACACCCACTAC
1 CCTCAATCTCCCAAAACACCCACTAC
56643589 TTCCACCATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 8 0.32
29 15 0.60
30 2 0.08
ACGTcount: A:0.35, C:0.51, G:0.00, T:0.15
Consensus pattern (27 bp):
CCTCAATCTCCCAAAACACCCACTACC
Found at i:56644900 original size:28 final size:28
Alignment explanation
Indices: 56644852--56644926 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
56644842 TGGCCCCTTT
*
56644852 AGGCCTAATCTCATTCATATGGCCCAT-
1 AGGCCTAATCACATTCATATGGCCCATC
* *
56644879 TGGCCTTAATCACATTCGTATGGCCCATC
1 AGGCC-TAATCACATTCATATGGCCCATC
*
56644908 AGGCCCAATCACATTCATA
1 AGGCCTAATCACATTCATA
56644927 GTCATGCAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 4 0.10
28 32 0.80
29 4 0.10
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.28
Consensus pattern (28 bp):
AGGCCTAATCACATTCATATGGCCCATC
Found at i:56652313 original size:29 final size:29
Alignment explanation
Indices: 56652178--56652312 Score: 216
Period size: 29 Copynumber: 4.7 Consensus size: 29
56652168 GCTTGGAAGG
56652178 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
56652207 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
56652236 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
56652265 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
56652294 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
56652313 GATCGTTTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:56655823 original size:19 final size:20
Alignment explanation
Indices: 56655799--56655839 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
56655789 CCCCTTATTA
56655799 AACATAAACAAA-T-AAAATG
1 AACATAAA-AAATTAAAAATG
56655818 AACATAAAAAATTAAAAATG
1 AACATAAAAAATTAAAAATG
56655838 AA
1 AA
56655840 ATTAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 3 0.15
19 9 0.45
20 8 0.40
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (20 bp):
AACATAAAAAATTAAAAATG
Found at i:56657530 original size:42 final size:44
Alignment explanation
Indices: 56657410--56657556 Score: 137
Period size: 44 Copynumber: 3.4 Consensus size: 44
56657400 AGTGTTATCA
* *
56657410 TGTAAGACTATGTCTGGGAC-GTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGA-TATTTGATTTACG
* *
56657454 TGTAAGACCATGTCTGGGACA-TCGACATTG-TATTTGATTT-CG
1 TGTAAGACCATGTCTGGGACAGT-GGCATCGATATTTGATTTACG
* * *
56657496 TGTAA-ACCCTGTCTGGGACAGTGGCATCGATATTTGA-CTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTACG
**
56657538 TGTAAGACCACATCTGGGA
1 TGTAAGACCATGTCTGGGA
56657557 TGTTGGCATT
Statistics
Matches: 84, Mismatches: 12, Indels: 15
0.76 0.11 0.14
Matches are distributed among these distances:
41 20 0.24
42 22 0.26
43 18 0.21
44 24 0.29
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTACG
Found at i:56660208 original size:40 final size:40
Alignment explanation
Indices: 56660146--56660362 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
56660136 AAGCCAAGTA
* * * *
56660146 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
56660185 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56660225 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56660265 CCTT-GGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
56660304 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
56660344 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56660363 TTATCATCCA
Statistics
Matches: 166, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 52 0.31
40 114 0.69
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56660284 original size:79 final size:79
Alignment explanation
Indices: 56660146--56660362 Score: 323
Period size: 79 Copynumber: 2.7 Consensus size: 79
56660136 AAGCCAAGTA
* * * * *
56660146 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
56660210 TAACTCGCACCAATG
65 TAACTCGCACAAATG
56660225 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTT-GGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
56660289 TAACTCGCACAAATG
65 TAACTCGCACAAATG
56660304 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
56660363 TTATCATCCA
Statistics
Matches: 127, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
78 1 0.01
79 87 0.69
80 39 0.31
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:56668451 original size:39 final size:40
Alignment explanation
Indices: 56668373--56668587 Score: 260
Period size: 39 Copynumber: 5.5 Consensus size: 40
56668363 AAGCCAAGTA
* * * * *
56668373 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGAATATAG-TAACTCGCACAAATG
*
56668412 CCTTCGGGACATAGCCCGAATATAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
