Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 169 of 182
Found at i:51200015 original size:30 final size:30
Alignment explanation
Indices: 51199980--51200040 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
51199970 TGAGAAAACA
51199980 TTGTTGGGCAATATTTTGTATTTTAAAATC
1 TTGTTGGGCAATATTTTGTATTTTAAAATC
51200010 TTGTTGGGCAATATTTTGTATTTTAAAATC
1 TTGTTGGGCAATATTTTGTATTTTAAAATC
51200040 T
1 T
51200041 ATGTATCATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.07, G:0.16, T:0.51
Consensus pattern (30 bp):
TTGTTGGGCAATATTTTGTATTTTAAAATC
Found at i:51200609 original size:28 final size:27
Alignment explanation
Indices: 51200574--51200639 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 27
51200564 ATTTCATATT
51200574 AATAATTAATTAATTTTTTAAAATTTA
1 AATAATTAATTAATTTTTTAAAATTTA
* * *
51200601 AATATATTAAATAATTTTTTTATATTTA
1 AATA-ATTAATTAATTTTTTAAAATTTA
51200629 AA-AATTAATTA
1 AATAATTAATTA
51200640 GAATAATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.21
27 5 0.15
28 22 0.65
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
AATAATTAATTAATTTTTTAAAATTTA
Found at i:51200665 original size:20 final size:20
Alignment explanation
Indices: 51200617--51200666 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
51200607 TTAAATAATT
* *
51200617 TTTTTATATTTAAAAATTAA
1 TTTTTATAATTAAAAAATAA
***
51200637 TTAGAATAATTAAAAAATAA
1 TTTTTATAATTAAAAAATAA
51200657 TTTTTATAAT
1 TTTTTATAAT
51200667 ATTTTAAATT
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
TTTTTATAATTAAAAAATAA
Found at i:51205427 original size:21 final size:19
Alignment explanation
Indices: 51205382--51205427 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
51205372 TATATATGAA
*
51205382 TAAAATATTTTTTAAAACT
1 TAAAATATTTTTTAAAAAT
51205401 TAAAATATTGCTTTTAAAAAT
1 TAAAATATT--TTTTAAAAAT
*
51205422 TGAAAT
1 TAAAAT
51205428 TAAACCTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 9 0.39
21 14 0.61
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (19 bp):
TAAAATATTTTTTAAAAAT
Found at i:51211564 original size:16 final size:17
Alignment explanation
Indices: 51211526--51211569 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
51211516 TGAATTGAGG
51211526 TTTATTTTTTAATTTAA
1 TTTATTTTTTAATTTAA
* *
51211543 TGTATTTTTT-ATTTAT
1 TTTATTTTTTAATTTAA
51211559 TTTATTATTTT
1 TTTATT-TTTT
51211570 TCACATGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTATTTTTTAATTTAA
Found at i:51214206 original size:27 final size:26
Alignment explanation
Indices: 51214176--51214239 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
51214166 CGTCTTTGGC
*
51214176 CTCCTTCGAGTATGTGAGACACATGGT
1 CTCCTTCGAGTATGTAAGAC-CATGGT
*
51214203 CTCC-TCTAAGTATGTAAGACCATGGT
1 CTCCTTC-GAGTATGTAAGACCATGGT
*
51214229 TTCCTTCGAGT
1 CTCCTTCGAGT
51214240 CTGGCGAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
26 14 0.45
27 17 0.55
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (26 bp):
CTCCTTCGAGTATGTAAGACCATGGT
Found at i:51215849 original size:28 final size:29
Alignment explanation
Indices: 51215799--51215869 Score: 99
Period size: 28 Copynumber: 2.4 Consensus size: 29
51215789 CGGAGCATAG
* *
51215799 AAGTGCTATTACAGAACAGAGAGAACACA
1 AAGTGCTAATACAGAACAAAGAGAACACA
*
51215828 AAGTGCTAAT-CAGAACAAAGAGCACACA
1 AAGTGCTAATACAGAACAAAGAGAACACA
51215856 AAGTGCTAAATACA
1 AAGTGCT-AATACA
51215870 CATAGATCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.62
29 12 0.32
30 2 0.05
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.14
Consensus pattern (29 bp):
AAGTGCTAATACAGAACAAAGAGAACACA
Found at i:51219065 original size:29 final size:30
Alignment explanation
Indices: 51219003--51219066 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
51218993 GGCTTTTTTT
* *
51219003 TTTTTTGGAAAATTTAGATAAATAGATTAC
1 TTTTTTGGAAAATTTAGAGAAATAGACTAC
51219033 TTTTTTGGAAAATTTAGAGAAATAGACTA-
1 TTTTTTGGAAAATTTAGAGAAATAGACTAC
51219062 TTTTT
1 TTTTT
51219067 GGAGAGTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 5 0.16
30 27 0.84
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.45
Consensus pattern (30 bp):
TTTTTTGGAAAATTTAGAGAAATAGACTAC
Found at i:51219675 original size:6 final size:6
Alignment explanation
Indices: 51219637--51219733 Score: 62
Period size: 6 Copynumber: 16.3 Consensus size: 6
51219627 TTTTCGTTTT
* * *
51219637 AATTTA AAGTTTA AA-TTG ATTTTA AATTT- -ATTTG AATTTA AATTT-
1 AATTTA AA-TTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
**
51219682 -ATCTTA AATTTA ATTATTTA AATTT- ACCTTA AATTTA AATTTA AATTATA
1 AAT-TTA AATTTA A--ATTTA AATTTA AATTTA AATTTA AATTTA AATT-TA
51219732 AA
1 AA
51219734 ACAAATTTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
4 6 0.08
5 8 0.11
6 39 0.55
7 12 0.17
8 6 0.08
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (6 bp):
AATTTA
Found at i:51219680 original size:27 final size:25
Alignment explanation
Indices: 51219646--51219728 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
51219636 TAATTTAAAG
* *
51219646 TTTAAATTGATTTTAAATTTATTTGAA
1 TTTAAATTGATCTTAAATTTAATT--A
*
51219673 TTTAAATTTATCTTAAATTTAATTA
1 TTTAAATTGATCTTAAATTTAATTA
* *
51219698 TTTAAATTTACCTTAAATTTAA--A
1 TTTAAATTGATCTTAAATTTAATTA
51219721 TTTAAATT
1 TTTAAATT
51219729 ATAAAACAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 9 0.17
25 22 0.42
27 21 0.40
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (25 bp):
TTTAAATTGATCTTAAATTTAATTA
Found at i:51220677 original size:16 final size:16
Alignment explanation
Indices: 51220634--51220696 Score: 62
Period size: 16 Copynumber: 4.2 Consensus size: 16
51220624 AACGTTTTGT
*
51220634 TAAA-AATAATAATAA
1 TAAATAATAATATTAA
*
51220649 T-ATTAATAATATTAA
1 TAAATAATAATATTAA
*
51220664 TAAATAATATTATTAA
1 TAAATAATAATATTAA
*
51220680 TAAA-AA-AACATTAA
1 TAAATAATAATATTAA
51220694 TAA
1 TAA
51220697 CAAAAAATAC
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
14 10 0.25
15 14 0.35
16 16 0.40
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAATAATAATATTAA
Found at i:51220698 original size:9 final size:9
Alignment explanation
Indices: 51220633--51220682 Score: 59
Period size: 9 Copynumber: 5.8 Consensus size: 9
51220623 AAACGTTTTG
*
51220633 TTAAAAATA
1 TTAATAATA
*
51220642 ATAATAATA
1 TTAATAATA
51220651 TTAATAATA
1 TTAATAATA
51220660 TTAATAA-A
1 TTAATAATA
*
51220668 -TAATATTA
1 TTAATAATA
51220676 TTAATAA
1 TTAATAA
51220683 AAAAACATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
7 5 0.15
8 2 0.06
9 27 0.79
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TTAATAATA
Found at i:51221638 original size:30 final size:30
Alignment explanation
Indices: 51221593--51221754 Score: 240
Period size: 30 Copynumber: 5.4 Consensus size: 30
51221583 AAATTGTCTA
*
51221593 AAAATTACA-TTTGACCCCAAAACTATTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
51221622 AAAATTATATTTTGACCCCTAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
51221652 AAAATTACATTTTGACCCCTAAACTTTTCT
1 AAAATTACATTTTGACCCCAAAACTTTTCC
51221682 AAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
51221712 AAAATTACATTTTGACCCCAAAAC--TTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
51221740 AAAAAATTACATTTT
1 --AAAATTACATTTT
51221755 TACCTTGAAA
Statistics
Matches: 123, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
28 4 0.03
29 8 0.07
30 111 0.90
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:51221736 original size:90 final size:88
Alignment explanation
Indices: 51221579--51221796 Score: 257
Period size: 90 Copynumber: 2.5 Consensus size: 88
51221569 CTTTGCAAGT
* * * *
51221579 CCCTAAA-TTGTCTAAAAATTACA-TTTGACCCCAAAACTATTCCAAAATTATATTTTGACCCCT
1 CCCTAAACTTTTCT-AAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCA
51221642 AAACTTTTCC-AAAATTACATTTTGA
65 AAAC--TTCCAAAAATTACATTTTGA
51221667 CCCCTAAACTTTTCTAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCA
1 -CCCTAAACTTTTCTAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCA
*
51221732 AAACTTCCAAAAAATTACATTTTTA
65 AAACTTCC-AAAAATTACATTTTGA
* * * *
51221757 CCTTGAAAC-TTTCAAAAATTGCCATTTT-ACCCCCAAACTT
1 CCCT-AAACTTTTCTAAAATT-ACATTTTGACCCCAAAACTT
51221797 CCTTAAATCC
Statistics
Matches: 114, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
88 4 0.04
89 40 0.35
90 70 0.61
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (88 bp):
CCCTAAACTTTTCTAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAA
AACTTCCAAAAATTACATTTTGA
Found at i:51221766 original size:60 final size:58
Alignment explanation
Indices: 51221593--51221796 Score: 227
Period size: 60 Copynumber: 3.4 Consensus size: 58
51221583 AAATTGTCTA
*
51221593 AAAATTACA-TTTGACCCCAAAACTATTCCAAAATTATATTTTGACCCCTAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACT-TTCCAAAATTACATTTTGA-CCCTAAACTTTTCC
* * *
51221652 AAAATTACATTTTGACCCCTAAACTTTTCTAAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAAC-TTTCCAAAATTACATTTTGA-CCCTAAACTTTTCC
* * *
51221712 AAAATTACATTTTGACCCCAAAAC-TTCCAAAAAATTACATTTTTACCTTGAAAC-TTTCA
1 AAAATTACATTTTGACCCCAAAACTTTCC--AAAATTACATTTTGACCCT-AAACTTTTCC
* *
51221771 AAAATTGCCATTTT-ACCCCCAAACTT
1 AAAATT-ACATTTTGACCCCAAAACTT
51221797 CCTTAAATCC
Statistics
Matches: 126, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
58 3 0.02
59 30 0.24
60 92 0.73
61 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.34
Consensus pattern (58 bp):
AAAATTACATTTTGACCCCAAAACTTTCCAAAATTACATTTTGACCCTAAACTTTTCC
Found at i:51221794 original size:29 final size:29
Alignment explanation
Indices: 51221593--51221854 Score: 199
Period size: 30 Copynumber: 8.9 Consensus size: 29
51221583 AAATTGTCTA
* *
51221593 AAAATTACA-TTTGACCCCAAAACTATTCC
1 AAAATTACATTTTGACCCCCAAACT-TTCT
* * *
51221622 AAAATTATATTTTGACCCCTAAACTTTTCC
1 AAAATTACATTTTGACCCCCAAAC-TTTCT
*
51221652 AAAATTACATTTTGACCCCTAAACTTTTCT
1 AAAATTACATTTTGACCCCCAAAC-TTTCT
* *
51221682 AAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCCAAAC-TTTCT
* * *
51221712 AAAATTACATTTTGACCCCAAAACTTCCAA
1 AAAATTACATTTTGACCCCCAAACTTTC-T
* *** *
51221742 AAAATTACATTTTTACCTTGAAACTTTCA
1 AAAATTACATTTTGACCCCCAAACTTTCT
* *
51221771 AAAATTGCCATTTT-ACCCCCAAACTTCCT
1 AAAATT-ACATTTTGACCCCCAAACTTTCT
* ** * * *
51221800 TAAATCCCATTTTAAACCCC-AATTTTACT
1 AAAATTACATTTTGACCCCCAAACTTT-CT
*
51221829 AAAATTACCATTTT-ACCCTCAAACTT
1 AAAATTA-CATTTTGACCCCCAAACTT
51221855 CCCTAAATCC
Statistics
Matches: 195, Mismatches: 30, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
28 11 0.06
29 47 0.24
30 136 0.70
31 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCCAAACTTTCT
Found at i:51221840 original size:58 final size:58
Alignment explanation
Indices: 51221771--51221907 Score: 184
Period size: 58 Copynumber: 2.3 Consensus size: 58
51221761 GAAACTTTCA
* * * *
51221771 AAAATTGCCATTTTACCCCCAAACTTCCTTAAATCCCATTTTAAACCCCAATTTTACT
1 AAAATTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTAAACCCCAATTTCACC
* * **
51221829 AAAATTACCATTTTACCCTCAAACTTCCCTAAATCCCATTTTTAACCCTGATTTCACC
1 AAAATTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTAAACCCCAATTTCACC
*
51221887 AAAATCTACTATTTTACCCCC
1 AAAAT-TACCATTTTACCCCC
51221908 GGGTATCCAA
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
58 55 0.81
59 13 0.19
ACGTcount: A:0.32, C:0.32, G:0.01, T:0.34
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTAAACCCCAATTTCACC
