Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 222 of 328
Found at i:66555983 original size:80 final size:79
Alignment explanation
Indices: 66555849--66555997 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
66555839 ATAACCATGT
* *
66555849 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGAT-TTAGCC
66555914 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
66555929 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGATTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGATTTAGC
66555992 CCGGAT
64 CCGGAT
66555998 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGATTTAGCCC
GGATGTAGCCACTA
Found at i:66560666 original size:19 final size:19
Alignment explanation
Indices: 66560642--66560681 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
66560632 CAAGCCTGCA
66560642 CACATAGTGCCATATAGTC
1 CACATAGTGCCATATAGTC
66560661 CACATAGTGCCATATAGTC
1 CACATAGTGCCATATAGTC
66560680 CA
1 CA
66560682 AACTCGCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (19 bp):
CACATAGTGCCATATAGTC
Found at i:66560677 original size:10 final size:10
Alignment explanation
Indices: 66560645--66560678 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
66560635 GCCTGCACAC
66560645 ATAGTGCCAT
1 ATAGTGCCAT
*
66560655 ATAGT-CCAC
1 ATAGTGCCAT
66560664 ATAGTGCCAT
1 ATAGTGCCAT
66560674 ATAGT
1 ATAGT
66560679 CCAAACTCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (10 bp):
ATAGTGCCAT
Found at i:66560697 original size:29 final size:29
Alignment explanation
Indices: 66560665--66560730 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
66560655 ATAGTCCACA
* *
66560665 TAGTGCCATATAGTCCAAACTCGCACACT
1 TAGTGCCATACAGTACAAACTCGCACACT
* *
66560694 TAGTGCCATACATTACAAGCTCGCACACT
1 TAGTGCCATACAGTACAAACTCGCACACT
*
66560723 CAGTGCCA
1 TAGTGCCA
66560731 ATCTCGTCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (29 bp):
TAGTGCCATACAGTACAAACTCGCACACT
Found at i:66569836 original size:27 final size:26
Alignment explanation
Indices: 66569806--66569952 Score: 132
Period size: 27 Copynumber: 5.5 Consensus size: 26
66569796 AAGGGCAAAA
* *
66569806 TGGTAATTTTACCCTACAAGGGCATCT
1 TGGTAATTCTACCCTACAAGGGTAT-T
* * *
66569833 TGGTAATTCTACGCTATAGGGGTATT
1 TGGTAATTCTACCCTACAAGGGTATT
* *
66569859 TCGTTATTTCTACCCTACAAGGGTATT
1 T-GGTAATTCTACCCTACAAGGGTATT
* *
66569886 TCGGTAATTCTATCCTACAGGGGTATT
1 T-GGTAATTCTACCCTACAAGGGTATT
* * * *
66569913 TCGGTAATTCTGCCTTATAGGGGTATTT
1 T-GGTAATTCTACCCTACAAGGGTA-TT
66569941 TGGTAATTCTAC
1 TGGTAATTCTAC
66569953 AACTTTTCAC
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.02
27 94 0.95
28 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (26 bp):
TGGTAATTCTACCCTACAAGGGTATT
Found at i:66569897 original size:54 final size:52
Alignment explanation
Indices: 66569811--66569952 Score: 160
Period size: 54 Copynumber: 2.7 Consensus size: 52
66569801 CAAAATGGTA
* * *
66569811 ATTT-TACCCTACAAGGGCATCTTGGTAATTCTACGCTATAGGGGTATTTCGTT
1 ATTTCTACCCTACAAGGGTAT-TTGGTAATTCTAC-CTACAGGGGTATTTCGGT
66569864 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTT-GGTAATTCTA-CCTACAGGGGTATTTCGGT
* * * * *
66569918 AATTCTGCCTTATAGGGGTATTTTGGTAATTCTAC
1 ATTTCTACCCTACAAGGGTA-TTTGGTAATTCTAC
66569953 AACTTTTCAC
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
53 7 0.09
54 66 0.86
55 4 0.05
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (52 bp):
ATTTCTACCCTACAAGGGTATTTGGTAATTCTACCTACAGGGGTATTTCGGT
Found at i:66574149 original size:15 final size:16
Alignment explanation
Indices: 66574124--66574153 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
66574114 GGGTTTCCTC
66574124 ATTTTTCTTCTTTTTA
1 ATTTTTCTTCTTTTTA
66574140 ATTTTT-TTCTTTTT
1 ATTTTTCTTCTTTTT
66574154 CCAAGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (16 bp):
ATTTTTCTTCTTTTTA
Found at i:66577561 original size:40 final size:40
Alignment explanation
Indices: 66577506--66577709 Score: 313
Period size: 40 Copynumber: 5.1 Consensus size: 40
66577496 TGGATGATAA
* * * *
66577506 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
*
66577546 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