* *
56668451 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
* *
56668491 CCTTC-GGACTTAGCCCGGATATAGTAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
* * *
56668530 CCTTCGGGACTTAGCCTAGAA-CTAGTCACTCGCACAAATG
1 CCTTCGGGACTTAGCC-CGAATATAGTAACTCGCACAAATG
56668570 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
56668588 GTTATCATCC
Statistics
Matches: 155, Mismatches: 16, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
39 86 0.55
40 67 0.43
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
Found at i:56668532 original size:79 final size:78
Alignment explanation
Indices: 56668373--56668588 Score: 276
Period size: 79 Copynumber: 2.7 Consensus size: 78
56668363 AAGCCAAGTA
* * * * * *
56668373 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGAATATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
56668437 TAACTCGCACAATG
65 TAACTCGCACAATG
*
56668451 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC-GGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
56668515 TAATTCGCACAAATG
65 TAACTCGCAC-AATG
**
56668530 CCTTCGGGACTTAGCCTAGA-ACTAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
56668589 TTATCATCCA
Statistics
Matches: 121, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
78 40 0.33
79 68 0.56
80 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTCGCACAATG
Found at i:56681086 original size:40 final size:39
Alignment explanation
Indices: 56680933--56681078 Score: 229
Period size: 39 Copynumber: 3.7 Consensus size: 39
56680923 TGATATTAGG
*
56680933 AACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AACATATCCGGACCTGAGGTCCGCAGGCTACGTGCTGGA
*
56680972 AACATATCCGGACCTGAGGTCCACAGGCTACGTGCTGGA
1 AACATATCCGGACCTGAGGTCCGCAGGCTACGTGCTGGA
56681011 AACATATCCGGACCTGAGGTCCGCAGGCTACGTGCTGGA
1 AACATATCCGGACCTGAGGTCCGCAGGCTACGTGCTGGA
* * * *
56681050 AATATATCCGGGCCTAAAGTCCCGCAGGC
1 AACATATCCGGACCTGAGGT-CCGCAGGC
56681079 GTTGTGCTAG
Statistics
Matches: 99, Mismatches: 7, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 91 0.92
40 8 0.08
ACGTcount: A:0.25, C:0.28, G:0.29, T:0.18
Consensus pattern (39 bp):
AACATATCCGGACCTGAGGTCCGCAGGCTACGTGCTGGA
Found at i:56683832 original size:126 final size:125
Alignment explanation
Indices: 56683607--56684003 Score: 456
Period size: 126 Copynumber: 3.0 Consensus size: 125
56683597 TAGGGCGACG
* * *
56683607 CTTTCCTAAGTATTAGGATAGACTTGCCAACATACGCATTGACCAACTCTTTGTATAAGGGTTGG
1 CTTTCCTAAGTATTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGGTTGG
* * *
56683672 AATATGCATGCCTAAGGTAACACTTAAATAAGAGTTGGCTTTGTCTAGTCTTAAGATGACA
66 GATATGTATGCCTAAGG-AACACTTAAATAAGAGTTGGCTTTGTCTAGTCCTAAGATGACA
* *
56683733 CTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACTCTTTGTATAAGGGTTGG
1 CTTTCCTAAGTATTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGGTTGG
56683798 GATATGTATGCCTAAGGCAATC-CTTAAATAAGAGTTGGCTTTGTCTAGTCCTAAGATGACA
66 GATATGTATGCCTAAGG-AA-CACTTAAATAAGAGTTGGCTTTGTCTAGTCCTAAGATGACA
* * * * *
56683859 CTTTTGGGGCGACACTTTCTTACGTATTGGGATAGATTTGCTAACATATGCTTTTGCCAACTCTT
1 C-TTT---------C---C-TAAGTATTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTT
* * *
56683924 TGTATAAGGGTTGGGATATGTATGCTTAAGGAA-ACTATTAAATAAGATTTGGATTTTGTCTAGT
52 TGTATAAGGGTTGGGATATGTATGCCTAAGGAACAC--TTAAATAAGAGTTGG-CTTTGTCTAGT
56683988 CCTAAGATGACA
114 CCTAAGATGACA
56684000 CTTT
1 CTTT
56684004 TGGGGAGACA
Statistics
Matches: 233, Mismatches: 19, Indels: 24
0.84 0.07 0.09
Matches are distributed among these distances:
126 116 0.50
127 4 0.02
136 1 0.00
138 1 0.00
139 3 0.01
140 85 0.36
141 23 0.10
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (125 bp):
CTTTCCTAAGTATTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGGTTGG
GATATGTATGCCTAAGGAACACTTAAATAAGAGTTGGCTTTGTCTAGTCCTAAGATGACA
Found at i:56684046 original size:141 final size:138
Alignment explanation
Indices: 56683729--56684084 Score: 500
Period size: 141 Copynumber: 2.5 Consensus size: 138
56683719 GTCTTAAGAT
* *
56683729 GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACACTTTGGCCAACTCTTTGTATAAGGG
1 GACAC-TTCCTTAGCGTTGGGATAGACTTG-CAACATACACTTTGGCCAACTCTTTGTATAAGGG
* *
56683794 TTGGGATATGTATGCCTAAGGCAATCCTTAAATAAGAGTTGGCTTTGTCTAGTCCTAAGATGACA
64 TTGGGATATGTATGCCTAAGGAAATCATTAAATAAGAGTTGGCTTTGTCTAGTCCTAAGATGACA
*
56683859 CTTTTGGGGC
129 CTTTTGGGGA
* * ** *
56683869 GACACTTTCTTA-CGTATTGGGATAGATTTGCTAACATATGCTTTTGCCAACTCTTTGTATAAGG
1 GACACTTCCTTAGCG--TTGGGATAGACTTGC-AACATACACTTTGGCCAACTCTTTGTATAAGG
* * *