Found at i:51221868 original size:28 final size:27
Alignment explanation
Indices: 51221778--51221870 Score: 80
Period size: 28 Copynumber: 3.3 Consensus size: 27
51221768 TCAAAAATTG
*
51221778 CCATTTTACCCCCAAACTTCCTTAAATC
1 CCATTTTA-CCCCAAACTTCCCTAAATC
* ** *
51221806 CCATTTTAAACCCC-AATTTTACTAAAATTA
1 CCATTTT--ACCCCAAACTTCCCT-AAA-TC
51221836 CCATTTTACCCTCAAACTTCCCTAAATC
1 CCATTTTACCC-CAAACTTCCCTAAATC
51221864 CCATTTT
1 CCATTTT
51221871 TAACCCTGAT
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
28 24 0.48
29 11 0.22
30 15 0.30
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.35
Consensus pattern (27 bp):
CCATTTTACCCCAAACTTCCCTAAATC
Found at i:51221877 original size:30 final size:29
Alignment explanation
Indices: 51221781--51221877 Score: 74
Period size: 30 Copynumber: 3.3 Consensus size: 29
51221771 AAAATTGCCA
* *
51221781 TTTTACCCCCAAACTTCCTTAAATCCCAT
1 TTTTACCCTCAAACTTCCCTAAATCCCAT
* * ** *
51221810 TTTAAACCC-C-AATTTTACTAAAATTACCA-
1 TTT-TACCCTCAAACTTCCCT-AAA-TCCCAT
51221839 TTTTACCCTCAAACTTCCCTAAATCCCAT
1 TTTTACCCTCAAACTTCCCTAAATCCCAT
51221868 TTTTAACCCT
1 TTTT-ACCCT
51221878 GATTTCACCA
Statistics
Matches: 50, Mismatches: 11, Indels: 13
0.68 0.15 0.18
Matches are distributed among these distances:
28 13 0.26
29 18 0.36
30 19 0.38
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (29 bp):
TTTTACCCTCAAACTTCCCTAAATCCCAT
Found at i:51230417 original size:38 final size:38
Alignment explanation
Indices: 51230366--51230645 Score: 175
Period size: 38 Copynumber: 7.4 Consensus size: 38
51230356 CCTATCCTCT
*
51230366 TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
1 TGAAATTGAAGTAAAGCTGGACATCAAGTCTTTATCTC
* * * ** *
51230404 TGAAATTGAAGTAAGAAC--AACGTCATTTC-CTATCTGC
1 TGAAATTGAAGTAA-AGCTGGACATCAAGTCTTTATCT-C
** * * * *
51230441 TTGAAATTGAAGTAGGGTTGGATAGCAAGCCTTTATCTC
1 -TGAAATTGAAGTAAAGCTGGACATCAAGTCTTTATCTC
* * * *
51230480 CGAAATTGAAGTAAGAGC--AAGATC-AGT-TCCTATCCTC
1 TGAAATTGAAGTAA-AGCTGGACATCAAGTCT-TTAT-CTC
* *
51230517 TTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTC
1 -TGAAATTGAAGTAAAGCTGGACATCAAGTCTTTATCTC
** ** *
51230556 TGAAATTGAAGTAAGAGCAAGACAT--TTTC-CTATCCTC
1 TGAAATTGAAGTAA-AGCTGGACATCAAGTCTTTAT-CTC
*
51230593 TTGAAATTGAAGTAAAGTTGGACATCAAGTCTTTATCTC
1 -TGAAATTGAAGTAAAGCTGGACATCAAGTCTTTATCTC
51230632 TGAAATTGAAGTAA
1 TGAAATTGAAGTAA
51230646 GAGCAAGACC
Statistics
Matches: 176, Mismatches: 46, Indels: 40
0.67 0.18 0.15
Matches are distributed among these distances:
35 1 0.01
36 13 0.07
37 27 0.15
38 94 0.53
39 26 0.15
40 14 0.08
41 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (38 bp):
TGAAATTGAAGTAAAGCTGGACATCAAGTCTTTATCTC
Found at i:51230446 original size:76 final size:75
Alignment explanation
Indices: 51230345--51230924 Score: 745
Period size: 76 Copynumber: 7.7 Consensus size: 75
51230335 CAGACCGCAC
*
51230345 CAAGATTATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAG-TGGATATCAAGTCTTTATCTCTGAAAT
*
51230410 TGAAGTAAGAA
65 TGAAGTAAGAG
** * * *
51230421 CAACG-TCATTTCCTAT-CTGCTTGAAATTGAAGTAGGGTTGGATAGCAAGCCTTTATCTCCGAA
1 CAA-GATCATTTCCTATCCT-CTTGAAATTGAAGTAAAG-TGGATATCAAGTCTTTATCTCTGAA
51230484 ATTGAAGTAAGAG
63 ATTGAAGTAAGAG
*
51230497 CAAGATCAGTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAG-TGGATATCAAGTCTTTATCTCTGAAAT
51230562 TGAAGTAAGAG
65 TGAAGTAAGAG
*
51230573 CAAGA-CATTTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGACATCAAGTCTTTATCTCTGAAA
1 CAAGATCA-TTTCCTATCCTCTTGAAATTGAAGTAAAG-TGGATATCAAGTCTTTATCTCTGAAA
51230637 TTGAAGTAAGAG
64 TTGAAGTAAGAG
* * * * * *
51230649 CAAGACCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTCGGATAGCACGTCTTTATCTCCGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGT-GGATATCAAGTCTTTATCTCTGAAAT
*
51230714 TGAAGTAAGGG
65 TGAAGTAAGAG
* *
51230725 C-A-A-C--GT-C-ATCCTCTTGAAATTGAAGTAGAA-TGGATAACACA-TCTTTATCTCTGAAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTA-AAGTGGATATCA-AGTCTTTATCTCTGAAA
*
51230781 TTGAAGTAAGAA
64 TTGAAGTAAGAG
* * * *
51230793 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGGAATT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTGGATATCAAGTCTTTATCTCTGAAATT
51230858 GGAA-TAAGAG
66 -GAAGTAAGAG
51230868 CAAGATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTAT
1 CAAGATCA-TTTCCTATCCTCTTGAAATTGAAGTAAAG-TGGATATCAAGTCTTTAT
51230925 TTCTCTAAAG
Statistics
Matches: 445, Mismatches: 38, Indels: 41
0.85 0.07 0.08
Matches are distributed among these distances:
68 32 0.07
69 22 0.05
70 3 0.01
71 2 0.00
73 2 0.00
74 3 0.01
75 65 0.15
76 296 0.67
77 20 0.04
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (75 bp):
CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTGGATATCAAGTCTTTATCTCTGAAATT
GAAGTAAGAG
Found at i:51230674 original size:38 final size:38
Alignment explanation
Indices: 51230481--51230682 Score: 139
Period size: 38 Copynumber: 5.3 Consensus size: 38
51230471 CTTTATCTCC
* **
51230481 GAAATTGAAGTAAGAGCAAGATCAGTTCCTATCCTCTT
1 GAAATTGAAGTAAGAGCAAGACCTTTTCCTATCCTCTT
* * * ** *
51230519 GAAATTGAAGTAAAGTTGGATATCAAGTCTT--TAT-CTC-T
1 GAAATTGAAGT-AAG-AGCA-A-GACCTTTTCCTATCCTCTT
*
51230557 GAAATTGAAGTAAGAGCAAGACATTTTCCTATCCTCTT
1 GAAATTGAAGTAAGAGCAAGACCTTTTCCTATCCTCTT
*** *** *
51230595 GAAATTGAAGTAA-AGTTGGACATCAAGTCTTTAT-CTC-T
1 GAAATTGAAGTAAGAGCAAGAC--CTTTTC-CTATCCTCTT
51230633 GAAATTGAAGTAAGAGCAAGACCTTTTCCTATCCTCTT
1 GAAATTGAAGTAAGAGCAAGACCTTTTCCTATCCTCTT
51230671 GAAATTGAAGTA
1 GAAATTGAAGTA
51230683 GAGTCGGATA
Statistics
Matches: 122, Mismatches: 28, Indels: 28
0.69 0.16 0.16
Matches are distributed among these distances:
34 4 0.03
35 1 0.01
36 8 0.07
37 17 0.14
38 64 0.52
39 16 0.13
40 8 0.07
41 1 0.01
42 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (38 bp):
GAAATTGAAGTAAGAGCAAGACCTTTTCCTATCCTCTT
Found at i:51231243 original size:6 final size:6
Alignment explanation
Indices: 51231225--51231318 Score: 74
Period size: 6 Copynumber: 16.0 Consensus size: 6
51231215 TTAAATTGAT
*
51231225 TTTAAA TTT--A TTTGAA TTTAAA TTT--A TCTTAAA TTTAATTA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA--A TTTAAA
* * *
51231272 TTT-AC CTTAAA TTTAAA TTTAAA TTTAAA TTATAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA
51231319 ACTTTATTAA
Statistics
Matches: 71, Mismatches: 7, Indels: 20
0.72 0.07 0.20
Matches are distributed among these distances:
4 6 0.08
5 9 0.13
6 44 0.62
7 6 0.08
8 6 0.08
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:51231307 original size:25 final size:23
Alignment explanation
Indices: 51231234--51231318 Score: 75
Period size: 25 Copynumber: 3.6 Consensus size: 23
51231224 TTTTAAATTT
*
51231234 ATTTGAATTTAAATTT-ATCTTAA
1 ATTTAAATTTAAATTTAAT-TTAA
**
51231257 ATTTAATTATTTAAATTTACCTTAA
1 ATTTAA--ATTTAAATTTAATTTAA
51231282 ATTTAAATTTAAATTTAAATTATAA
1 ATTTAAATTTAAATTT-AATT-TAA
*
51231307 A-ATAAATTTAAA
1 ATTTAAATTTAAA
51231319 ACTTTATTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
23 15 0.29
24 12 0.24
25 24 0.47
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (23 bp):
ATTTAAATTTAAATTTAATTTAA
Found at i:51231641 original size:3 final size:3
Alignment explanation
Indices: 51231626--51231677 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
51231616 AACGTTTTGT
* * * * *
51231626 TAA TAA CAA TAA TAA TAA TAT TAA TAA TAT TAA TAAA TAA TAT TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
51231672 TAA TAA
1 TAA TAA
51231678 AAAAACATTA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:51231650 original size:9 final size:9
Alignment explanation
Indices: 51231633--51231677 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
51231623 TGTTAATAAC
*
51231633 AATAATAAT
1 AATATTAAT
51231642 AATATTAAT
1 AATATTAAT
51231651 AATATTAAT
1 AATATTAAT
51231660 AA-A-TAAT
1 AATATTAAT
*
51231667 ATTATTAAT
1 AATATTAAT
51231676 AA
1 AA
51231678 AAAAACATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
7 5 0.16
8 2 0.06
9 24 0.77
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATATTAAT
Found at i:51231672 original size:16 final size:16
Alignment explanation
Indices: 51231627--51231690 Score: 60
Period size: 16 Copynumber: 4.0 Consensus size: 16
51231617 ACGTTTTGTT
* *
51231627 AATAACAATAATAATA
1 AATAATAATATTAATA
51231643 ATATTAATAATATTAATA
1 A-A-TAATAATATTAATA
*
51231661 AATAATATTATTAATA
1 AATAATAATATTAATA
*
51231677 AA-AA-AACATTAATA
1 AATAATAATATTAATA
51231691 GCAAAAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
14 8 0.20
15 2 0.05
16 16 0.39
17 2 0.05
18 13 0.32
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
AATAATAATATTAATA
Found at i:51232612 original size:30 final size:30
Alignment explanation
Indices: 51232576--51232807 Score: 220
Period size: 30 Copynumber: 7.7 Consensus size: 30
51232566 AAATTATCTG
* * *
51232576 AAAATTATATTTTAACCCTAAAACTATTCC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* * *
51232606 AAAATTATATTTTGACCCCAAAA-TTTTCT
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* *
51232635 AGAAATTACATTTTGACCCCTAAACTTTTCC
1 A-AAATTACATTTTAACCCCAAAACTTTTCC
*
51232666 AAAATTACATTTTAACCCTAAAACTTTTCC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* *
51232696 AAAATTACATTTTGACCCCAAAACTTTTCT
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* * *
51232726 AAAATCATATTTTGACCCCAAAA--TTTCC
1 AAAATTACATTTTAACCCCAAAACTTTTCC
* * * * *
51232754 AAAAAATTGCATTTTTACCTCGAAAC-TTTCG
1 --AAAATTACATTTTAACCCCAAAACTTTTCC
*
51232785 AAAATTACCATTTTACCCCCAAA
1 AAAATTA-CATTTTAACCCCAAA
51232808 CTTCCTTAAA
Statistics
Matches: 168, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
28 4 0.02
29 11 0.07
30 143 0.85
31 10 0.06
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCAAAACTTTTCC
Found at i:51232715 original size:90 final size:88
Alignment explanation
Indices: 51232576--51232810 Score: 280
Period size: 90 Copynumber: 2.6 Consensus size: 88
51232566 AAATTATCTG
* *
51232576 AAAATTATATTTTAACCCTAAAACTATTCCAAAATTATATTTTGACCCCAAAA-TTTTCTAGAAA
1 AAAATTACATTTTAACCCTAAAACTATTCCAAAATTACATTTTGACCCCAAAACTTTTCTA-AAA
* *
51232640 TTACATTTTGACCCCTAAACTTTTCC
65 TCACATTTTGACCCC-AAA-ATTTCC
*
51232666 AAAATTACATTTTAACCCTAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCTAAAAT
1 AAAATTACATTTTAACCCTAAAACTATTCCAAAATTACATTTTGACCCCAAAACTTTTCTAAAAT
*
51232731 CATATTTTGACCCCAAAATTTCC
66 CACATTTTGACCCCAAAATTTCC
* * * * *
51232754 AAAAAATTGCATTTTTA-CCTCGAAACT-TTCGAAAATTACCATTTT-ACCCCCAAACTT
1 --AAAATTACATTTTAACCCT-AAAACTATTCCAAAATTA-CATTTTGACCCCAAAACTT
51232811 CCTTAAATCC
Statistics
Matches: 129, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
88 5 0.04
89 27 0.21
90 90 0.70
91 7 0.05
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (88 bp):
AAAATTACATTTTAACCCTAAAACTATTCCAAAATTACATTTTGACCCCAAAACTTTTCTAAAAT
CACATTTTGACCCCAAAATTTCC
Found at i:51232857 original size:57 final size:58
Alignment explanation
Indices: 51232785--51232920 Score: 193
Period size: 57 Copynumber: 2.3 Consensus size: 58
51232775 GAAACTTTCG
* *
51232785 AAAATTACCATTTTACCCCCAAACTTCCTTAAATCCCA-TTTAAACCCCGATTTCACT
1 AAAATTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
* * * *
51232842 AAAATTACCAATTTACCCTCAAACTTCCCTAAATCCCATTTTTAACCCTGATTTCACC
1 AAAATTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
*
51232900 AAAATCTACCATTTTTCCCCC
1 AAAAT-TACCATTTTACCCCC
51232921 GGGTATCCAA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 35 0.51