66577586 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
66577626 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
66577666 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
66577706 CCGG
1 CCGG
66577710 TTAAATCCGA
Statistics
Matches: 156, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 3 0.02
40 153 0.98
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:66585475 original size:40 final size:40
Alignment explanation
Indices: 66585416--66585633 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
66585406 TGGATGATAA
* * * * *
66585416 CCGGGCTAAGTCCCGAAGGCATTTGCGCTACTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
* *
66585456 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
66585496 CCGGGCTAAGTCCCGAAGGCATTCGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
66585536 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
66585576 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
66585616 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
66585634 TACTTGGCTT
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 16 0.10
40 146 0.90
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:66593538 original size:46 final size:46
Alignment explanation
Indices: 66593351--66593558 Score: 130
Period size: 44 Copynumber: 4.6 Consensus size: 46
66593341 ATGTAACCGT
* *
66593351 GCCGATACATGTCCCAGACATGTCTTACACTAGCACATC-T-CGTA--
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-CCTCATAC-TATG
* * ** * * *
66593395 GCCGACGCATGTCCCAGAAATGTAATACTACCTA-ACATC-T-CGA-G
1 GCCGATGCATGTCCCAGACATGTCTTAC-A-CTAGCCCTCATACTATG
* * *
66593439 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGTG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCCCTCATACTATG
** * *
66593485 GTTGATGCATGTCCTAGACATGTCTTACACTAGCCCTCGT-CTCAAT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCCCTCATACT--ATG
66593531 GCCGATGCCATGTCCCAGACATGGTCTT
1 GCCGATG-CATGTCCCAGACAT-GTCTT
66593559 CATAGTCTTT
Statistics
Matches: 126, Mismatches: 27, Indels: 18
0.74 0.16 0.11
Matches are distributed among these distances:
42 2 0.02
43 4 0.03
44 54 0.43
45 4 0.03
46 43 0.34
47 14 0.11
48 5 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCCCTCATACTATG
Found at i:66599152 original size:27 final size:27
Alignment explanation
Indices: 66599114--66599167 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
66599104 GCCATGTGAA
66599114 CCCTGTTTCCAAATTTTTGTGAATTTT
1 CCCTGTTTCCAAATTTTTGTGAATTTT
66599141 CCCTGTTTCCAAATTTTTGTGAATTTT
1 CCCTGTTTCCAAATTTTTGTGAATTTT
66599168 TCTTAGACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.52
Consensus pattern (27 bp):
CCCTGTTTCCAAATTTTTGTGAATTTT
Found at i:66601481 original size:41 final size:41
Alignment explanation
Indices: 66601424--66601725 Score: 401
Period size: 41 Copynumber: 7.3 Consensus size: 41
66601414 ACATAAAATT
* *
66601424 TGCTAGGC-ATAAAGCCT-AGTGTAATACACCGGCACAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCACAAAGCC
*
66601465 TGCTAGGCAATAAGCCTGATATAATACACCGGCGTATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGC--ACAAAGCC
* * *
66601508 TACTAGGCAATAAGCCTGATATAATACACTGGTACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
*
66601549 TGCTAGGCAATAAGCCTGATTTAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* * * *
66601590 TACTAGGCAATAAGCCTGATTTAATACACGGGTACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* * *
66601631 TGCTAGGCAATAAGCCTGATTTAAAACACTGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* *
66601672 TGCTTGGCAATAAGCCTGAGATAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
*
66601713 TACTAGGCAATAA
1 TGCTAGGCAATAA
66601726 AGCCCGAATA
Statistics
Matches: 232, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
41 193 0.83
42 3 0.01
43 36 0.16
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
Found at i:66601684 original size:123 final size:125
Alignment explanation
Indices: 66601424--66601725 Score: 450
Period size: 123 Copynumber: 2.4 Consensus size: 125
66601414 ACATAAAATT
* * *
66601424 TGCTAGGC-ATAAAGCCT-AGTGTAATACACCGGCACAGAGCCTGCTAGGCAATAAGCCTGATAT