56683933 GTTGGGATATGTATGCTTAAGGAAA-CTATTAAATAAGATTTGGATTTTGTCTAGTCCTAAGATG
63 GTTGGGATATGTATGCCTAAGGAAATC-ATTAAATAAGAGTTGG-CTTTGTCTAGTCCTAAGATG
56683997 ACACTTTTGGGGA
126 ACACTTTTGGGGA
56684010 GACACTTGCCTTAGCGTTGGGATAGACTTGTCAACATACACTTTGGCCAACTCTTTGTATAAGGG
1 GACACTT-CCTTAGCGTTGGGATAGACTTG-CAACATACACTTTGGCCAACTCTTTGTATAAGGG
56684075 TTGGGATATG
64 TTGGGATATG
56684085 CATAAAATAG
Statistics
Matches: 190, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
138 1 0.01
139 7 0.04
140 84 0.44
141 91 0.48
142 5 0.03
143 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.34
Consensus pattern (138 bp):
GACACTTCCTTAGCGTTGGGATAGACTTGCAACATACACTTTGGCCAACTCTTTGTATAAGGGTT
GGGATATGTATGCCTAAGGAAATCATTAAATAAGAGTTGGCTTTGTCTAGTCCTAAGATGACACT
TTTGGGGA
Found at i:56686439 original size:28 final size:29
Alignment explanation
Indices: 56686326--56686440 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
56686316 GTGAGTAAGA
* * *
56686326 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
* *
56686354 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
* *
56686383 ATAT-ATAGATGATTTGGGCCTAATAGGCC
1 ATATGA-ATATGATTTGGGCCTAATGGGCC
*
56686412 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
56686440 A
1 A
56686441 GATACAGGTA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 27 0.36
29 47 0.63
30 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (29 bp):
ATATGAATATGATTTGGGCCTAATGGGCC
Found at i:56693515 original size:37 final size:37
Alignment explanation
Indices: 56693436--56693543 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
56693426 AGCTCAGACG
* *
56693436 AAATCTCCACACGAAGTTATCGGGTCTTA-CCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
56693472 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
56693509 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
56693544 ATACATTTCC
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
36 27 0.39
37 42 0.61
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:56693659 original size:48 final size:48
Alignment explanation
Indices: 56693588--56694549 Score: 1548
Period size: 48 Copynumber: 20.0 Consensus size: 48
56693578 TGTTACAACA
* * * *
56693588 TTCACATTAGCCATCCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
56693636 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
56693684 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
56693732 CTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56693780 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56693828 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
56693876 TTCACATTTGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56693924 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
56693972 TTCACATTAGCGATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
56694020 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56694068 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56694116 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
56694164 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
56694212 TTCACATTCGCCATTCGGTTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
56694260 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
56694308 TTCACATTCA-CCATTCGGCTTTACCACATATTCATGTCACACATATAT
1 TTCACATT-AGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
56694356 TTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * * *
56694404 TTCACATTCGCCATTCGACTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
56694452 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
56694500 TTCTCATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56694548 TT
1 TT
56694550 ATCTTGTACT
Statistics
Matches: 851, Mismatches: 61, Indels: 4
0.93 0.07 0.00
Matches are distributed among these distances:
47 1 0.00
48 849 1.00
49 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:56696186 original size:28 final size:28
Alignment explanation
Indices: 56696140--56696208 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
56696130 TTTAAAACCC
*
56696140 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
56696167 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
56696195 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
56696209 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:56698058 original size:19 final size:18
Alignment explanation
Indices: 56698021--56698064 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
56698011 ATACATACAG
56698021 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
56698038 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