58 21 0.31
59 12 0.18
ACGTcount: A:0.32, C:0.34, G:0.01, T:0.32
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTAAACCCCGATTTCACC
Found at i:51237229 original size:73 final size:72
Alignment explanation
Indices: 51237114--51237359 Score: 375
Period size: 72 Copynumber: 3.4 Consensus size: 72
51237104 GTGGTAAAGT
*
51237114 ACCATTTAATTGATTTTCTGAAACATCAAATAACTCCAAAGATGATAACTCCCCTATCGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAATAACTCCAAAGATGATAACTCCCCTATAGACAATG
*
51237179 GAATTTT
66 GAATTTG
* *
51237186 ACCATTTAATTGATTTTTTTGAAACATCAAATAACTCCAAAGATGATAACTCCCCTATAGACAAG
1 ACCATTTAATTGA-TTTTCTGAAACATCAAATAACTCCAAAGATGATAACTCCCCTATAGACAAT
51237251 GGAATTTG
65 GGAATTTG
* * * * * *
51237259 CCCGTTTAATTTATTTTCTGAAACATCAAATAACTTCAAATATGATAACTCCCCTATAGACAGTG
1 ACCATTTAATTGATTTTCTGAAACATCAAATAACTCCAAAGATGATAACTCCCCTATAGACAATG
51237324 GAATTTG
66 GAATTTG
* *
51237331 ACCATTTAATTGGTTTTCTGAAAGATCAA
1 ACCATTTAATTGATTTTCTGAAACATCAA
51237360 GGTGAGTAAC
Statistics
Matches: 156, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
72 91 0.58
73 65 0.42
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAATAACTCCAAAGATGATAACTCCCCTATAGACAATG
GAATTTG
Found at i:51245634 original size:30 final size:30
Alignment explanation
Indices: 51245589--51245652 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
51245579 TTTCTCTCTT
* *
51245589 TTTTTACCTCCAAATTTTTTTAAAATTATA
1 TTTTGACCTCCAAATTTTTTTAAAATTACA
*
51245619 TTTTGACCTCTAAATTTTTTTAAAATTACA
1 TTTTGACCTCCAAATTTTTTTAAAATTACA
51245649 TTTT
1 TTTT
51245653 AATCCTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.12, G:0.02, T:0.55
Consensus pattern (30 bp):
TTTTGACCTCCAAATTTTTTTAAAATTACA
Found at i:51245665 original size:31 final size:30
Alignment explanation
Indices: 51245589--51245662 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
51245579 TTTCTCTCTT
* * *
51245589 TTTTTACCTCCAAATTTTTTTAAAATTATA
1 TTTTAACCTCTAAATTTTTTTAAAATTACA
*
51245619 TTTTGACCTCTAAATTTTTTTAAAATTACA
1 TTTTAACCTCTAAATTTTTTTAAAATTACA
51245649 TTTTAATCCT-TAAA
1 TTTTAA-CCTCTAAA
51245663 ATTCTCCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 36 0.92
31 3 0.08
ACGTcount: A:0.34, C:0.14, G:0.01, T:0.51
Consensus pattern (30 bp):
TTTTAACCTCTAAATTTTTTTAAAATTACA
Found at i:51246654 original size:29 final size:28
Alignment explanation
Indices: 51246622--51246685 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
51246612 GAAGTCTAAC
51246622 TTTTGGAAAATTGAGGGTAAAATGGTAAT
1 TTTTGGAAAATTGAGGGTAAAATGGT-AT
***
51246651 TTTTGGATGCTTGAGGGTAAAATGGTAT
1 TTTTGGAAAATTGAGGGTAAAATGGTAT
51246679 TTTTGGA
1 TTTTGGA
51246686 GGTTTGGGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 9 0.28
29 23 0.72
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.39
Consensus pattern (28 bp):
TTTTGGAAAATTGAGGGTAAAATGGTAT
Found at i:51246700 original size:28 final size:29
Alignment explanation
Indices: 51246632--51246700 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
51246622 TTTTGGAAAA
* *
51246632 TTGAGGGTAAAATGGTAATTTTTGGATGC
1 TTGAGGGCAAAATGGTAATTTTTGGAGGC
* *
51246661 TTGAGGGTAAAATGGT-ATTTTTGGAGGT
1 TTGAGGGCAAAATGGTAATTTTTGGAGGC
*
51246689 TTGGGGGCAAAA
1 TTGAGGGCAAAA
51246701 ATATAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 20 0.56
29 16 0.44
ACGTcount: A:0.28, C:0.03, G:0.35, T:0.35
Consensus pattern (29 bp):
TTGAGGGCAAAATGGTAATTTTTGGAGGC
Found at i:51246701 original size:29 final size:29
Alignment explanation
Indices: 51246632--51246712 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
51246622 TTTTGGAAAA
* *
51246632 TTGAGGGTAAAATGGTAATTTTTGGATGC
1 TTGAGGGAAAAATGGTAATTTTTGGAGGC
* *
51246661 TTGAGGGTAAAATGGT-ATTTTTGGAGGT
1 TTGAGGGAAAAATGGTAATTTTTGGAGGC
* *
51246689 TTGGGGGCAAAAAT-ATAATTTTTG
1 TTGAGGG-AAAAATGGTAATTTTTG
51246713 AGAAGTTCGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
28 17 0.38
29 28 0.62
ACGTcount: A:0.28, C:0.02, G:0.31, T:0.38
Consensus pattern (29 bp):
TTGAGGGAAAAATGGTAATTTTTGGAGGC
Found at i:51246761 original size:29 final size:27
Alignment explanation
Indices: 51246736--51246801 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
51246726 TGGAAATGTG
*
51246736 ATTTTTGGAAGTGCGGAGGTAAAAATATA
1 ATTTTTGAAAGTGC-GAGG-AAAAATATA
*
51246765 ATTTTTGAAAGTTCGAGGAAAAATATA
1 ATTTTTGAAAGTGCGAGGAAAAATATA
51246792 ATTTTTGAAA
1 ATTTTTGAAA
51246802 AGTTCGGGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 19 0.54
28 4 0.11
29 12 0.34
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (27 bp):
ATTTTTGAAAGTGCGAGGAAAAATATA
Found at i:51246787 original size:28 final size:27
Alignment explanation
Indices: 51246697--51246807 Score: 107
Period size: 29 Copynumber: 3.9 Consensus size: 27
51246687 GTTTGGGGGC
51246697 AAAAATATAATTTTTGAGAAGTTCG-GG
1 AAAAATATAATTTTTGA-AAGTTCGAGG
* * * * *
51246724 AGTGGAAATGTGATTTTTGGAAGTGCGGAGG
1 A---AAAATATAATTTTTGAAAGTTC-GAGG
51246755 TAAAAATATAATTTTTGAAAGTTCGAGG
1 -AAAAATATAATTTTTGAAAGTTCGAGG
51246783 AAAAATATAATTTTTGAAAAGTTCG
1 AAAAATATAATTTTTG-AAAGTTCG
51246808 GGATTCAAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
27 17 0.25
28 12 0.18
29 22 0.33
30 13 0.19
31 2 0.03
32 1 0.01
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (27 bp):
AAAAATATAATTTTTGAAAGTTCGAGG
Found at i:51246794 original size:86 final size:86
Alignment explanation
Indices: 51246697--51246874 Score: 225
Period size: 86 Copynumber: 2.1 Consensus size: 86
51246687 GTTTGGGGGC
* ** * * * *
51246697 AAAAATATAATTTTTGAGAAGTTCGGGAGTGGAAATGTGATTTTTGGAAGTGCGGAGGTAAAAAT
1 AAAAATATAATTTTTGAAAAGTTCGGGAGTCAAAATGTAATTTTTGGAAATACGG-GGGAAAAAT
51246762 -ATAATTTTT-GAAAGTTCGAGG
65 GATAATTTTTAGAAAGTTC-AGG
* *
51246783 AAAAATATAATTTTTGAAAAGTTCGGGATTCAAAATGTAATTTTTGGAAATACGGGGGCAAAATG
1 AAAAATATAATTTTTGAAAAGTTCGGGAGTCAAAATGTAATTTTTGGAAATACGGGGGAAAAATG
*
51246848 ATGATTTTTAGAAAGTTCAGG
66 ATAATTTTTAGAAAGTTCAGG
51246869 ATAAAA
1 A-AAAA
51246875 AATACAATAT
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
85 7 0.09
86 60 0.76
87 12 0.15
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.32
Consensus pattern (86 bp):
AAAAATATAATTTTTGAAAAGTTCGGGAGTCAAAATGTAATTTTTGGAAATACGGGGGAAAAATG
ATAATTTTTAGAAAGTTCAGG
Found at i:51251581 original size:2 final size:2
Alignment explanation
Indices: 51251574--51251601 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
51251564 AATATAATTA
51251574 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51251602 CGTAAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51253637 original size:16 final size:17
Alignment explanation
Indices: 51253599--51253641 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
51253589 TAAATTGAGG
*
51253599 TTTATTTTTTAATTTAA
1 TTTATTATTTAATTTAA
* *
51253616 TGTATTATTT-ATTTAT
1 TTTATTATTTAATTTAA
51253632 TTTATTATTT
1 TTTATTATTT
51253642 TCCGCATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTATTATTTAATTTAA
Found at i:51257942 original size:28 final size:28
Alignment explanation
Indices: 51257906--51257959 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
51257896 GTGCTATTAC
*
51257906 AGAACAGAGAGAACACAAAGTGTTAATT
1 AGAACAGAGAGAACACAAAATGTTAATT
* *
51257934 AGAATAGAGAGCACACAAAATGTTAA
1 AGAACAGAGAGAACACAAAATGTTAA
51257960 ATATATGTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.52, C:0.11, G:0.20, T:0.17
Consensus pattern (28 bp):
AGAACAGAGAGAACACAAAATGTTAATT
Found at i:51258133 original size:17 final size:17
Alignment explanation
Indices: 51258105--51258213 Score: 68
Period size: 17 Copynumber: 6.6 Consensus size: 17
51258095 CCTTTGATTT
*
51258105 TTAAAGTTTAAATTAATT
1 TTAAA-TTTAAATTAATC
* *
51258123 TTAATTTTAAATTTATC
1 TTAAATTTAAATTAATC
* *
51258140 TTAAATTTAATTTTA-C
1 TTAAATTTAAATTAATC
*
51258156 TT--ATTTAAATTTA-C
1 TTAAATTTAAATTAATC
51258170 TTTAAATTTAAATTTAA--
1 -TTAAATTTAAA-TTAATC
* *
51258187 TTAAATTTAAAATAATA
1 TTAAATTTAAATTAATC
*
51258204 TTAAACTTAA
1 TTAAATTTAA
51258214 TACAAAAATA
Statistics
Matches: 76, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
14 11 0.14
15 5 0.07
16 14 0.18
17 39 0.51
18 7 0.09
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (17 bp):
TTAAATTTAAATTAATC
Found at i:51258143 original size:23 final size:24
Alignment explanation
Indices: 51258103--51258196 Score: 79
Period size: 23 Copynumber: 4.0 Consensus size: 24
51258093 AGCCTTTGAT
*
51258103 TTTTAAAGTTTAAATTAATTTTAA
1 TTTTAAAGTTTAAATTAAATTTAA
**
51258127 TTTTAAA-TTTATCTTAAATTTAA
1 TTTTAAAGTTTAAATTAAATTTAA
* * *
51258150 TTTTACTTA-TTTAAATTTACTTTAA
1 TTTTA--AAGTTTAAATTAAATTTAA
*
51258175 ATTTAAA-TTT-AATTAAATTTAA
1 TTTTAAAGTTTAAATTAAATTTAA
51258197 AATAATATTA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
22 10 0.18
23 22 0.39
24 7 0.12
25 17 0.30
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.55
Consensus pattern (24 bp):
TTTTAAAGTTTAAATTAAATTTAA
Found at i:51258167 original size:6 final size:6
Alignment explanation
Indices: 51258104--51258197 Score: 65
Period size: 6 Copynumber: 16.0 Consensus size: 6
51258094 GCCTTTGATT
* * *
51258104 TTTAAA GTTTAAA -TTAAT TTTAAT TTTAAA TTT--A TCTTAAA TTTAAT
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA
* *
51258151 TTTACTTA TTTAAA TTT-AC TTTAAA TTTAAA TTT-AA -TTAAA TTTAAA
1 TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
51258198 ATAATATTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
4 4 0.06
5 14 0.20
6 40 0.57
7 8 0.11
8 4 0.06
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:51258188 original size:11 final size:11
Alignment explanation
Indices: 51258104--51258197 Score: 70
Period size: 11 Copynumber: 8.5 Consensus size: 11
51258094 GCCTTTGATT
51258104 TTTAAAGTTTAA
1 TTTAAA-TTTAA
* *
51258116 ATTAATTTTAA
1 TTTAAATTTAA
51258127 TTTTAAATTT-A
1 -TTTAAATTTAA
51258138 TCTTAAATTTAA
1 T-TTAAATTTAA
* *
51258150 TTT-TACTT-A
1 TTTAAATTTAA
*
51258159 TTTAAATTTAC
1 TTTAAATTTAA
51258170 TTTAAATTTAAA
1 TTTAAATTT-AA
*
51258182 TTT-AATTAAA
1 TTTAAATTTAA
51258192 TTTAAA
1 TTTAAA
51258198 ATAATATTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
9 4 0.06
10 12 0.19
11 31 0.48
12 17 0.27
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:51258834 original size:20 final size:19
Alignment explanation
Indices: 51258775--51258839 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
51258765 AATACAAAGC
51258775 ATTAAATTATTAACATCATAT
1 ATTAAATTATT-ACAT-ATAT
*
51258796 ATTAATTTTATTA-ATATAT
1 ATTAA-ATTATTACATATAT
*
51258815 ATTAAATTATTACTTGATAT
1 ATTAAATTATTACAT-ATAT
51258835 ATTAA
1 ATTAA
51258840 TTTCGCTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 6 0.16
19 10 0.26
20 11 0.29
21 6 0.16
22 5 0.13
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTAAATTATTACATATAT
Found at i:51260194 original size:29 final size:29
Alignment explanation
Indices: 51260077--51260302 Score: 178
Period size: 29 Copynumber: 7.8 Consensus size: 29
51260067 TGGAGGTCCT
**
51260077 TAAACTATCCAAAAATTGTATTTTGA-CCC
1 TAAACT-TCCAAAAATTACATTTTGACCCC
**
51260106 TCAAACTTCTTTAAAATTACATTTT-ACCCTC
1 T-AAACTTC-CAAAAATTACATTTTGACCC-C
* *
51260137 GAAACTTCTTC-AAAATTACATTTTTACCCC
1 TAAACTTC--CAAAAATTACATTTTGACCCC
* *
51260167 TAAACTTTCAAAAATTACATTTT-AACCC
1 TAAACTTCCAAAAATTACATTTTGACCCC
* **
51260195 TAAAACTTCCAAAAAATGTATTTTGACCCC
1 T-AAACTTCCAAAAATTACATTTTGACCCC
*
51260225 AAAACTTCCAAAAATTACATTTTGA-CCC