1 TGCTAGGCAAT-AAGCCTGAG-ATAATACACCGGCACAAAGCCTACTAGGCAATAAGCCTGATAT
* * *
66601487 AATACACCGGCGTATAAAGCCTACTAGGCAATAAGCCTGATATAATACACTGGTACAAAGCC
64 AATACACCGGCGTACAAAGCCTACTAGGCAATAAGCCTGATATAAAACACTGGCACAAAGCC
** *
66601549 TGCTAGGCAATAAGCCTGATTTAATACACCGGCACAAAGCCTACTAGGCAATAAGCCTGATTTAA
1 TGCTAGGCAATAAGCCTGAGATAATACACCGGCACAAAGCCTACTAGGCAATAAGCCTGATATAA
* *
66601614 TACA-CGG-GTACAAAGCCTGCTAGGCAATAAGCCTGATTTAAAACACTGGCACAAAGCC
66 TACACCGGCGTACAAAGCCTACTAGGCAATAAGCCTGATATAAAACACTGGCACAAAGCC
*
66601672 TGCTTGGCAATAAGCCTGAGATAATACACCGGCACAAAGCCTACTAGGCAATAA
1 TGCTAGGCAATAAGCCTGAGATAATACACCGGCACAAAGCCTACTAGGCAATAA
66601726 AGCCCGAATA
Statistics
Matches: 162, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
123 97 0.60
124 3 0.02
125 59 0.36
126 3 0.02
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (125 bp):
TGCTAGGCAATAAGCCTGAGATAATACACCGGCACAAAGCCTACTAGGCAATAAGCCTGATATAA
TACACCGGCGTACAAAGCCTACTAGGCAATAAGCCTGATATAAAACACTGGCACAAAGCC
Found at i:66610672 original size:25 final size:26
Alignment explanation
Indices: 66610642--66610701 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
66610632 AAAAATTTAA
*
66610642 TAAAAAGTATTAA-TAATTCAAT-GAAT
1 TAAAAA-T-TTAACTAATTCAATAAAAT
*
66610668 TAAAAATTTAACTAATTGAATAAAAT
1 TAAAAATTTAACTAATTCAATAAAAT
66610694 TAAAAATT
1 TAAAAATT
66610702 AAGAAAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 4 0.13
25 9 0.30
26 17 0.57
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (26 bp):
TAAAAATTTAACTAATTCAATAAAAT
Found at i:66610748 original size:3 final size:3
Alignment explanation
Indices: 66610740--66610796 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
66610730 TGTAGAAATA
66610740 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
66610788 AAT AAT AAT
1 AAT AAT AAT
66610797 GAAGGAAAAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:66617974 original size:28 final size:28
Alignment explanation
Indices: 66617941--66618021 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 28
66617931 GTGGAAGTAG
** *
66617941 TTGGGCCAAATAGGCCATATGAATGTGA
1 TTGGGCCAAACGGGCCATATGAATGAGA
** * *
66617969 TTGGGCCTGACGGGCCATGTGAACGAGA
1 TTGGGCCAAACGGGCCATATGAATGAGA
*
66617997 TTGGGCCTAAAGGGGCCATATGAAT
1 TTGGGCC-AAACGGGCCATATGAAT
66618022 AAATGTGGAT
Statistics
Matches: 40, Mismatches: 12, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
28 28 0.70
29 12 0.30
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.22
Consensus pattern (28 bp):
TTGGGCCAAACGGGCCATATGAATGAGA
Found at i:66618020 original size:29 final size:28
Alignment explanation
Indices: 66617953--66618020 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
66617943 GGGCCAAATA
* * *
66617953 GGCCATATGAATGTGATTGGGCCTGACG
1 GGCCATATGAACGAGATTGGGCCTAACG
* *
66617981 GGCCATGTGAACGAGATTGGGCCTAAAGG
1 GGCCATATGAACGAGATTGGGCCT-AACG
66618010 GGCCATATGAA
1 GGCCATATGAA
66618021 TAAATGTGGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 21 0.64
29 12 0.36
ACGTcount: A:0.26, C:0.18, G:0.35, T:0.21
Consensus pattern (28 bp):
GGCCATATGAACGAGATTGGGCCTAACG
Found at i:66618156 original size:27 final size:27
Alignment explanation
Indices: 66618126--66618227 Score: 100
Period size: 27 Copynumber: 3.8 Consensus size: 27
66618116 TGACCATGGA
*
66618126 TGTAAAATTGCCGAAATACCCTCGATT
1 TGTAAAATTACCGAAATACCCTCGATT
* *
66618153 TGTAAAATTACCTAAACACCC-CGATT
1 TGTAAAATTACCGAAATACCCTCGATT
* * * * *
66618179 TATAAAATTATCGAGATACCCTTG-TAG
1 TGTAAAATTACCGAAATACCCTCGAT-T
*
66618206 TGTAAAATTACCGGAATACCCT
1 TGTAAAATTACCGAAATACCCT
66618228 TGTAGTGTAA
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
26 22 0.37
27 37 0.63
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTCGATT
Found at i:66618228 original size:27 final size:27
Alignment explanation
Indices: 66618181--66618266 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
66618171 CCCCGATTTA
*
66618181 TAAAATTATCGAGATACCCTTGTAGTG
1 TAAAATTACCGAGATACCCTTGTAGTG
66618208 TAAAATTACCG-GAATACCCTTGTAGTG
1 TAAAATTACCGAG-ATACCCTTGTAGTG
** * * *
66618235 TAAAAGGACCGACATACCC-CGTAGGG
1 TAAAATTACCGAGATACCCTTGTAGTG
66618261 TAAAAT
1 TAAAAT