56698057 TACTAATT
1 TAATAATT
56698065 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:56700361 original size:28 final size:28
Alignment explanation
Indices: 56700296--56700396 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56700286 ATAGTGAATC
*
56700296 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
56700325 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56700353 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
56700383 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56700397 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56703608 original size:28 final size:28
Alignment explanation
Indices: 56703562--56703630 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
56703552 TTTAAAACCC
*
56703562 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
56703589 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
56703617 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
56703631 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:56705472 original size:19 final size:18
Alignment explanation
Indices: 56705435--56705478 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
56705425 ATACATACAG
56705435 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
56705452 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
56705471 TACTAATT
1 TAATAATT
56705479 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:56707775 original size:28 final size:28
Alignment explanation
Indices: 56707710--56707810 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56707700 ATAGTGAATC
*
56707710 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
56707739 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
56707767 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
56707797 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56707811 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56711025 original size:28 final size:28
Alignment explanation
Indices: 56710979--56711047 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
56710969 TTTAAAACCC
*
56710979 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
56711006 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
56711034 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
56711048 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:56712892 original size:19 final size:18
Alignment explanation
Indices: 56712855--56712898 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
56712845 ATACATACAG
56712855 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
56712872 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
56712891 TACTAATT
1 TAATAATT
56712899 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:56714808 original size:5 final size:5
Alignment explanation
Indices: 56714798--56714824 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
56714788 GATAACCTTT
56714798 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
56714825 GTTTCCTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:56716285 original size:40 final size:40
Alignment explanation
Indices: 56716233--56716464 Score: 365
Period size: 40 Copynumber: 5.8 Consensus size: 40
56716223 CCAGCATGAT
* * * *
56716233 TGCTCTTTGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
56716273 TGCTCTTCGGGACTTAGTCTGGTTACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
56716313 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
56716353 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
56716393 TGCTCTTCGGGATTTAGTCTGGTTACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
56716433 TGCTCTTCGGAACTTAGTCCGGATACATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
56716465 CTCAATTCTC
Statistics
Matches: 176, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 176 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:56716446 original size:120 final size:120
Alignment explanation
Indices: 56716233--56716464 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
56716223 CCAGCATGAT
* *
56716233 TGCTCTTTGGGACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTCTGGTTA
1 TGCTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTCTGGTTA
56716298 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * *
56716353 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGTCTGGTTA
1 TGCTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTCTGGTTA
56716418 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACT
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACT
56716465 CTCAATTCTC
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 107 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (120 bp):
TGCTCTTCGGAACCTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTCTGGTTA
CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:56717810 original size:37 final size:37
Alignment explanation
Indices: 56717731--56717838 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
56717721 AGCTCAGACG
* *
56717731 AAATCTCCACACGAAGTTATCGGGTCTTA-CCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
56717767 AAATCTCCACACGTAGTCATCGAGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
56717804 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
56717839 ATACATTTCC
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 26 0.39
37 41 0.61
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:56717941 original size:48 final size:48
Alignment explanation
Indices: 56717883--56718889 Score: 1714
Period size: 48 Copynumber: 21.0 Consensus size: 48
56717873 TGTTACAACA
56717883 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
56717931 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
56717979 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56718027 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56718075 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
56718123 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
56718171 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
56718219 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
56718267 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
56718315 TTCACATT-GCCATTCGGCTTTACCACATATACATATCACACATATAA
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56718362 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56718410 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
56718458 TTCACATTAGCCA-TCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
56718505 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
56718553 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
56718601 TTCACATTCGCCATTCGGC-TTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56718648 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
56718696 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
56718744 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
56718792 TTCACATTTGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
56718840 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
56718888 TT
1 TT
56718890 ATCTTGTACT
Statistics
Matches: 905, Mismatches: 51, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
47 129 0.14
48 776 0.86
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:56721615 original size:99 final size:96
Alignment explanation
Indices: 56721456--56721678 Score: 255
Period size: 99 Copynumber: 2.3 Consensus size: 96
56721446 CCTCGAGACA
* * * *
56721456 TAAGCCAGTGTAAG-GCATGTCTAGGACAT-GCATC-GACT--ATGA-GATGTGTCAGTGTAAGA
1 TAAGCCAGTGTAAGACCATGTCTAGGACATGGCGTCAGCCTCAATGACGAT-AGTCAGTGTAAGA
56721515 CCAT-GTCTGAGACATGGCATCGAC-ACAGATAT
65 CCATAG-CTGAGACATGGCATCGACTACAGAT-T
* *
56721547 GTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATGACGATAGTCAGTGTAA
1 -T-A-AGCCAGTGTAAGACCATGTCTAGGACATGGCGTCAGCCTCAATGACGATAGTCAGTGTAA
* **
56721612 GACCATAGCTGGGACATGGCATCGACTTGAGATT
63 GACCATAGCTGAGACATGGCATCGACTACAGATT
56721646 TAAGCCAGTGTAAGACCATGTCTAGGACATGGC
1 TAAGCCAGTGTAAGACCATGTCTAGGACATGGC
56721679 ATCGGCATTC
Statistics
Matches: 110, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
92 1 0.01
93 1 0.01
94 11 0.10
95 13 0.12
96 33 0.30
97 4 0.04
98 1 0.01
99 38 0.35
100 8 0.07
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (96 bp):
TAAGCCAGTGTAAGACCATGTCTAGGACATGGCGTCAGCCTCAATGACGATAGTCAGTGTAAGAC
CATAGCTGAGACATGGCATCGACTACAGATT
Found at i:56728740 original size:39 final size:40
Alignment explanation
Indices: 56728625--56728762 Score: 163
Period size: 39 Copynumber: 3.5 Consensus size: 40
56728615 TCGTTCAAAC
* * ** * **
56728625 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
* * * *
56728665 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
56728705 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
56728744 GCCTTCGGG-CTTAGCCCGG
1 GCCTTCGGGACTTAGCCCGG
56728763 CACAATTGCC
Statistics
Matches: 83, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 45 0.54
40 38 0.46
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.23
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
Found at i:56728772 original size:26 final size:26