1 TAAACTTCCAAAAATTACATTTTGACCCC
* *
51260253 TAAAC-TCCCAAAATTACATTTTTACCCC
1 TAAACTTCCAAAAATTACATTTTGACCCC
** * *
51260281 CGAACTT-CTAAAATTCCATTTT
1 TAAACTTCCAAAAATTACATTTT
51260303 TTGACCCTAG
Statistics
Matches: 161, Mismatches: 25, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
27 17 0.11
28 32 0.20
29 57 0.35
30 49 0.30
31 6 0.04
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (29 bp):
TAAACTTCCAAAAATTACATTTTGACCCC
Found at i:51260325 original size:30 final size:30
Alignment explanation
Indices: 51260244--51260333 Score: 89
Period size: 28 Copynumber: 3.1 Consensus size: 30
51260234 AAAAATTACA
* *
51260244 TTTTGACCCTA-AACTCCCAAAATTACA-T
1 TTTTGACCCTAGAACTCTCAAAATTCCATT
**
51260272 TTTT-ACCCCCGAACT-TCTAAAATTCCATT
1 TTTTGACCCTAGAACTCTC-AAAATTCCATT
*
51260301 TTTTGACCCTAGAACTCTCGAAATTACCATT
1 TTTTGACCCTAGAACTCTCAAAATT-CCATT
51260332 TT
1 TT
51260334 ACCCCCCAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
27 5 0.10
28 16 0.33
29 5 0.10
30 14 0.29
31 9 0.18
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.37
Consensus pattern (30 bp):
TTTTGACCCTAGAACTCTCAAAATTCCATT
Found at i:51262235 original size:21 final size:19
Alignment explanation
Indices: 51262190--51262235 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
51262180 TATATATGAA
*
51262190 TAAAATATTTTTTAAAACT
1 TAAAATATTTTTTAAAAAT
51262209 TAAAATATTTCTTTTAAAAAT
1 TAAAATA-TT-TTTTAAAAAT
*
51262230 TGAAAT
1 TAAAAT
51262236 TAAACCGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
20 2 0.09
21 14 0.61
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (19 bp):
TAAAATATTTTTTAAAAAT
Found at i:51263009 original size:20 final size:20
Alignment explanation
Indices: 51262963--51263009 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
51262953 CAAACAACAT
**
51262963 CAAATTGTTTTCTAAGAAAA
1 CAAATTGTTGACTAAGAAAA
51262983 CAGAATTGTTGACTAA-AAAA
1 CA-AATTGTTGACTAAGAAAA
51263003 CTAAATT
1 C-AAATT
51263010 TTTAGCAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (20 bp):
CAAATTGTTGACTAAGAAAA
Found at i:51267412 original size:29 final size:29
Alignment explanation
Indices: 51267380--51267877 Score: 158
Period size: 28 Copynumber: 17.1 Consensus size: 29
51267370 ACATGGTAAT
51267380 TTTTTGTGAAATCAGGGTCAAAAATGGAA
1 TTTTTGTGAAATCAGGGTCAAAAATGGAA
* * *
51267409 -TTTTG-GAAGTTTGAGGGT--AAAATGGTA
1 TTTTTGTGAA--ATCAGGGTCAAAAATGGAA
* * *
51267436 TTTTGGTAAAATTAGGGTCAAAAAT-GAA
1 TTTTTGTGAAATCAGGGTCAAAAATGGAA
* ** ***
51267464 ATTTTG-GAAAGTTTGGGGGTAAAATGGTAA
1 TTTTTGTGAAA-TCAGGGTCAAAAATGG-AA
*
51267494 TTTTTGATGAAATCATGGTCAAAAATGGAA
1 TTTTTG-TGAAATCAGGGTCAAAAATGGAA
* *
51267524 -TTTTG-GAAAATTTAGGGGGC-AAAATGGTAAA
1 TTTTTGTG-AAA-TCA-GGGTCAAAAATGG--AA
* * * *
51267555 TTTTGGTAAAATC-GAGGTTAAAAATAGAA
1 TTTTTGTGAAATCAG-GGTCAAAAATGGAA
*
51267584 -TTTTG-GAAAGTTCAAGGG--GAAAATGGTAA
1 TTTTTGTGAAA--TC-AGGGTCAAAAATGG-AA
*
51267613 TTTTTGGTGAAATC-GAGTCAAAAATGGAA
1 TTTTT-GTGAAATCAGGGTCAAAAATGGAA
** ***
51267642 -TTTTG-GAAAGTTTGGGGGTAAAATGGTAA
1 TTTTTGTGAAA-TCAGGGTCAAAAATGG-AA
*
51267671 TTTTGGTGAAATCAGGGTCAAAAATGGAA
1 TTTTTGTGAAATCAGGGTCAAAAATGGAA
51267700 -TTTTG-GAAATTTCAAGGGT--AAAATGGTAA
1 TTTTTGTGAAA--TC-AGGGTCAAAAATGG-AA
* *
51267729 TTTTTGGTGAAAT-TGGATCAAAAATGGAA
1 TTTTT-GTGAAATCAGGGTCAAAAATGGAA
* ** * *
51267758 TTTTTGAGAGTTCGGGGGT--AAAATGATAA
1 TTTTTGTGAAATC-AGGGTCAAAAATG-GAA
51267787 TTTTTGGTGAAATC-GAGGTCAAAAATGGAA
1 TTTTT-GTGAAATCAG-GGTCAAAAATGGAA
*
51267817 -TTTTG-GAAAGTTCGGGGGT--AAAATGGTAA
1 TTTTTGTGAAA--TC-AGGGTCAAAAATGG-AA
* *
51267846 TTTTGGT-AAATTTA-GGTCAAAAATGGAA
1 TTTTTGTGAAA-TCAGGGTCAAAAATGGAA
51267874 TTTT
1 TTTT
51267878 GGGTCAAAAA
Statistics
Matches: 345, Mismatches: 64, Indels: 121
0.65 0.12 0.23
Matches are distributed among these distances:
26 4 0.01
27 37 0.11
28 92 0.27
29 79 0.23
30 81 0.23
31 33 0.10
32 19 0.06
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.33
Consensus pattern (29 bp):
TTTTTGTGAAATCAGGGTCAAAAATGGAA
Found at i:51267526 original size:59 final size:58
Alignment explanation
Indices: 51267340--51267879 Score: 668
Period size: 58 Copynumber: 9.3 Consensus size: 58
51267330 AAATTGGGTT
* * *
51267340 AAAATGGGAATTTTGGAAAGTTCGGGGGTAACATGGTAATTTTTTGTGAAATCAGGGTCA
1 AAAAT-GGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATCA-GGTCA
* * *
51267400 AAAATGGAATTTTGG-AAGTTTGAGGGTAAAATGGT-A-TTTTGGTAAAATTAGGGTCA
1 AAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATCA-GGTCA
* *
51267456 AAAATGAAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGATGAAATCATGGTCA
1 AAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATCA-GGTCA
* * * * *
51267515 AAAATGGAATTTTGGAAAATTTAGGGGGCAAAATGGTAAATTTTGGTAAAATCGAGGTTA
1 AAAATGGAATTTTGGAAAGTTT-GGGGGTAAAATGGTAATTTTTGGTGAAATC-AGGTCA
* **
51267575 AAAATAGAATTTTGGAAAGTTCAAGGGG-AAAATGGTAATTTTTGGTGAAATC-GAGTCA
1 AAAATGGAATTTTGGAAAGTT-TGGGGGTAAAATGGTAATTTTTGGTGAAATCAG-GTCA
51267633 AAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAA-TTTTGGTGAAATCAGGGTCA
1 AAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATCA-GGTCA
** *
51267691 AAAATGGAATTTTGGAAA-TTTCAAGGGTAAAATGGTAATTTTTGGTGAAAT-TGGATCA
1 AAAATGGAATTTTGGAAAGTTT-GGGGGTAAAATGGTAATTTTTGGTGAAATCAGG-TCA
* * * *
51267749 AAAATGGAATTTTTGAGAGTTCGGGGGTAAAATGATAATTTTTGGTGAAATCGAGGTCA
1 AAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATC-AGGTCA
* *
51267808 AAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAA-TTTTGGT-AAATTTAGGTCA
1 AAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAA-TCAGGTCA
51267865 AAAATGGAATTTTGG
1 AAAATGGAATTTTGG
51267880 GTCAAAAATG
Statistics
Matches: 420, Mismatches: 43, Indels: 37
0.84 0.09 0.07
Matches are distributed among these distances:
56 31 0.07
57 67 0.16
58 140 0.33
59 121 0.29
60 60 0.14
61 1 0.00
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (58 bp):
AAAATGGAATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGTCA
Found at i:51267886 original size:18 final size:19
Alignment explanation
Indices: 51267860--51267898 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
51267850 GGTAAATTTA
*
51267860 GGTCAAAAATGGAATTTTG
1 GGTCAAAAATGAAATTTTG
51267879 GGTCAAAAATGAAATTTTG
1 GGTCAAAAATGAAATTTTG
51267898 G
1 G
51267899 AAAATTTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (19 bp):
GGTCAAAAATGAAATTTTG
Found at i:51267915 original size:29 final size:28
Alignment explanation
Indices: 51267884--51267954 Score: 81
Period size: 30 Copynumber: 2.5 Consensus size: 28
51267874 TTTTGGGTCA
51267884 AAAATGAAATTTTGGAAAATTTAGGGGT
1 AAAATGAAATTTTGGAAAATTTAGGGGT
* * *
51267912 AAAATGGTAATTTTTTGAAAATTTTGGGGTT
1 AAAAT-G-AAATTTTGGAAAATTTAGGGG-T
51267943 AAAAT-AAATTTT
1 AAAATGAAATTTT
51267955 TGGATAGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 11 0.31
29 1 0.03
30 18 0.50
31 6 0.17
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (28 bp):
AAAATGAAATTTTGGAAAATTTAGGGGT
Found at i:51269718 original size:58 final size:59
Alignment explanation
Indices: 51269683--51270081 Score: 440
Period size: 58 Copynumber: 6.9 Consensus size: 59
51269673 GGAAAATTCA
* *
51269683 AGGTTAAAAATGGGATTTTGGAAGGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCG
1 AGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCG
* * * * * *
51269742 GGGTCAAAAATGGAATTTTGGAAAGTTTGAGGATGAAATGATAATTTTT-GTGAAATCG
1 AGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCG
* * * *
51269800 GGGTTAAAAATGGAATTTTTGAAAGTT-TAGGGGTAAAATAGTAATTTTT-GTGAAATCG
1 AGGTTAAAAATGGAATTTTGGAAAGTTCGA-GGGTAAAATGGTAATTTTTGGTGAAATCG
* *
51269858 AGGTT-AAAATGGAATTTTGAAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCA
1 AGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCG
*** * * *
51269916 AGGTTAAAAACAAAATTTTAGAAAGTTTG-GGGTAAAATGGTAATTTTTGGTGAAAT-T
1 AGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCG
* * * *
51269973 AGGGTTAAAAATGGAATTTTAGAATGTTCGA-GGTAAAATGGTAATTTCTGGTGAAATTG
1 A-GGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCG
* * * *
51270032 AGGATAAAAATGTG-ATTTTGAAAAGTT-TAGGGTCAAAAT-ATAATTTTTGG
1 AGGTTAAAAATG-GAATTTTGGAAAGTTCGAGGGT-AAAATGGTAATTTTTGG
51270082 GAAGTTTAGG
Statistics
Matches: 288, Mismatches: 42, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
57 40 0.14
58 183 0.64
59 65 0.23
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (59 bp):
AGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTGAAATCG
Found at i:51269719 original size:29 final size:29
Alignment explanation
Indices: 51269655--51269765 Score: 93
Period size: 29 Copynumber: 3.8 Consensus size: 29
51269645 TGACTCTCAG
*
51269655 GGGTAAAAATGTAATTTTGGAAAATTCAA
1 GGGTAAAAATGGAATTTTGGAAAATTCAA
* * ** *
51269684 GGTTAAAAATGGGATTTTGGAAGGTTCGA
1 GGGTAAAAATGGAATTTTGGAAAATTCAA
* *
51269713 GGGT-AAAATGGTAATTTTTGGTGAAA-TC-G
1 GGGTAAAAATGG-AA-TTTTGG-AAAATTCAA
51269742 GGGTCAAAAATGGAATTTTGGAAA
1 GGGT-AAAAATGGAATTTTGGAAA
51269766 GTTTGAGGAT
Statistics
Matches: 64, Mismatches: 13, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
28 9 0.14
29 37 0.58
30 10 0.16
31 8 0.12
ACGTcount: A:0.37, C:0.04, G:0.29, T:0.31
Consensus pattern (29 bp):
GGGTAAAAATGGAATTTTGGAAAATTCAA
Found at i:51270040 original size:30 final size:28
Alignment explanation
Indices: 51269714--51270040 Score: 108
Period size: 29 Copynumber: 11.2 Consensus size: 28
51269704 AAGGTTCGAG
* *
51269714 GGTAAAATGGTAATTTTTGGTGAAATCGG
1 GGTAAAATGGTAA-TTTTGGTGAAATTGA
51269743 GGTCAAAAATGG-AATTTT-G-GAAAGTTTGA
1 GGT--AAAATGGTAATTTTGGTGAAA--TTGA
* * * * *
51269772 GGATGAAATGATAATTTTTGTGAAATCGG
1 GG-TAAAATGGTAATTTTGGTGAAATTGA
*
51269801 GGTTAAAAATGG-AATTTT--TGAAAGTTTAGG
1 GG-T-AAAATGGTAATTTTGGTGAAA--TT-GA
* * *
51269831 GGTAAAATAGTAATTTTTGTGAAATCGA
1 GGTAAAATGGTAATTTTGGTGAAATTGA
*
51269859 GGTTAAAATGG-AATTTT-G-AAAAGTTCGA
1 GG-TAAAATGGTAATTTTGGTGAAA-TT-GA
**
51269887 GGGTAAAATGGTAATTTTTGGTGAAATCAA
1 -GGTAAAATGGTAA-TTTTGGTGAAATTGA
**** * *
51269917 GGTTAAAAACAAAATTTT--AGAAAGTTTGG
1 GG-TAAAATGGTAATTTTGGTGAAA--TTGA
51269946 GGTAAAATGGTAATTTTTGGTGAAATT-A
1 GGTAAAATGGTAA-TTTTGGTGAAATTGA
* *
51269974 GGGTTAAAAATGG-AATTTT--AGAATGTTCGA
1 -GG-T-AAAATGGTAATTTTGGTGAA-ATT-GA
51270004 GGTAAAATGGTAATTTCTGGTGAAATTGA
1 GGTAAAATGGTAATTT-TGGTGAAATTGA
51270033 GGATAAAA
1 GG-TAAAA
51270041 ATGTGATTTT
Statistics
Matches: 221, Mismatches: 37, Indels: 79
0.66 0.11 0.23
Matches are distributed among these distances:
26 3 0.01
27 25 0.11
28 46 0.21
29 76 0.34
30 36 0.16
31 32 0.14
32 3 0.01
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.34
Consensus pattern (28 bp):
GGTAAAATGGTAATTTTGGTGAAATTGA
Found at i:51272259 original size:24 final size:24
Alignment explanation
Indices: 51272231--51272281 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
51272221 AGAAATAATC
* *
51272231 TTTCAGTTAAATTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
51272255 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
51272279 TTT
1 TTT
51272282 GAGTCAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.59
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:51272290 original size:24 final size:24
Alignment explanation
Indices: 51272243--51272293 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
51272233 TCAGTTAAAT
*
51272243 TCTGTTTATTTGTTTCAATTAAAC
1 TCTGTTTATTTGTTTCAATCAAAC
* *
51272267 TCTGTTTATTTGTTTGAGTCAAAC
1 TCTGTTTATTTGTTTCAATCAAAC