66618267 GACTATTTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
26 11 0.22
27 39 0.78
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
TAAAATTACCGAGATACCCTTGTAGTG
Found at i:66621314 original size:29 final size:29
Alignment explanation
Indices: 66621280--66621382 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
66621270 TAATCAGCCG
** *
66621280 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
66621309 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
66621338 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
66621367 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
66621383 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:66629363 original size:29 final size:29
Alignment explanation
Indices: 66629329--66629402 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
66629319 TAATCAGCCG
*
66629329 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATACA-TTTCAAACT
* *
66629358 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAACT
*
66629387 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
66629403 ATCTCTCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCAAACT
Found at i:66632102 original size:37 final size:36
Alignment explanation
Indices: 66632052--66632138 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
66632042 TACGAAGTCT
66632052 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
66632088 GTACCCGGACATAATCTCCACACGTAGTCATTGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
66632125 TCACCCGGAACATA
1 T-ACCCGG-ACATA
66632139 TTTCCAAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.87
38 5 0.11
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:66632278 original size:49 final size:49
Alignment explanation
Indices: 66632209--66632410 Score: 368
Period size: 49 Copynumber: 4.1 Consensus size: 49
66632199 TACCACATAT
* * *
66632209 ATATATATAGACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
66632258 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
66632307 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
66632356 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
66632405 ATATAT
1 ATATAT
66632411 TATTATGTAC
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 149 1.00
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:66635488 original size:40 final size:40
Alignment explanation
Indices: 66635426--66635577 Score: 259
Period size: 40 Copynumber: 3.8 Consensus size: 40
66635416 CCAGCATGAT
* * *
66635426 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
66635466 TGCTCTTTGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66635506 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
66635546 TGCTCTTCGGAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
66635578 CTCAATTCTC
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:66637461 original size:37 final size:36
Alignment explanation
Indices: 66637411--66637497 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
66637401 TACGAAGTCT
66637411 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
66637447 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
66637484 TCACCCGGAACATA
1 T-ACCCGG-ACATA
66637498 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:66637641 original size:49 final size:49
Alignment explanation
Indices: 66637576--66637777 Score: 359
Period size: 49 Copynumber: 4.1 Consensus size: 49
66637566 ATATATATAT
* * * *
66637576 ATATATATACACTTTCAAATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
66637625 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
*
66637674 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
66637723 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
66637772 ATATAT
1 ATATAT
66637778 TATTATGTAC
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 147 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
Found at i:66641106 original size:28 final size:28
Alignment explanation
Indices: 66641062--66641142 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 28
66641052 TGGGAAGTAG
* * *
66641062 TTGGGTCTGATGTGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGAGA
* *