Alignment explanation
Indices: 56728736--56728788 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
56728726 ATCATAACTC
56728736 GCACAATTGCCTTCGGGCTTAGCCCG
1 GCACAATTGCCTTCGGGCTTAGCCCG
56728762 GCACAATTGCCTTCGGGCTTAGCCCG
1 GCACAATTGCCTTCGGGCTTAGCCCG
56728788 G
1 G
56728789 ATATCACTCG
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:0.15, C:0.34, G:0.28, T:0.23
Consensus pattern (26 bp):
GCACAATTGCCTTCGGGCTTAGCCCG
Found at i:56736744 original size:39 final size:40
Alignment explanation
Indices: 56736629--56736772 Score: 175
Period size: 39 Copynumber: 3.6 Consensus size: 40
56736619 TCGTTCAAAC
* * ** * **
56736629 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
* * * *
56736669 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
56736709 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
56736748 GCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGACTTAGCCCGGATATCA
56736773 CTCGAACATT
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 51 0.57
40 38 0.43
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
Found at i:56742044 original size:9 final size:9
Alignment explanation
Indices: 56742032--56742091 Score: 59
Period size: 9 Copynumber: 6.4 Consensus size: 9
56742022 AATTTAAAAC
56742032 GAGAGTTGA
1 GAGAGTTGA
*
56742041 GAGACTTGA
1 GAGAGTTGA
56742050 GA-AGGTTTGA
1 GAGA-G-TTGA
56742060 GAGAGTTTGA
1 GAGAG-TTGA
*
56742070 GAGAATTGA
1 GAGAGTTGA
*
56742079 GAAAGTTGA
1 GAGAGTTGA
56742088 GAGA
1 GAGA
56742092 AGGATGCGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
8 1 0.02
9 24 0.57
10 16 0.38
11 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.38, T:0.23
Consensus pattern (9 bp):
GAGAGTTGA
Found at i:56742072 original size:29 final size:27
Alignment explanation
Indices: 56742032--56742091 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 27
56742022 AATTTAAAAC
* *
56742032 GAGAGTTGAGAGACTTGAGAAGGTTTGA
1 GAGAGTTGAGAGAATTGAGAAAG-TTGA
56742060 GAGAGTTTGAGAGAATTGAGAAAGTTGA
1 GAGAG-TTGAGAGAATTGAGAAAGTTGA
56742088 GAGA
1 GAGA
56742092 AGGATGCGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.37, C:0.02, G:0.38, T:0.23
Consensus pattern (27 bp):
GAGAGTTGAGAGAATTGAGAAAGTTGA
Found at i:56758920 original size:28 final size:29
Alignment explanation
Indices: 56758889--56758943 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
56758879 CCAAAATACT
*
56758889 GATAT-CATGGCCCGAAGCCAAATCAGCC
1 GATATGCACGGCCCGAAGCCAAATCAGCC
56758917 GATATGCACGGCCCGAAGCCAAATCAG
1 GATATGCACGGCCCGAAGCCAAATCAG
56758944 TATATCTCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.33, C:0.31, G:0.24, T:0.13
Consensus pattern (29 bp):
GATATGCACGGCCCGAAGCCAAATCAGCC
Found at i:56762525 original size:20 final size:20
Alignment explanation
Indices: 56762512--56762581 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
56762502 TGCATTCTGG
56762512 TGCCTCTGTTTGCACTTCGA
1 TGCCTCTGTTTGCACTTCGA
* *
56762532 TGCCTCTGATCGCACATTCG-
1 TGCCTCTGTTTGCAC-TTCGA
*
56762552 TGCCTCTGTCTGCACTTCGA
1 TGCCTCTGTTTGCACTTCGA
*
56762572 TGCCTTTGTT
1 TGCCTCTGTT
56762582 ATACATCTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.10
20 33 0.80
21 4 0.10
ACGTcount: A:0.10, C:0.31, G:0.20, T:0.39
Consensus pattern (20 bp):
TGCCTCTGTTTGCACTTCGA
Found at i:56765767 original size:21 final size:21
Alignment explanation
Indices: 56765743--56765783 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
56765733 AGTACACAGA
56765743 TAATTCAGAATTCTCTCTTCT
1 TAATTCAGAATTCTCTCTTCT
*
56765764 TAATTTAGAATTCTCTCTTC
1 TAATTCAGAATTCTCTCTTC
56765784 CTCTCTGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.22, G:0.05, T:0.49
Consensus pattern (21 bp):
TAATTCAGAATTCTCTCTTCT
Found at i:56768031 original size:40 final size:39
Alignment explanation
Indices: 56767986--56768115 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
56767976 CGGAACATAA
56767986 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
56768026 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
56768066 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
56768106 CCGGATATAA
1 CCGGATATAA
56768116 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56768130 original size:40 final size:40
Alignment explanation
Indices: 56768002--56768153 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
56767992 ATAACCATGT
* * *
56768002 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
56768042 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
56768082 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