51272291 TCT
1 TCT
51272294 TATTACTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.14, G:0.12, T:0.53
Consensus pattern (24 bp):
TCTGTTTATTTGTTTCAATCAAAC
Found at i:51273228 original size:23 final size:23
Alignment explanation
Indices: 51273202--51273367 Score: 141
Period size: 23 Copynumber: 7.4 Consensus size: 23
51273192 AGTGCTGGGC
51273202 AACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
51273225 AACAGAGAGTACACAAA--G-T-
1 AACAGAGAGCACACAAAGTGCTA
*
51273244 -AC--TGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* **
51273264 ATCAGAGAGCACATGAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
51273287 ATCAGAGAGCACACACAGTGCTAA
1 AACAGAGAGCACACAAAGTGCT-A
* * *
51273311 TAACGGAGAGCACGA-GACGTGCTA
1 -AACAGAGAGCAC-ACAAAGTGCTA
*
51273335 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
51273358 ATCAGAGAGC
1 AACAGAGAGC
51273368 GTGCTAGTGT
Statistics
Matches: 112, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
16 10 0.09
18 3 0.03
19 1 0.01
20 1 0.01
21 2 0.02
22 1 0.01
23 76 0.68
24 2 0.02
25 15 0.13
26 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.24, T:0.12
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:51273233 original size:48 final size:44
Alignment explanation
Indices: 51273177--51273367 Score: 158
Period size: 48 Copynumber: 4.2 Consensus size: 44
51273167 CGAAGTACTG
51273177 AACAGAGAGCACATAAGTGCTGGGCAACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACATAAGTGCT----AACAGAGAGCACACAAAGTGCTA
* * * *
51273225 AACAGAGAGTACACAA-AG-T-AC--TGAGCACACAAAGTGCTA
1 AACAGAGAGCACATAAGTGCTAACAGAGAGCACACAAAGTGCTA
* *
51273264 ATCAGAGAGCACATGAAGTGCTAATCAGAGAGCACACACAGTGCTAA
1 AACAGAGAGCACAT-AAGTGCTAA-CAGAGAGCACACAAAGTGCT-A
* * * *
51273311 TAACGGAGAGCACGAGACGTGCTAAACAGAGAGCACACACAGTGCTA
1 -AACAGAGAGCAC-ATAAGTGCT-AACAGAGAGCACACAAAGTGCTA
*
51273358 ATCAGAGAGC
1 AACAGAGAGC
51273368 GTGCTAGTGT
Statistics
Matches: 116, Mismatches: 16, Indels: 24
0.74 0.10 0.15
Matches are distributed among these distances:
39 28 0.24
40 2 0.02
41 3 0.03
42 1 0.01
43 1 0.01
44 1 0.01
46 24 0.21
47 3 0.03
48 50 0.43
49 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.25, T:0.12
Consensus pattern (44 bp):
AACAGAGAGCACATAAGTGCTAACAGAGAGCACACAAAGTGCTA
Found at i:51276725 original size:29 final size:29
Alignment explanation
Indices: 51276668--51277022 Score: 224
Period size: 30 Copynumber: 12.4 Consensus size: 29
51276658 TGGATACCCG
* *
51276668 AGGG-CAAAA-TGGTAA-TTTTGAAATTTT
1 AGGGTCAAAATTGG-AATTTTTGGAAGTTT
51276695 AGGGTCAAAATTGGAATTTTTGGAAGTTT
1 AGGGTCAAAATTGGAATTTTTGGAAGTTT
**
51276724 AGGGAT-AAAATTTTAATTTTTGGAAGTTTT
1 AGGG-TCAAAATTGGAATTTTTGGAAG-TTT
*
51276754 AGGGTTAAAATTGGAATTTTTGGAAGTTT
1 AGGGTCAAAATTGGAATTTTTGGAAGTTT
* *
51276783 AGAGGT-AAAAATGTAATTTTTGGAAGTTTT
1 AG-GGTCAAAATTGGAATTTTTGGAAG-TTT
* * * *
51276813 GGGGTTAAAATAGAAATTTTTGGAAGTTT
1 AGGGTCAAAATTGGAATTTTTGGAAGTTT
* *
51276842 GGGGGTAAAAATAT--AA---TT-----TTT
1 -AGGGTCAAAAT-TGGAATTTTTGGAAGTTT
* *
51276863 AGGGTTAAAATTGGAATCTTTGGAAGTTT
1 AGGGTCAAAATTGGAATTTTTGGAAGTTT
* *
51276892 GAGGGT-AAAAATGTAATTTTTGGAAGTTTT
1 -AGGGTCAAAATTGGAATTTTTGGAAG-TTT
* *
51276922 GGGGTCAAAAATGGAATTTTTGGAAGTTT
1 AGGGTCAAAATTGGAATTTTTGGAAGTTT
* * * *
51276951 AGGGGT-AAAAATGTAATTTTTTGAAATTTT
1 A-GGGTCAAAATTGGAA-TTTTTGGAAGTTT
* * *
51276981 TGGGTCAAAAATGGAATTTTGGAGAAGTTCGT
1 AGGGTCAAAATTGGAATTTTTG-GAAGTT--T
51277013 -GGGTCAAAAT
1 AGGGTCAAAAT
51277023 ATAATTCTTG
Statistics
Matches: 267, Mismatches: 31, Indels: 56
0.75 0.09 0.16
Matches are distributed among these distances:
19 1 0.00
20 9 0.03
21 5 0.02
24 2 0.01
26 2 0.01
27 4 0.01
28 7 0.03
29 112 0.42
30 115 0.43
31 9 0.03
32 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.26, T:0.38
Consensus pattern (29 bp):
AGGGTCAAAATTGGAATTTTTGGAAGTTT
Found at i:51276757 original size:30 final size:30
Alignment explanation
Indices: 51276683--51277009 Score: 254
Period size: 29 Copynumber: 11.4 Consensus size: 30
51276673 AAAATGGTAA
* *
51276683 TTTT-GAAATTTTAGGGTCAAAATTGGAAT
1 TTTTGGAAGTTTTAGGGTTAAAATTGGAAT
* **
51276712 TTTTGGAAG-TTTAGGGATAAAATTTTAAT
1 TTTTGGAAGTTTTAGGGTTAAAATTGGAAT
51276741 TTTTGGAAGTTTTAGGGTTAAAATTGGAAT
1 TTTTGGAAGTTTTAGGGTTAAAATTGGAAT
* *
51276771 TTTTGGAAG-TTTAGAGG-TAAAAATGTAAT
1 TTTTGGAAGTTTTAG-GGTTAAAATTGGAAT
* * *
51276800 TTTTGGAAGTTTTGGGGTTAAAATAGAAAT
1 TTTTGGAAGTTTTAGGGTTAAAATTGGAAT
* *
51276830 TTTTGGAAG-TTTGGGGGT-AAA----AA-
1 TTTTGGAAGTTTTAGGGTTAAAATTGGAAT
* *
51276853 -TAT--AATTTTTAGGGTTAAAATTGGAAT
1 TTTTGGAAGTTTTAGGGTTAAAATTGGAAT
* * * *
51276880 CTTTGGAAGTTTGAGGG-TAAAAATGTAAT
1 TTTTGGAAGTTTTAGGGTTAAAATTGGAAT
* * *
51276909 TTTTGGAAGTTTTGGGGTCAAAAATGGAAT
1 TTTTGGAAGTTTTAGGGTTAAAATTGGAAT
* * *
51276939 TTTTGGAAG-TTTAGGGGTAAAAATGTAAT
1 TTTTGGAAGTTTTAGGGTTAAAATTGGAAT
* * * * *
51276968 TTTTTGAAATTTTTGGGTCAAAAATGGAAT
1 TTTTGGAAGTTTTAGGGTTAAAATTGGAAT
*
51276998 TTTGGAGAAGTT
1 TTTTG-GAAGTT
51277010 CGTGGGTCAA
Statistics
Matches: 238, Mismatches: 42, Indels: 34
0.76 0.13 0.11
Matches are distributed among these distances:
20 2 0.01
21 7 0.03
22 5 0.02
24 2 0.01
26 2 0.01
28 5 0.02
29 110 0.46
30 100 0.42
31 5 0.02
ACGTcount: A:0.33, C:0.01, G:0.25, T:0.40
Consensus pattern (30 bp):
TTTTGGAAGTTTTAGGGTTAAAATTGGAAT
Found at i:51276768 original size:59 final size:58
Alignment explanation
Indices: 51276673--51277009 Score: 363
Period size: 59 Copynumber: 5.9 Consensus size: 58
51276663 ACCCGAGGGC
*
51276673 AAAATGGTAA-TTTT-GAAATTTTAGGGTCAAAATTGGAATTTTTGGAAGTTTAGGGATA
1 AAAAT-GTAATTTTTGGAAGTTTTAGGGTCAAAATTGGAATTTTTGGAAGTTTAGGG-TA
* * *
51276731 AAATTTTAATTTTTGGAAGTTTTAGGGTTAAAATTGGAATTTTTGGAAGTTTAGAGGTA
1 AAAATGTAATTTTTGGAAGTTTTAGGGTCAAAATTGGAATTTTTGGAAGTTTAG-GGTA
* * * * *
51276790 AAAATGTAATTTTTGGAAGTTTTGGGGTTAAAATAGAAATTTTTGGAAGTTTGGGGGTA
1 AAAATGTAATTTTTGGAAGTTTTAGGGTCAAAATTGGAATTTTTGGAAGTTT-AGGGTA
* * *
51276849 AAAA--T-A----T--AATTTTTAGGGTTAAAATTGGAATCTTTGGAAGTTTGAGGGTA
1 AAAATGTAATTTTTGGAAGTTTTAGGGTCAAAATTGGAATTTTTGGAAGTTT-AGGGTA
* *
51276899 AAAATGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAGTTTAGGGGTA
1 AAAATGTAATTTTTGGAAGTTTTAGGGTCAAAATTGGAATTTTTGGAAGTTTA-GGGTA
* * * * *
51276958 AAAATGTAATTTTTTGAAATTTTTGGGTCAAAAATGGAATTTTGGAGAAGTT
1 AAAATGTAATTTTTGGAAGTTTTAGGGTCAAAATTGGAATTTTTG-GAAGTT
51277010 CGTGGGTCAA
Statistics
Matches: 239, Mismatches: 25, Indels: 28
0.82 0.09 0.10
Matches are distributed among these distances:
50 41 0.17
52 2 0.01
53 1 0.00
56 1 0.00
57 5 0.02
58 9 0.04
59 171 0.72
60 9 0.04
ACGTcount: A:0.34, C:0.01, G:0.25, T:0.39
Consensus pattern (58 bp):
AAAATGTAATTTTTGGAAGTTTTAGGGTCAAAATTGGAATTTTTGGAAGTTTAGGGTA
Found at i:51276888 original size:109 final size:109
Alignment explanation
Indices: 51276750--51276971 Score: 367
Period size: 109 Copynumber: 2.0 Consensus size: 109
51276740 TTTTTGGAAG
*
51276750 TTTTAGGGTTAAAATTGGAATTTTTGGAAGTTT-AGAGGTAAAAATGTAATTTTTGGAAGTTTTG
1 TTTTAGGGTTAAAATTGGAATCTTTGGAAGTTTGAG-GGTAAAAATGTAATTTTTGGAAGTTTTG
* *
51276814 GGGT-TAAAATAGAAATTTTTGGAAGTTTGGGGGTAAAAATATAAT
65 GGGTCAAAAAT-GAAATTTTTGGAAGTTTAGGGGTAAAAATATAAT
51276859 TTTTAGGGTTAAAATTGGAATCTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTGGAAGTTTTGG
1 TTTTAGGGTTAAAATTGGAATCTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTGGAAGTTTTGG
* *
51276924 GGTCAAAAATGGAATTTTTGGAAGTTTAGGGGTAAAAATGTAAT
66 GGTCAAAAATGAAATTTTTGGAAGTTTAGGGGTAAAAATATAAT
51276968 TTTT
1 TTTT
51276972 TGAAATTTTT
Statistics
Matches: 106, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
109 99 0.93
110 7 0.07
ACGTcount: A:0.33, C:0.01, G:0.26, T:0.40
Consensus pattern (109 bp):
TTTTAGGGTTAAAATTGGAATCTTTGGAAGTTTGAGGGTAAAAATGTAATTTTTGGAAGTTTTGG
GGTCAAAAATGAAATTTTTGGAAGTTTAGGGGTAAAAATATAAT
Found at i:51276889 original size:50 final size:50
Alignment explanation
Indices: 51276809--51276912 Score: 154
Period size: 50 Copynumber: 2.1 Consensus size: 50
51276799 TTTTTGGAAG
* * *
51276809 TTTTGGGGTTAAAATAGAAATTTTTGGAAGTTTGGGGGTAAAAATATAAT
1 TTTTAGGGTTAAAATAGAAATCTTTGGAAGTTTGAGGGTAAAAATATAAT
* * *
51276859 TTTTAGGGTTAAAATTGGAATCTTTGGAAGTTTGAGGGTAAAAATGTAAT
1 TTTTAGGGTTAAAATAGAAATCTTTGGAAGTTTGAGGGTAAAAATATAAT
51276909 TTTT
1 TTTT
51276913 GGAAGTTTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.34, C:0.01, G:0.25, T:0.40
Consensus pattern (50 bp):
TTTTAGGGTTAAAATAGAAATCTTTGGAAGTTTGAGGGTAAAAATATAAT
Found at i:51278738 original size:34 final size:35
Alignment explanation
Indices: 51278682--51278748 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
51278672 TTTCGGTCTT
* *
51278682 TTGTTTTGGGTTATTTTGGGCCCGTGTAATTGGGC
1 TTGTGTTGGGTTATATTGGGCCCGTGTAATTGGGC
*
51278717 TTGTGTTGGGTTA-ATTGGGCCCTTGTAATTGG
1 TTGTGTTGGGTTATATTGGGCCCGTGTAATTGG
51278749 ACTTTGGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.10, C:0.10, G:0.34, T:0.45
Consensus pattern (35 bp):
TTGTGTTGGGTTATATTGGGCCCGTGTAATTGGGC
Found at i:51278834 original size:17 final size:17
Alignment explanation
Indices: 51278808--51278883 Score: 55
Period size: 17 Copynumber: 4.5 Consensus size: 17
51278798 TTGGACTTTT
*
51278808 AATTTTAATTCAAAATA
1 AATTTAAATTCAAAATA
* *
51278825 AATTTAAATTTAAAGTA
1 AATTTAAATTCAAAATA
* * *
51278842 AA-TTCAATCTCCAAATG
1 AATTTAAAT-TCAAAATA
* * *
51278859 AATTTGAATTTAGAATA
1 AATTTAAATTCAAAATA
51278876 AATTTAAA
1 AATTTAAA
51278884 CTTATTTAAA
Statistics
Matches: 43, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
16 5 0.12
17 33 0.77
18 5 0.12
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (17 bp):
AATTTAAATTCAAAATA
Found at i:51285539 original size:17 final size:17
Alignment explanation
Indices: 51285495--51285579 Score: 64
Period size: 17 Copynumber: 4.9 Consensus size: 17
51285485 TTGAGTCTAA
*
51285495 ATTTTAAATTTTAATTT
1 ATTTTAAATTTAAATTT
* *
51285512 -TTAAATAAATTTGAATTT
1 ATT--TTAAATTTAAATTT
* *
51285530 ATTTTAAATTCAAATTC
1 ATTTTAAATTTAAATTT
* * *
51285547 ATTTTGAGTTTGAATTT
1 ATTTTAAATTTAAATTT
*
51285564 ACTTTAAATTTAAATT
1 ATTTTAAATTTAAATT
51285580 AAAATAAAAT
Statistics
Matches: 50, Mismatches: 15, Indels: 6
0.70 0.21 0.08
Matches are distributed among these distances:
16 2 0.04
17 34 0.68
18 12 0.24
19 2 0.04
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.54
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:51287596 original size:29 final size:29
Alignment explanation
Indices: 51287534--51287875 Score: 227
Period size: 29 Copynumber: 11.7 Consensus size: 29
51287524 AAGCTGTTCG
* **
51287534 AAAATTACATTTTTACTCTCGAACTTT-T
1 AAAATTACATTTTTACCCTAAAACTTTCT
** *
51287562 AAAAATTTTATTTTGACCCTAAAACTTTCT
1 -AAAATTACATTTTTACCCTAAAACTTTCT
*
51287592 AAAATTACATTTTTACCCCT-AAACTTCCT
1 AAAATTACATTTTTA-CCCTAAAACTTTCT
* * * *
51287621 AAAATTCCATTTTTAACACTAAAACTTCCA
1 AAAATTACATTTTT-ACCCTAAAACTTTCT
** *
51287651 AAAATTACATTTTTACCCTTGAA-TTTCCA
1 AAAATTACATTTTTACCCTAAAACTTT-CT
* *
51287680 AAAATTCCATATTTGACTCC-AAAAC-TTCT
1 AAAATTACAT-TTTTAC-CCTAAAACTTTCT
* * * *
51287709 AAATTTTACATTTTTACCCTTAAACTTCCA
1 AAA-ATTACATTTTTACCCTAAAACTTTCT
51287739 AAAATTACATTTTTACCCCT-AAAC-TTCT
1 AAAATTACATTTTTA-CCCTAAAACTTTCT
* *
51287767 AAAAATTTCATTTTTGACCTTAAAACTTT-T
1 -AAAATTACATTTTT-ACCCTAAAACTTTCT
** * *
51287797 GTTAATTACATTTTTATCCCT-AGACTTTCC
1 -AAAATTACATTTTTA-CCCTAAAACTTTCT
* * *
51287827 AAAATTCCAATTTTAACCCTAAAACTTTCA
1 AAAATTAC-ATTTTTACCCTAAAACTTTCT