56768122 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
56768154 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:56768136 original size:80 final size:80
Alignment explanation
Indices: 56768002--56768151 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
56767992 ATAACCATGT
*
56768002 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
56768066 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
56768082 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
56768145 CCCGGAT
64 CCCGGAT
56768152 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:56770986 original size:21 final size:21
Alignment explanation
Indices: 56770960--56771002 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
56770950 AGTACACAGA
*
56770960 TAATTCAGAATTCTCTCTTCT
1 TAATTCAAAATTCTCTCTTCT
56770981 TAATTCAAAATTCTCTCTTCT
1 TAATTCAAAATTCTCTCTTCT
56771002 T
1 T
56771003 CTCTGTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.23, G:0.02, T:0.49
Consensus pattern (21 bp):
TAATTCAAAATTCTCTCTTCT
Found at i:56771017 original size:16 final size:17
Alignment explanation
Indices: 56770991--56771022 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
56770981 TAATTCAAAA
56770991 TTCTCTCTTCTTCTCTG
1 TTCTCTCTTCTTCTCTG
56771008 TTCT-TCTTCTTCTCT
1 TTCTCTCTTCTTCTCT
56771023 CTCAATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.00, C:0.34, G:0.03, T:0.62
Consensus pattern (17 bp):
TTCTCTCTTCTTCTCTG
Found at i:56774759 original size:33 final size:33
Alignment explanation
Indices: 56774722--56774788 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
56774712 CCATAAAGCT
56774722 TAAAAAGTCAGTTTAGTATTATTATTAAAGGAA
1 TAAAAAGTCAGTTTAGTATTATTATTAAAGGAA
56774755 TAAAAAGTCAGTTTAGTATTATTATTAAAGGAA
1 TAAAAAGTCAGTTTAGTATTATTATTAAAGGAA
56774788 T
1 T
56774789 CACTTACTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.37
Consensus pattern (33 bp):
TAAAAAGTCAGTTTAGTATTATTATTAAAGGAA
Found at i:56778213 original size:21 final size:21
Alignment explanation
Indices: 56778187--56778227 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
56778177 AGACAAGCGA
* *
56778187 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
56778208 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
56778228 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:56782062 original size:14 final size:14
Alignment explanation
Indices: 56782043--56782070 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56782033 TTTCCCCCAA
56782043 AACTAGACTCATAT
1 AACTAGACTCATAT
56782057 AACTAGACTCATAT
1 AACTAGACTCATAT
56782071 CTCTTCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (14 bp):
AACTAGACTCATAT
Found at i:56785901 original size:15 final size:15
Alignment explanation
Indices: 56785860--56785922 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 15
56785850 GAAAACCAGA
*
56785860 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
* * *
56785875 ACAGAGGAATCCAAG
1 ATAAAGAAATCCAAG
*
56785890 ATAAAGATATCCAAG
1 ATAAAGAAATCCAAG
* *
56785905 GTACAGAAATCCAAG
1 ATAAAGAAATCCAAG
56785920 ATA
1 ATA
56785923 CCATATCATA
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.51, C:0.16, G:0.17, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:56787610 original size:55 final size:55
Alignment explanation
Indices: 56787507--56787611 Score: 122
Period size: 55 Copynumber: 1.9 Consensus size: 55
56787497 CGTGGGCAAC
* **
56787507 ACTGACTTTTGAACACAGCCATGGCACACGCCCATGCTACCTGTCCATGTTCAAT
1 ACTGACTTTGGAACACAGCCATGGCACACGCCCATGCTACCTACCCATGTTCAAT
* * * * *
56787562 ACTGACTTTGGGACACGGCTATGGGACACGCCCGTG-TGACCTACCCATGT
1 ACTGACTTTGGAACACAGCCATGGCACACGCCCATGCT-ACCTACCCATGT
56787612 CCTATACTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
54 1 0.02
55 40 0.98
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (55 bp):
ACTGACTTTGGAACACAGCCATGGCACACGCCCATGCTACCTACCCATGTTCAAT
Found at i:56798153 original size:10 final size:10
Alignment explanation
Indices: 56798134--56798183 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
56798124 TTAAATTCTC
56798134 AAAGATAAAT
1 AAAGATAAAT
56798144 ACAA-ATAAAT
1 A-AAGATAAAT
*
56798154 AAAGATAATT
1 AAAGATAAAT
56798164 AAAGATAAAT
1 AAAGATAAAT
56798174 GAAA-ATAAAT
1 -AAAGATAAAT
56798184 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:56801110 original size:13 final size:13
Alignment explanation
Indices: 56801092--56801116 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56801082 TTAAATTTGA
56801092 TTAAATTATTAAT
1 TTAAATTATTAAT
56801105 TTAAATTATTAA
1 TTAAATTATTAA
56801117 ATATTGATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAAATTATTAAT
Found at i:56805370 original size:22 final size:22
Alignment explanation
Indices: 56805342--56805386 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
56805332 GAAAGAAGAT
56805342 AACATTTTCTTAACCCAACTGG
1 AACATTTTCTTAACCCAACTGG
56805364 AACATTTTCTTAACCCAACTGG
1 AACATTTTCTTAACCCAACTGG
56805386 A
1 A
56805387 GTGCCCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.31
Consensus pattern (22 bp):
AACATTTTCTTAACCCAACTGG
Found at i:56805633 original size:26 final size:26
Alignment explanation
Indices: 56805604--56805655 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
56805594 ATATCACTAG
56805604 CGTGGACTCATATCCTAAAATCATTT
1 CGTGGACTCATATCCTAAAATCATTT
56805630 CGTGGACTCATATCCTAAAATCATTT
1 CGTGGACTCATATCCTAAAATCATTT
56805656 TACATAGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (26 bp):
CGTGGACTCATATCCTAAAATCATTT
Found at i:56823682 original size:41 final size:41
Alignment explanation
Indices: 56823637--56823754 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
56823627 TGAAAGATAA
56823637 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
56823678 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
56823708 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
56823749 ATGTAG
1 ATGTAG
56823755 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:56823693 original size:71 final size:71
Alignment explanation
Indices: 56823605--56823768 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
56823595 GAGATGTATC
56823605 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56823670 AGGACA
66 AGGACA
56823676 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
56823741 AGGACA
66 AGGACA
56823747 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
56823769 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:56826004 original size:48 final size:49
Alignment explanation
Indices: 56825886--56826263 Score: 389
Period size: 48 Copynumber: 7.8 Consensus size: 49
56825876 GGTAAGATGT
* * * *
56825886 CGATGCCATGTGCCAAACATGGTCTTACACTGGCTTTCATATATCG-GTGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGC--TCACATATCGAATGC
* * * * *
56825936 CAATGTCATGTTCCAAACATGGTATTACACTAGCCCACATGTCGAA-GC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAATGC
* * * * * * *
56825984 TGATGTCATGTCCCAAACATGGTCTTACTCTAGCTCTCATAT-AAATAC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAATGC
*
56826032 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCG-AGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAATGC
* * * *
56826080 TGATGCCATG-TCCTAGACATGGTCTTACACTAGCTCTCATATC-AATGT
1 CGATGCCATGTTCC-AAACATGGTCTTACACTAGCTCACATATCGAATGC
* * * * *
56826128 CGATTCTATATTCTAAACATGGTCTTACACTGGCTCACATATCG-A-GAC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAATG-C
* *
56826176 CGATGCCATG-TCCAGACATGGTCTTACACTAGCTCTCATATC-AATGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAATGC
*
56826223 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
56826264 ACCCTCATAT
Statistics
Matches: 266, Mismatches: 51, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
47 46 0.17
48 189 0.71
49 2 0.01
50 29 0.11
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAATGC
Found at i:56826071 original size:96 final size:96
Alignment explanation
Indices: 56825887--56826263 Score: 470
Period size: 96 Copynumber: 3.9 Consensus size: 96
56825877 GTAAGATGTC
* * * ** * *
56825887 GATGCCATGTGCCAAACATGGTCTTACACTGGCTTTCATATATCGGTGCCAATGTCATGTTCCAA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATA--AATGCCGATGCCATGTTCCAA
* * *
56825952 ACATGGTATTACACTAGCCCACATGTCGAAGCT
64 ACATGGTCTTACACTAGCTCACATATCGAAGCT
* * *
56825985 GATGTCATGTCCCAAACATGGTCTTACTCTAGCTCTCATATAAATACCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAAC
*
56826050 ATGGTCTTACACTAGCTCACATATCGAGGCT
66 ATGGTCTTACACTAGCTCACATATCGAAGCT
* * * * * * * *
56826081 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATATCAATGTCGATTCTATATTCTAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAAC
* *
56826146 ATGGTCTTACACTGGCTCACATATCG-AGACC
66 ATGGTCTTACACTAGCTCACATATCGAAG-CT
* *
56826177 GATGCCATGT-CCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAAC
*
56826241 ATGGTCTTACACTGGCTCACATA
66 ATGGTCTTACACTAGCTCACATA
56826264 ACCCTCATAT
Statistics
Matches: 244, Mismatches: 34, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
95 72 0.30
96 135 0.55
98 37 0.15
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCAAAC
ATGGTCTTACACTAGCTCACATATCGAAGCT
Done.