51287857 AAAATTACCA-TTTTACCCT
1 AAAATTA-CATTTTTACCCT
51287876 CGAATGTCCA
Statistics
Matches: 243, Mismatches: 49, Indels: 42
0.73 0.15 0.13
Matches are distributed among these distances:
28 6 0.02
29 142 0.58
30 90 0.37
31 5 0.02
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (29 bp):
AAAATTACATTTTTACCCTAAAACTTTCT
Found at i:51287655 original size:59 final size:59
Alignment explanation
Indices: 51287534--51287790 Score: 241
Period size: 59 Copynumber: 4.4 Consensus size: 59
51287524 AAGCTGTTCG
* ** ** ** * * * *
51287534 AAAATTACATTTTTACTCTCGAACTTTTAAAAATTTTA-TTTTGACCCTAAAACTTTCT
1 AAAATTACATTTTTACCCTTAAACTTCCAAAAATTCCATTTTTAACACTAAAACTTCCA
* *
51287592 AAAATTACATTTTTACCCCTAAACTTCCTAAAATTCCATTTTTAACACTAAAACTTCCA
1 AAAATTACATTTTTACCCTTAAACTTCCAAAAATTCCATTTTTAACACTAAAACTTCCA
* * * * * * *
51287651 AAAATTACATTTTTACCCTTGAATTTCCAAAAATTCCATATTTGACTCCAAAACTTCTA
1 AAAATTACATTTTTACCCTTAAACTTCCAAAAATTCCATTTTTAACACTAAAACTTCCA
** * * * *
51287710 AATTTTACATTTTTACCCTTAAACTTCCAAAAATTACATTTTTACCCCT-AAACTTCTA
1 AAAATTACATTTTTACCCTTAAACTTCCAAAAATTCCATTTTTAACACTAAAACTTCCA
*
51287768 AAAATTTCATTTTTGA-CCTTAAA
1 AAAATTACATTTTT-ACCCTTAAA
51287791 ACTTTTGTTA
Statistics
Matches: 162, Mismatches: 35, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
58 56 0.35
59 106 0.65
ACGTcount: A:0.37, C:0.21, G:0.02, T:0.40
Consensus pattern (59 bp):
AAAATTACATTTTTACCCTTAAACTTCCAAAAATTCCATTTTTAACACTAAAACTTCCA
Found at i:51287684 original size:88 final size:87
Alignment explanation
Indices: 51287537--51287874 Score: 238
Period size: 88 Copynumber: 3.8 Consensus size: 87
51287527 CTGTTCGAAA
* ** ** ** * * *
51287537 ATTACATTTTTACTCTCGAACTTTTAAAAATTTTATTTTGA-CCCTAAAACTTTCTAAAATTACA
1 ATTACATTTTTACACTAAAACTTCCAAAAATTACATTTTTACCCCT-AAACTTCCAAAAATTACA
*
51287601 TTTTTACCCCTAAACTTCCTAAA-
65 TTTTTACCCCAAAACTT-CTAAAT
* * * * *
51287624 ATTCCATTTTTAACACTAAAACTTCCAAAAATTACATTTTTACCCTTGAATTTCCAAAAATTCCA
1 ATTACATTTTT-ACACTAAAACTTCCAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACA
* *
51287689 TATTTGACTCCAAAACTTCTAAAT
65 T-TTTTACCCCAAAACTTCTAAAT
* * * * *
51287713 TTTACATTTTTACCCTTAAACTTCCAAAAATTACATTTTTACCCCTAAACTTCTAAAAATTTCAT
1 ATTACATTTTTACACTAAAACTTCCAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACAT
** ***
51287778 TTTTGACCTTAAAACTT-TTGTT
66 TTTT-ACCCCAAAACTTCTAAAT
* * * * * *
51287800 AATTACATTTTTATCCCT-AGACTTTCC-AAAATTCCAATTTTAACCCTAAAACTTTCAAAAATT
1 -ATTACATTTTTA-CACTAAAAC-TTCCAAAAATTACATTTTTACCCCT-AAACTTCCAAAAATT
51287863 ACCA-TTTTACCC
62 A-CATTTTTACCC
51287875 TCGAATGTCC
Statistics
Matches: 198, Mismatches: 43, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
87 15 0.08
88 131 0.66
89 50 0.25
90 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.41
Consensus pattern (87 bp):
ATTACATTTTTACACTAAAACTTCCAAAAATTACATTTTTACCCCTAAACTTCCAAAAATTACAT
TTTTACCCCAAAACTTCTAAAT
Found at i:51287863 original size:59 final size:59
Alignment explanation
Indices: 51287555--51287874 Score: 179
Period size: 59 Copynumber: 5.4 Consensus size: 59
51287545 TTTACTCTCG
* ** * * * *
51287555 AACTTTTAAAAATTTTATTTTGA-CCCTAAAACTTTCT-AAAATTACATTTTTACCCCT-A
1 AACTTTCAAAAATTACATTTTTACCCCT-AAAC-TTCTAAAAATTCCAATTTTAACCCTAA
* * * * * * * * **
51287613 AACTTCCTAAAATTCCATTTTTAACACTAAAACTTCCAAAAATTAC-ATTTTTACCCTTG
1 AACTTTCAAAAATTACATTTTTACCCCT-AAACTTCTAAAAATTCCAATTTTAACCCTAA
* * * * ** * * *
51287672 AA-TTTCCAAAAATTCCATATTTGACTCCAAAACTTCTAAATTTTAC-ATTTTTACCCTTA
1 AACTTT-CAAAAATTACAT-TTTTACCCCTAAACTTCTAAAAATTCCAATTTTAACCCTAA
* * * * *
51287731 AACTTCCAAAAATTACATTTTTACCCCTAAACTTCTAAAAATTTCATTTTTGACCTTAA
1 AACTTTCAAAAATTACATTTTTACCCCTAAACTTCTAAAAATTCCAATTTTAACCCTAA
**** * * *
51287790 AACTTTTGTTAATTACATTTTTATCCCTAGACTT-TCCAAAATTCCAATTTTAACCCTAA
1 AACTTTCAAAAATTACATTTTTACCCCTAAACTTCT-AAAAATTCCAATTTTAACCCTAA
51287849 AACTTTCAAAAATTACCA-TTTTACCC
1 AACTTTCAAAAATTA-CATTTTTACCC
51287875 TCGAATGTCC
Statistics
Matches: 201, Mismatches: 52, Indels: 17
0.74 0.19 0.06
Matches are distributed among these distances:
58 52 0.26
59 140 0.70
60 9 0.04
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (59 bp):
AACTTTCAAAAATTACATTTTTACCCCTAAACTTCTAAAAATTCCAATTTTAACCCTAA
Found at i:51287924 original size:56 final size:57
Alignment explanation
Indices: 51287849--51288043 Score: 191
Period size: 59 Copynumber: 3.4 Consensus size: 57
51287839 TTAACCCTAA
* *
51287849 AACTTTC-AAAAATTACCATTTTACCCTCGAATGTCCAAAAACTCCATTTTGACCTCG
1 AACTTTCTAAAAATTACCATTTTACCCTCAAATGTCCAAAAA-TTCATTTTGACCTCG
* * * *
51287906 AACTTT-T-AAAATTACCATTTTAGCCTCAAATATCCAAAAATTTCATTTTTGATCTTG
1 AACTTTCTAAAAATTACCATTTTACCCTCAAATGTCCAAAAA-TTCA-TTTTGACCTCG
** * * * * *
51287963 ATTTTTCTAAAAATTACCGTTTTACCCTCAAATGTCTAAAAATTCATTTTTAACCCCAA
1 AACTTTCTAAAAATTACCATTTTACCCTCAAATGTCCAAAAATTCA-TTTTGACCTC-G
*
51288022 AATTTTCT-AAAATTACCATTTT
1 AACTTTCTAAAAATTACCATTTT
51288044 GCCCCTAGGT
Statistics
Matches: 113, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
56 33 0.29
57 19 0.17
58 25 0.22
59 36 0.32
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.39
Consensus pattern (57 bp):
AACTTTCTAAAAATTACCATTTTACCCTCAAATGTCCAAAAATTCATTTTGACCTCG
Found at i:51287932 original size:28 final size:29
Alignment explanation
Indices: 51287855--51287947 Score: 86
Period size: 28 Copynumber: 3.3 Consensus size: 29
51287845 CTAAAACTTT
*
51287855 CAAAAATTACCATTTTACCCTCGAATGTC
1 CAAAAATTACCATTTTAGCCTCGAATGTC
*
51287884 CAAAAACT-CCATTTT-GACCTCGAACT-T-
1 CAAAAATTACCATTTTAG-CCTCGAA-TGTC
** * *
51287911 TTAAAATTACCATTTTAGCCTCAAATATC
1 CAAAAATTACCATTTTAGCCTCGAATGTC
51287940 CAAAAATT
1 CAAAAATT
51287948 TCATTTTTGA
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
27 6 0.12
28 29 0.58
29 15 0.30
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (29 bp):
CAAAAATTACCATTTTAGCCTCGAATGTC
Found at i:51288014 original size:28 final size:29
Alignment explanation
Indices: 51287968--51288022 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
51287958 TCTTGATTTT
*
51287968 TCTAAAAATTACCGTTTT-ACCCTCAAATG
1 TCTAAAAATTACAGTTTTAACCC-CAAATG
*
51287997 TCTAAAAATT-CATTTTTAACCCCAAA
1 TCTAAAAATTACAGTTTTAACCCCAAA
51288023 ATTTTCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.35
Consensus pattern (29 bp):
TCTAAAAATTACAGTTTTAACCCCAAATG
Found at i:51298839 original size:20 final size:20
Alignment explanation
Indices: 51298816--51298854 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
51298806 TTTTATGAGT
51298816 ATTTTA-TATTTGAATATTTA
1 ATTTTATTATTTG-ATATTTA
51298836 ATTTTATTATTTGATATTT
1 ATTTTATTATTTGATATTT
51298855 GTAAATACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
ATTTTATTATTTGATATTTA
Found at i:51299397 original size:28 final size:28
Alignment explanation
Indices: 51299365--51299424 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
51299355 TTATGTAACC
* *
51299365 TTATATTAAATTATTCAAATATCATGTA
1 TTATATTAAATTATTCAAATATAATATA
*
51299393 TTATATTAAATTATTTAAATATAATATA
1 TTATATTAAATTATTCAAATATAATATA
51299421 TTAT
1 TTAT
51299425 TATGTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (28 bp):
TTATATTAAATTATTCAAATATAATATA
Found at i:51299457 original size:13 final size:13
Alignment explanation
Indices: 51299439--51299477 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
51299429 TTAAATTTTT
51299439 TAAATATTATTTA
1 TAAATATTATTTA
51299452 TAAATATTATTATA
1 TAAATATTATT-TA
*
51299466 TTAA-ATTATTTA
1 TAAATATTATTTA
51299478 AATGTCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 2 0.08
13 17 0.71
14 5 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TAAATATTATTTA
Found at i:51299475 original size:16 final size:14
Alignment explanation
Indices: 51299433--51299471 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
51299423 ATTATGTTAA
*
51299433 ATTTTTTAAATATT
1 ATTTATTAAATATT
51299447 ATTTA-TAAATATT
1 ATTTATTAAATATT
51299460 ATTATATTAAAT
1 ATT-TATTAAAT
51299472 TATTTAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 11 0.50
14 6 0.27
15 5 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTATTAAATATT
Found at i:51299488 original size:37 final size:38
Alignment explanation
Indices: 51299412--51299498 Score: 113
Period size: 37 Copynumber: 2.3 Consensus size: 38
51299402 ATTATTTAAA
* * *
51299412 TATAATATATTATTATGTTAAATTTTTTAAATATTATT
1 TATAATATATTATTATATTAAATTATTTAAATATCATT
*
51299450 TATAA-ATATTATTATATTAAATTATTTAAATGTCATT
1 TATAATATATTATTATATTAAATTATTTAAATATCATT
*
51299487 TATCATTATATT
1 TAT-AATATATT
51299499 TAAAATTTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 31 0.74
38 6 0.14
39 5 0.12
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (38 bp):
TATAATATATTATTATATTAAATTATTTAAATATCATT
Found at i:51318453 original size:32 final size:32
Alignment explanation
Indices: 51318417--51318478 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
51318407 AGTTAAATAT
51318417 AAATACCT-TTTTATATATTTTTAATTTATTAA
1 AAATACCTATTTTA-ATATTTTTAATTTATTAA
**
51318449 AAATATTTATTTTAATATTTTTAATTTATT
1 AAATACCTATTTTAATATTTTTAATTTATT
51318479 TGATTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 22 0.81
33 5 0.19
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (32 bp):
AAATACCTATTTTAATATTTTTAATTTATTAA
Found at i:51322383 original size:7 final size:8
Alignment explanation
Indices: 51322366--51322451 Score: 70
Period size: 8 Copynumber: 11.0 Consensus size: 8
51322356 AAACTATAAG
51322366 AAATATAT
1 AAATATAT
51322374 AAAT-TAT
1 AAATATAT
51322381 AAA-ACT-T
1 AAATA-TAT
*
51322388 CAATATAT
1 AAATATAT
*
51322396 ATATATAT
1 AAATATAT
*
51322404 ATATATAT
1 AAATATAT
*
51322412 ATATATAT
1 AAATATAT
*
51322420 ATATATAT
1 AAATATAT
*
51322428 ATATATAT
1 AAATATAT
*
51322436 ATATATAT
1 AAATATAT
*
51322444 ATATATAT
1 AAATATAT
51322452 TTAAAAATAT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
7 10 0.14
8 61 0.86
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (8 bp):
AAATATAT
Found at i:51322397 original size:2 final size:2
Alignment explanation
Indices: 51322390--51322468 Score: 131
Period size: 2 Copynumber: 39.5 Consensus size: 2
51322380 TAAAACTTCA
51322390 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
51322432 AT AT AT AT AT AT AT AT AT AT TT AA AA AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
51322469 AAAATTGAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51322479 original size:22 final size:22
Alignment explanation
Indices: 51322436--51322479 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
51322426 ATATATATAT
* * *
51322436 ATATATATATATATATTTAAAA
1 ATATATATATAAAAATTGAAAA
51322458 ATATATATATAAAAATTGAAAA
1 ATATATATATAAAAATTGAAAA
51322480 TAAAAATAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (22 bp):
ATATATATATAAAAATTGAAAA
Found at i:51322732 original size:22 final size:23
Alignment explanation
Indices: 51322702--51322744 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
51322692 CTCCTAGTCA
*
51322702 AATTATTTTTTTGTA-ACTTTCT
1 AATTATTTTTGTGTATACTTTCT
*
51322724 AATTTTTTTTGTGTATACTTT
1 AATTATTTTTGTGTATACTTT
51322745 AATTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.65
Consensus pattern (23 bp):
AATTATTTTTGTGTATACTTTCT
Found at i:51322747 original size:21 final size:23
Alignment explanation
Indices: 51322702--51322760 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 23
51322692 CTCCTAGTCA
51322702 AATTATTTTTT-TGTA-ACTTTCT
1 AATT-TTTTTTGTGTATACTTTCT
51322724 AATTTTTTTTGTGTATAC-TT-T
1 AATTTTTTTTGTGTATACTTTCT
*
51322745 AATTTTATTTGT-TATA
1 AATTTTTTTTGTGTATA
51322761 GATTTTTAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 4 0.12
21 18 0.53
22 10 0.29
23 2 0.06
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.64
Consensus pattern (23 bp):
AATTTTTTTTGTGTATACTTTCT
Found at i:51323036 original size:23 final size:24
Alignment explanation
Indices: 51322993--51323042 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
51322983 TAAGGATGAA
* *
51322993 TCCACGTGTTGTCTCCTTATT-TC
1 TCCACGTATTGCCTCCTTATTGTC
51323016 TCCACGTATTGCCT-CTATATTGTC
1 TCCACGTATTGCCTCCT-TATTGTC
51323040 TCC
1 TCC
51323043 TTATTTCTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 2 0.09
23 16 0.70
24 5 0.22
ACGTcount: A:0.12, C:0.32, G:0.12, T:0.44
Consensus pattern (24 bp):
TCCACGTATTGCCTCCTTATTGTC
Found at i:51323044 original size:34 final size:36
Alignment explanation
Indices: 51323001--51323075 Score: 136
Period size: 34 Copynumber: 2.1 Consensus size: 36
51322991 AATCCACGTG
51323001 TTGTCTCCTTATTTCTCC-ACGTATTGCCTCTATA-
1 TTGTCTCCTTATTTCTCCAACGTATTGCCTCTATAC
51323035 TTGTCTCCTTATTTCTCCAACGTATTGCCTCTATAC
1 TTGTCTCCTTATTTCTCCAACGTATTGCCTCTATAC
51323071 TTGTC
1 TTGTC
51323076 CATATCAACA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 18 0.46
35 16 0.41
36 5 0.13
ACGTcount: A:0.15, C:0.29, G:0.09, T:0.47
Consensus pattern (36 bp):
TTGTCTCCTTATTTCTCCAACGTATTGCCTCTATAC
Found at i:51326333 original size:21 final size:22
Alignment explanation
Indices: 51326294--51326334 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
51326284 TTACAAGGAC
* *
51326294 AAATTTTTAAGAATGAAAATGA
1 AAATTTTTAACAATAAAAATGA
51326316 AAATTTTTAACAA-AAAAAT
1 AAATTTTTAACAATAAAAAT
51326335 TAATTTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (22 bp):
AAATTTTTAACAATAAAAATGA
Found at i:51331512 original size:19 final size:18
Alignment explanation
Indices: 51331488--51331530 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
51331478 TAATCATGTA
51331488 ATAAATTATTATAATTAAT
1 ATAAATTATTAT-ATTAAT
* *
51331507 ATAAATCATTATCTTAAT
1 ATAAATTATTATATTAAT
51331525 A-AAATT
1 ATAAATT
51331531 CTTTAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 4 0.19
18 6 0.29
19 11 0.52
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAAATTATTATATTAAT
Found at i:51333092 original size:26 final size:26
Alignment explanation
Indices: 51333061--51333121 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
51333051 TTATATAATG
51333061 AAATAATTTGTAGTCAGATTTTGAAT
1 AAATAATTTGTAGTCAGATTTTGAAT
51333087 AAATAATTTGTAGTCAGATTTTGAAT
1 AAATAATTTGTAGTCAGATTTTGAAT
51333113 AAATAATTT
1 AAATAATTT
51333122 TACCTTGAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.43
Consensus pattern (26 bp):
AAATAATTTGTAGTCAGATTTTGAAT
Found at i:51334188 original size:30 final size:30
Alignment explanation
Indices: 51334155--51334379 Score: 212
Period size: 29 Copynumber: 7.7 Consensus size: 30
51334145 TTGAACTTTT
* * * *
51334155 AAAAATTATATTTTTGACTCTAAAACTTCT
1 AAAAATTACATTTTTGACCCTCAAACTTCC
*
51334185 AAAAATTATATTTTT-ACCC-CTAAACTTCC
1 AAAAATTACATTTTTGACCCTC-AAACTTCC
* * *
51334214 AAAAATTAAATTTTTG-CCCCCGAAACTACC
1 AAAAATTACATTTTTGACCCTC-AAACTTCC
* *
51334244 AAAAATTCCA-TTTT-ACCCCCAAACTTCC
1 AAAAATTACATTTTTGACCCTCAAACTTCC
* *
51334272 AAAAATTACATTCTT-ACCCCCAAACTTCC
1 AAAAATTACATTTTTGACCCTCAAACTTCC
* *
51334301 AAAAATTCCATTTTTGACCCTAAAACTTCC
1 AAAAATTACATTTTTGACCCTCAAACTTCC
* *
51334331 AAAAATTACATTTTTGA-CCTCGAACTTCT
1 AAAAATTACATTTTTGACCCTCAAACTTCC
* * *
51334360 AAAATTTTCATTTTTAACCC
1 AAAAATTACATTTTTGACCC
51334380 CGAAACTCTC
Statistics
Matches: 166, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
28 16 0.10
29 89 0.54
30 61 0.37
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAAATTACATTTTTGACCCTCAAACTTCC
Found at i:51334240 original size:59 final size:59
Alignment explanation
Indices: 51334127--51334386 Score: 224
Period size: 59 Copynumber: 4.4 Consensus size: 59
51334117 AATCAAAAGG
* * * * ** * * ** *
51334127 AAAATTATAATTTTGCCCTTGAACTTTTAAAAATTATATTTTTGACTCTAAAACTTCTA
1 AAAATTATATTTTTACCCCTAAACTTCCAAAAATTACATTTTTGACCCCGAAACTTCCA
* * *
51334186 AAAATTATATTTTTACCCCTAAACTTCCAAAAATTAAATTTTTGCCCCCGAAACTACCA
1 AAAATTATATTTTTACCCCTAAACTTCCAAAAATTACATTTTTGACCCCGAAACTTCCA
** * * *
51334245 AAAATTCCA-TTTTACCCCCAAACTTCCAAAAATTACATTCTT-ACCCCCAAACTTCCA
1 AAAATTATATTTTTACCCCTAAACTTCCAAAAATTACATTTTTGACCCCGAAACTTCCA
** * *
51334302 AAAATTCCATTTTTGA-CCCTAAAACTTCCAAAAATTACATTTTTGACCTCG-AACTT-CT
1 AAAATTATATTTTT-ACCCCT-AAACTTCCAAAAATTACATTTTTGACCCCGAAACTTCCA
* *
51334360 AAAATTTTCATTTTTAACCCCGAAACT
1 AAAATTAT-ATTTTT-ACCCCTAAACT
51334387 CTCGAAATTA
Statistics
Matches: 165, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
57 21 0.13
58 44 0.27
59 93 0.56
60 7 0.04
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.35
Consensus pattern (59 bp):
AAAATTATATTTTTACCCCTAAACTTCCAAAAATTACATTTTTGACCCCGAAACTTCCA
Found at i:51334364 original size:87 final size:87
Alignment explanation
Indices: 51334155--51334365 Score: 237
Period size: 87 Copynumber: 2.4 Consensus size: 87
51334145 TTGAACTTTT
* * * * *
51334155 AAAAATTATATTTTTGACTCTAAAACTTCTAAAAATTATATTTTTACCCCTAAACTTCCAAAAAT
1 AAAAATTACATTTTTGAC-CTCAAACTTCT-AAAATTACATTCTTACCCCCAAACTTCCAAAAAT
* *
51334220 TAAATTTTTGCCCCCGAAACTACC
64 TAAATTTTTGACCCCAAAACTACC
* * *
51334244 AAAAATTCCA-TTTT-ACCCCCAAACTTCCAAAAATTACATTCTTACCCCCAAACTTCCAAAAAT
1 AAAAATTACATTTTTGA-CCTCAAACTT-CTAAAATTACATTCTTACCCCCAAACTTCCAAAAAT
** * *
51334307 TCCATTTTTGACCCTAAAACTTCC
64 TAAATTTTTGACCCCAAAACTACC
*
51334331 AAAAATTACATTTTTGACCTCGAACTTCTAAAATT
1 AAAAATTACATTTTTGACCTCAAACTTCTAAAATT
51334366 TTCATTTTTA
Statistics
Matches: 100, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
87 73 0.73
88 18 0.18
89 9 0.09
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (87 bp):
AAAAATTACATTTTTGACCTCAAACTTCTAAAATTACATTCTTACCCCCAAACTTCCAAAAATTA
AATTTTTGACCCCAAAACTACC
Found at i:51334371 original size:29 final size:29
Alignment explanation
Indices: 51334127--51334383 Score: 153
Period size: 29 Copynumber: 8.8 Consensus size: 29
51334117 AATCAAAAGG
* * * * **
51334127 AAAATTATAATTTTGCCCTTGAACTTTTA
1 AAAATTACATTTTTGACCTCGAACTTCCA
* ** *
51334156 AAAATTATATTTTTGACTCTAAAACTTCTA
1 AAAATTACATTTTTGAC-CTCGAACTTCCA
* * *
51334186 AAAATTATATTTTT-ACCCCTAAACTTCCA
1 AAAATTACATTTTTGACCTC-GAACTTCCA
* * * *
51334215 AAAATTAAATTTTTGCCCCCGAAACTACCA
1 AAAATTACATTTTTGACCTCG-AACTTCCA
* * *
51334245 AAAATTCCA-TTTT-ACCCCCAAACTTCCA
1 AAAATTACATTTTTGA-CCTCGAACTTCCA
* * *
51334273 AAAATTACATTCTT-ACCCCCAAACTTCCA
1 AAAATTACATTTTTGA-CCTCGAACTTCCA
* **
51334302 AAAATTCCATTTTTGACCCTAAAACTTCCA
1 AAAATTACATTTTTGA-CCTCGAACTTCCA
*
51334332 AAAATTACATTTTTGACCTCGAACTTCTA
1 AAAATTACATTTTTGACCTCGAACTTCCA
* * * *
51334361 AAATTTTCATTTTTAACCCCGAA
1 AAAATTACATTTTTGACCTCGAA
51334384 ACTCTCGAAA
Statistics
Matches: 190, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
28 16 0.08
29 105 0.55
30 69 0.36
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATTACATTTTTGACCTCGAACTTCCA
Found at i:51334453 original size:58 final size:59
Alignment explanation
Indices: 51334391--51334524 Score: 155
Period size: 58 Copynumber: 2.3 Consensus size: 59
51334381 GAAACTCTCG
* * * * *
51334391 AAATTACCATTTTACCCTTGAATATCCAAAATCTCATTTTTGATCTCGA-TTTTT-CTAA
1 AAATTACCATTTTACCCTCGAATATCCAAAATCTCATTTTTAACCCCAATTTTTTCCT-A
* * * * *
51334449 AAATTAGCATTTTACCCTCGATTGTCTAAAATGTCATTTTTAACCCCAATTTTTTCCTA
1 AAATTACCATTTTACCCTCGAATATCCAAAATCTCATTTTTAACCCCAATTTTTTCCTA
51334508 AAATTACCATTTTACCC
1 AAATTACCATTTTACCC
51334525 CCAGGCATCC
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
58 39 0.62
59 22 0.35
60 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.05, T:0.42
Consensus pattern (59 bp):
AAATTACCATTTTACCCTCGAATATCCAAAATCTCATTTTTAACCCCAATTTTTTCCTA
Found at i:51335814 original size:80 final size:80
Alignment explanation
Indices: 51335681--51335829 Score: 280
Period size: 80 Copynumber: 1.9 Consensus size: 80
51335671 CAATGGAAGT
*
51335681 ATGGCAACTATCAAAGCTAACCCACCATACGTCAATAAATAATTAAAGAAGAATGAAAATATATA
1 ATGGCAACTATCAAAGCTAACCCACCATACATCAATAAATAATTAAAGAAGAATGAAAATATATA
51335746 AATAGGAATAGATGA
66 AATAGGAATAGATGA
*
51335761 ATGGCAACTATCAAAGGTAACCCACCATACATCAATAAATAATTAAAGAAGAATGAAAATATATA
1 ATGGCAACTATCAAAGCTAACCCACCATACATCAATAAATAATTAAAGAAGAATGAAAATATATA
51335826 AATA
66 AATA
51335830 ATTATAAAGG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 67 1.00
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.21
Consensus pattern (80 bp):
ATGGCAACTATCAAAGCTAACCCACCATACATCAATAAATAATTAAAGAAGAATGAAAATATATA
AATAGGAATAGATGA
Found at i:51344443 original size:8 final size:7
Alignment explanation
Indices: 51344427--51344467 Score: 55
Period size: 8 Copynumber: 5.4 Consensus size: 7
51344417 TTCAATAAAT
51344427 AAAAAGA
1 AAAAAGA
51344434 AAAGAAGA
1 AAA-AAGA
51344442 AAAAAGAA
1 AAAAAG-A
51344450 AAAAAGA
1 AAAAAGA
51344457 GAAAAAGA
1 -AAAAAGA
51344465 AAA
1 AAA
51344468 GAAAAGGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 10 0.32
8 21 0.68
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:51344447 original size:15 final size:16
Alignment explanation
Indices: 51344427--51344470 Score: 72
Period size: 15 Copynumber: 2.8 Consensus size: 16
51344417 TTCAATAAAT
51344427 AAAAAGAAAAGAAGA-
1 AAAAAGAAAAGAAGAG
*
51344442 AAAAAGAAAAAAAGAG
1 AAAAAGAAAAGAAGAG
51344458 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
51344471 AAGGAGAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAGAAGAG
Found at i:51344473 original size:10 final size:10
Alignment explanation
Indices: 51344428--51344473 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
51344418 TCAATAAATA
51344428 AAAAGAAAAG
1 AAAAGAAAAG
51344438 AAGAA-AAAAG
1 AA-AAGAAAAG
51344448 AAAA-AAAGAG
1 AAAAGAAA-AG
51344458 AAAAAGAAAAG
1 -AAAAGAAAAG
51344469 AAAAG
1 AAAAG
51344474 GAGAGGTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
9 5 0.16
10 16 0.50
11 8 0.25
12 3 0.09
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAG
Found at i:51345951 original size:6 final size:6
Alignment explanation
Indices: 51345942--51345987 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
51345932 TTAATTAAGA
* *
51345942 TAAATT TAAATT TAAA-T TAAATT TAAAAT TAAA-T TAAATT TTAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
51345988 AAAAATCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
5 10 0.28
6 26 0.72
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TAAATT
Found at i:51345962 original size:17 final size:17
Alignment explanation
Indices: 51345926--51345987 Score: 76
Period size: 17 Copynumber: 3.8 Consensus size: 17
51345916 TAATATTATT
51345926 TTAAATTT-AA-TTAAGA
1 TTAAATTTAAATTTAA-A
51345942 -TAAATTTAAATTTAAA
1 TTAAATTTAAATTTAAA
*
51345958 TTAAATTTAAAATTAAA
1 TTAAATTTAAATTTAAA
*
51345975 TTAAATTTTAATT
1 TTAAATTTAAATT
51345988 AAAAATCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
15 7 0.17
16 3 0.08
17 30 0.75
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
TTAAATTTAAATTTAAA
Found at i:51345963 original size:5 final size:5
Alignment explanation
Indices: 51345926--51345981 Score: 51
Period size: 5 Copynumber: 10.4 Consensus size: 5
51345916 TAATATTATT
*
51345926 TTAAA TTTAA TTAAGA -TAAA TTTAAA TTTAAA TTAAA TTTAAAA TTAAA
1 TTAAA TTAAA TTAA-A TTAAA -TTAAA -TTAAA TTAAA -TT-AAA TTAAA
51345975 TTAAA TT
1 TTAAA TT
51345982 TTAATTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 1 0.02
5 25 0.57
6 15 0.34
7 3 0.07
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (5 bp):
TTAAA
Found at i:51345990 original size:11 final size:12
Alignment explanation
Indices: 51345942--51345987 Score: 60
Period size: 11 Copynumber: 4.0 Consensus size: 12
51345932 TTAATTAAGA
51345942 TAAATTTAAATT
1 TAAATTTAAATT
51345954 TAAA-TTAAATT
1 TAAATTTAAATT
*
51345965 TAAAATTAAA-T
1 TAAATTTAAATT
*
51345976 TAAATTTTAATT
1 TAAATTTAAATT
51345988 AAAAATCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 20 0.67
12 10 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TAAATTTAAATT
Found at i:51346464 original size:17 final size:17
Alignment explanation
Indices: 51346444--51346503 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
51346434 GAAAGATGAA
51346444 AGGTTAAAGGTCAAGAG
1 AGGTTAAAGGTCAAGAG
51346461 AGGTT-AAGG--AAGATGG
1 AGGTTAAAGGTCAAGA--G
*
51346477 ACGGTTAAAAGTCAAGAG
1 A-GGTTAAAGGTCAAGAG
51346495 AGGTTAAAG
1 AGGTTAAAG
51346504 AAGATGACAG
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
14 4 0.11
16 6 0.17
17 16 0.46
18 5 0.14
20 4 0.11
ACGTcount: A:0.42, C:0.05, G:0.35, T:0.18
Consensus pattern (17 bp):
AGGTTAAAGGTCAAGAG
Found at i:51346474 original size:34 final size:34
Alignment explanation
Indices: 51346429--51346530 Score: 150
Period size: 34 Copynumber: 3.0 Consensus size: 34
51346419 AATATGAAAA
* *
51346429 GTTAAGAAAGATGAAAGGTTAAAGGTCAAGAGAG
1 GTTAAGGAAGATGAAAGGTTAAAAGTCAAGAGAG
* *
51346463 GTTAAGGAAGATGGACGGTTAAAAGTCAAGAGAG
1 GTTAAGGAAGATGAAAGGTTAAAAGTCAAGAGAG
* *
51346497 GTTAAAGAAGATGACAGGTTAAAAGTCAAGAGAG
1 GTTAAGGAAGATGAAAGGTTAAAAGTCAAGAGAG
51346531 ACGAAAGGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 60 1.00
ACGTcount: A:0.45, C:0.05, G:0.32, T:0.18
Consensus pattern (34 bp):
GTTAAGGAAGATGAAAGGTTAAAAGTCAAGAGAG
Found at i:51352287 original size:72 final size:71
Alignment explanation
Indices: 51352197--51352431 Score: 344
Period size: 72 Copynumber: 3.3 Consensus size: 71
51352187 AAAAGTACCA
*
51352197 TTTAATTGATTTCCTGAAACATCAAACAACTCCAAAGATGATAACTCTCCTATAGACAAGGGAAT
1 TTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGATAACTC-CCTATAGACAAGGGAAT
51352262 TTGGCCG
65 TTGGCCG
* * *
51352269 TTTAATTGATTTTTTGAAACATCAAACAACTCCAAAGATGACAACTGCCCTATGGACAAGGGAAT
1 TTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGATAACT-CCCTATAGACAAGGGAAT
51352334 TTGGCCG
65 TTGGCCG
* * * * *
51352341 CTTAATTGATTTTCTGAAACATCAAGCAACTTCAAAGATGATAACTCCCCTATCGACAATGGAAT
1 TTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGATAACT-CCCTATAGACAAGGGAAT
* *
51352406 TTGACCA
65 TTGGCCG
51352413 TTTAATTGATTTTCTGAAA
1 TTTAATTGATTTTCTGAAA
51352432 GATGAAGGTG
Statistics
Matches: 147, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
72 146 0.99
73 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (71 bp):
TTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGATAACTCCCTATAGACAAGGGAATT
TGGCCG
Found at i:51357327 original size:20 final size:20
Alignment explanation
Indices: 51357296--51357347 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
51357286 GGAATTATTT
*
51357296 AAAAATTCAAAAAAATTATA
1 AAAAATTTAAAAAAATTATA
* *
51357316 AGAAATTTAAAAAAATTTTA
1 AAAAATTTAAAAAAATTATA
*
51357336 AAAAATATAAAA
1 AAAAATTTAAAA
51357348 TTTAAAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAATTTAAAAAAATTATA
Found at i:51360021 original size:72 final size:72
Alignment explanation
Indices: 51359874--51360021 Score: 190
Period size: 72 Copynumber: 2.1 Consensus size: 72
51359864 GAGGAAAAGT
* *
51359874 ACCATTTAATTGATTTTCTGAAACATCAAAGAACTCCAATGATGACAATTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAAGAACTCCAAAGATGACAACTCCCCTATAGACAATG
**
51359939 AAATTTG
66 AAATGGG
* * * **
51359946 ACCATTTAATTGATTTT-TAGAAACATCAAAGAATTTCAAAGATGACAACTCCCCTATGGATGAT
1 ACCATTTAATTGATTTTCT-GAAACATCAAAGAACTCCAAAGATGACAACTCCCCTATAGACAAT
*
51360010 GGAATGGG
65 GAAATGGG
51360018 ACCA
1 ACCA
51360022 GAAATTTTGT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
71 1 0.02
72 64 0.98
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAAGAACTCCAAAGATGACAACTCCCCTATAGACAATG
AAATGGG
Found at i:51366001 original size:329 final size:329
Alignment explanation
Indices: 51365403--51366064 Score: 1306
Period size: 329 Copynumber: 2.0 Consensus size: 329
51365393 CGATTGTAAA
51365403 TGGTGATGCAGTTGTTTATAGTTTAAAATTGATTTATGCTCCTCTCGTATTTATGGTCTATAAAG
1 TGGTGATGCAGTTGTTTATAGTTTAAAATTGATTTATGCTCCTCTCGTATTTATGGTCTATAAAG
51365468 ACATAACATGATGTTATGGGAAAAGGAAAAGGGACAGAAGTCTCATATATACTGTCGAAACGTTT
66 ACATAACATGATGTTATGGGAAAAGGAAAAGGGACAGAAGTCTCATATATACTGTCGAAACGTTT
*
51365533 TTTTTAAAAAAAATAAGTCTAGAAAATGTTTTTAATTGAAAAACGGGAGTCGTCACCAATCTTTT
131 TTTTAAAAAAAAATAAGTCTAGAAAATGTTTTTAATTGAAAAACGGGAGTCGTCACCAATCTTTT
51365598 ATTCGGTGTGATTGGATCACCACAAAATGTTTAAAAATCCGTTTTGAACAATATTTTAGTCTTCG
196 ATTCGGTGTGATTGGATCACCACAAAATGTTTAAAAATCCGTTTTGAACAATATTTTAGTCTTCG
51365663 AAATCCAAAAAATGGATTCGAGAGTCGATTACGTGTGAGGAATGATTAGCACCCTCACACACTCA
261 AAATCCAAAAAATGGATTCGAGAGTCGATTACGTGTGAGGAATGATTAGCACCCTCACACACTCA
51365728 AAAT
326 AAAT
51365732 TGGTGATGCAGTTGTTTATAGTTTAAAATTGATTTATGCTCCTCTCGTATTTATGGTCTATAAAG
1 TGGTGATGCAGTTGTTTATAGTTTAAAATTGATTTATGCTCCTCTCGTATTTATGGTCTATAAAG
*
51365797 ACATAACATGATGTTATGGGAAAAGGAAAAGGGACAGAAGTCTTATATATACTGTCGAAACGTTT
66 ACATAACATGATGTTATGGGAAAAGGAAAAGGGACAGAAGTCTCATATATACTGTCGAAACGTTT
51365862 TTTTAAAAAAAAATAAGTCTAGAAAATGTTTTTAATTGAAAAACGGGAGTCGTCACCAATCTTTT
131 TTTTAAAAAAAAATAAGTCTAGAAAATGTTTTTAATTGAAAAACGGGAGTCGTCACCAATCTTTT
51365927 ATTCGGTGTGATTGGATCACCACAAAATGTTTAAAAATCCGTTTTGAACAATATTTTAGTCTTCG
196 ATTCGGTGTGATTGGATCACCACAAAATGTTTAAAAATCCGTTTTGAACAATATTTTAGTCTTCG
51365992 AAATCCAAAAAATGGATTCGAGAGTCGATTACGTGTGAGGAATGATTAGCACCCTCACACACTCA
261 AAATCCAAAAAATGGATTCGAGAGTCGATTACGTGTGAGGAATGATTAGCACCCTCACACACTCA
51366057 AAAT
326 AAAT
51366061 TGGT
1 TGGT
51366065 ACCATGTCGA
Statistics
Matches: 331, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
329 331 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (329 bp):
TGGTGATGCAGTTGTTTATAGTTTAAAATTGATTTATGCTCCTCTCGTATTTATGGTCTATAAAG
ACATAACATGATGTTATGGGAAAAGGAAAAGGGACAGAAGTCTCATATATACTGTCGAAACGTTT
TTTTAAAAAAAAATAAGTCTAGAAAATGTTTTTAATTGAAAAACGGGAGTCGTCACCAATCTTTT
ATTCGGTGTGATTGGATCACCACAAAATGTTTAAAAATCCGTTTTGAACAATATTTTAGTCTTCG
AAATCCAAAAAATGGATTCGAGAGTCGATTACGTGTGAGGAATGATTAGCACCCTCACACACTCA
AAAT
Found at i:51366754 original size:23 final size:24
Alignment explanation
Indices: 51366728--51366785 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
51366718 TTATATTAGG
*
51366728 ATTTAATATTTAAGA-TATTATTT-
1 ATTTAATATTTAA-ATTAGTATTTA
*
51366751 ATTTATTATTTAAATTAGTATTTA
1 ATTTAATATTTAAATTAGTATTTA
51366775 ATTT-ATATTTA
1 ATTTAATATTTA
51366786 TCTTTCTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 1 0.03
23 25 0.83
24 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (24 bp):
ATTTAATATTTAAATTAGTATTTA
Found at i:51366759 original size:11 final size:12
Alignment explanation
Indices: 51366728--51366785 Score: 57
Period size: 12 Copynumber: 5.0 Consensus size: 12
51366718 TTATATTAGG
*
51366728 ATTTAATATTTA
1 ATTTATTATTTA
**
51366740 AGATATTATTT-
1 ATTTATTATTTA
51366751 ATTTATTATTTA
1 ATTTATTATTTA
* *
51366763 AATTAGTATTTA
1 ATTTATTATTTA
51366775 ATTTA-TATTTA
1 ATTTATTATTTA
51366786 TCTTTCTGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
11 15 0.41
12 22 0.59
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (12 bp):
ATTTATTATTTA
Found at i:51367602 original size:22 final size:22
Alignment explanation
Indices: 51367576--51367620 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
51367566 TCGACTTCCT
*
51367576 TATTTTCTATTTCTTTTAGTTC
1 TATTTTCTATTTCTTTTAATTC
* *
51367598 TATTTTCTTTTTTTTTTAATTC
1 TATTTTCTATTTCTTTTAATTC
51367620 T
1 T
51367621 GTTTCTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.73
Consensus pattern (22 bp):
TATTTTCTATTTCTTTTAATTC
Found at i:51370396 original size:5 final size:6
Alignment explanation
Indices: 51370378--51370467 Score: 56
Period size: 6 Copynumber: 13.3 Consensus size: 6
51370368 GGCAACCCAA
* *
51370378 TTATTT TTATTT TTATTT TTATTTT TTATTT CTCATTTT TTATTT CTCATTTT
1 TTATTT TTATTT TTATTT TTA-TTT TTATTT -TTA-TTT TTATTT -TTA-TTT
51370431 TTATTT CTCTATCTT ATT-TTAT TTATTT ATTATTT TT
1 TTATTT -T-TAT-TT -TTATT-T TTATTT -TTATTT TT
51370468 GTCCAGAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
6 30 0.44
7 25 0.37
8 10 0.15
9 3 0.04
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:51370397 original size:7 final size:7
Alignment explanation
Indices: 51370381--51370467 Score: 63
Period size: 7 Copynumber: 12.6 Consensus size: 7
51370371 AACCCAATTA
51370381 TTTTTA-
1 TTTTTAT
51370387 TTTTTA-
1 TTTTTAT
51370393 TTTTTAT
1 TTTTTAT
51370400 TTTTTAT
1 TTTTTAT
* *
51370407 TTCTCAT
1 TTTTTAT
51370414 TTTTTAT
1 TTTTTAT
* *
51370421 TTCTCAT
1 TTTTTAT
51370428 TTTTTAT
1 TTTTTAT
*
51370435 TTCTCTAT
1 TT-TTTAT
*
51370443 CTTATT-T
1 -TTTTTAT
*
51370450 TATTTAT
1 TTTTTAT
*
51370457 TTATTAT
1 TTTTTAT
51370464 TTTT
1 TTTT
51370468 GTCCAGAAAA
Statistics
Matches: 61, Mismatches: 16, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
6 15 0.25
7 39 0.64
8 5 0.08
9 2 0.03
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTAT
Found at i:51370403 original size:13 final size:13
Alignment explanation
Indices: 51370378--51370467 Score: 76
Period size: 14 Copynumber: 6.6 Consensus size: 13
51370368 GGCAACCCAA
51370378 TTATTTTTA-TTT
1 TTATTTTTATTTT
51370390 TTATTTTTATTTT
1 TTATTTTTATTTT
*
51370403 TTATTTCTCATTTT
1 TTATTT-TTATTTT
*
51370417 TTATTTCTCATTTT
1 TTATTT-TTATTTT
51370431 TTATTTCTCTATCTTAT
1 TTATTT-T-TAT-TT-T
* *
51370448 TT-TATTTATTTA
1 TTATTTTTATTTT
51370460 TTATTTTT
1 TTATTTTT
51370468 GTCCAGAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
12 11 0.16
13 15 0.22
14 31 0.46
15 3 0.04
16 4 0.06
17 3 0.04
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTTTATTTT
Found at i:51370415 original size:14 final size:14
Alignment explanation
Indices: 51370387--51370439 Score: 90
Period size: 14 Copynumber: 3.9 Consensus size: 14
51370377 ATTATTTTTA
*
51370387 TTTTTATTT-TTAT
1 TTTTTATTTCTCAT
51370400 TTTTTATTTCTCAT
1 TTTTTATTTCTCAT
51370414 TTTTTATTTCTCAT
1 TTTTTATTTCTCAT
51370428 TTTTTATTTCTC
1 TTTTTATTTCTC
51370440 TATCTTATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
13 9 0.24
14 29 0.76
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTATTTCTCAT
Found at i:51370430 original size:28 final size:27
Alignment explanation
Indices: 51370387--51370461 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
51370377 ATTATTTTTA
*
51370387 TTTTTATTTTTATTTTTTATTTCTCAT
1 TTTTTATTTTCATTTTTTATTTCTCAT
51370414 TTTTTATTTCTCATTTTTTATTTCTC-T
1 TTTTTATTT-TCATTTTTTATTTCTCAT
* *
51370441 ATCTTATTTT-ATTTATTTATT
1 TTTTTATTTTCATTT-TTTATT
51370462 ATTTTTGTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 4 0.09
26 7 0.16
27 17 0.40
28 15 0.35
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (27 bp):
TTTTTATTTTCATTTTTTATTTCTCAT
Done.