66641090 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGAGA
* *
66641118 TTGGGCCTGAAGGGGCCAAATGAAT
1 TTGGGCCTG-ATGGGCCATATGAAT
66641143 AAGTGTGGAT
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 32 0.74
29 11 0.26
ACGTcount: A:0.23, C:0.15, G:0.36, T:0.26
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGAGA
Found at i:66641713 original size:161 final size:161
Alignment explanation
Indices: 66641462--66641807 Score: 496
Period size: 161 Copynumber: 2.1 Consensus size: 161
66641452 ATATCCCTGG
* * * *
66641462 TTTGTAAAATTTTTGAAATACTCTCGATTGCGAAATTACTGAAATACCCTCCATTTGTAAAATTA
1 TTTGTAAAATTATCGAAATACCCTCGATTGCGAAATTACTAAAATACCCTCCATTTGTAAAATTA
*** * * * *
66641527 TTGAAATACCCCCAGTTTATAAAATTACCGAAATACCCTCGGTTTGTAAAATTTCTGAAATACCC
66 CCAAAATACCCCCAATTTATAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCC
* * *
66641592 TCGATTTTTAAAATTA-CTAAAATACCCTCGA
131 TCGATTTGTAAAATTATC-AAAACACCCCCGA
* * *
66641623 TTTGTAAAATTATCAAAATACCCTCGATTGTGAAATTACTAAAATACCCTCGATTTGTAAAATTA
1 TTTGTAAAATTATCGAAATACCCTCGATTGCGAAATTACTAAAATACCCTCCATTTGTAAAATTA
* *
66641688 CCAAAATACCCCTAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCC
66 CCAAAATACCCCCAATTTATAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCC
*
66641753 TCGATTTGTAAAATTATCGAAACACCCCCGA
131 TCGATTTGTAAAATTATCAAAACACCCCCGA
66641784 TTTGTAAAATTATCGAAATACCCT
1 TTTGTAAAATTATCGAAATACCCT
66641808 TGTAGTGTAA
Statistics
Matches: 163, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
161 162 0.99
162 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (161 bp):
TTTGTAAAATTATCGAAATACCCTCGATTGCGAAATTACTAAAATACCCTCCATTTGTAAAATTA
CCAAAATACCCCCAATTTATAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCC
TCGATTTGTAAAATTATCAAAACACCCCCGA
Found at i:66641816 original size:27 final size:27
Alignment explanation
Indices: 66641441--66641830 Score: 386
Period size: 27 Copynumber: 14.5 Consensus size: 27
66641431 TAATAAAGAG
* *
66641441 AAATTACCGAAATATCCCT-GGTTTGTA
1 AAATTATCGAAATA-CCCTCGATTTGTA
* * * **
66641468 AAATTTTTGAAATACTCTCGA-TTGCG
1 AAATTATCGAAATACCCTCGATTTGTA
*
66641494 AAATTA-CTGAAATACCCTCCATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
66641521 AAATTATTGAAATACCC-CCAGTTTATA
1 AAATTATCGAAATACCCTCGA-TTTGTA
* *
66641548 AAATTACCGAAATACCCTCGGTTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
66641575 AAATT-TCTGAAATACCCTCGATTTTTA
1 AAATTATC-GAAATACCCTCGATTTGTA
*
66641602 AAATTA-CTAAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* *
66641629 AAATTATCAAAATACCCTCGA-TTGTG
1 AAATTATCGAAATACCCTCGATTTGTA
*
66641655 AAATTA-CTAAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * *
66641682 AAATTACCAAAATACCC-CTAATTTGTA
1 AAATTATCGAAATACCCTC-GATTTGTA
*
66641709 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
66641736 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
66641763 AAATTATCGAAACACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
66641790 AAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTATCGAAATACCCTCGAT-TTGTA
*
66641817 AAATTATCAAAATA
1 AAATTATCGAAATA
66641831 TCCTTGTAGT
Statistics
Matches: 310, Mismatches: 38, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
25 1 0.00
26 51 0.16
27 254 0.82
28 4 0.01
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:66641835 original size:27 final size:27
Alignment explanation
Indices: 66641600--66641874 Score: 127
Period size: 27 Copynumber: 10.2 Consensus size: 27
66641590 CCTCGATTTT
* *
66641600 TAAAATTA-CTAAAATACCCTCG-ATTTG
1 TAAAATTATC-AAAATACCCTTGTA-GTG
* *
66641627 TAAAATTATCAAAATACCCTCG-ATTG
1 TAAAATTATCAAAATACCCTTGTAGTG
* * *
66641653 TGAAATTA-CTAAAATACCCTCG-ATTTG
1 TAAAATTATC-AAAATACCCTTGTA-GTG
* * * *
66641680 TAAAATTACCAAAATACCCCT-AATTTG
1 TAAAATTATCAAAATACCCTTGTA-GTG
* * * *
66641707 TAAAATTACCGAAATACCCTCG-ATTTG
1 TAAAATTATCAAAATACCCTTGTA-GTG
* * * *
66641734 TAAAATTACCGAAATACCCTCG-ATTTG
1 TAAAATTATCAAAATACCCTTGTA-GTG
* * ** *
66641761 TAAAATTATCGAAACACCCCCG-ATTTG
1 TAAAATTATCAAAATACCCTTGTA-GTG
*
66641788 TAAAATTATCGAAATACCCTTGTAGTG
1 TAAAATTATCAAAATACCCTTGTAGTG
*
66641815 TAAAATTATCAAAATATCCTTGTAGTG
1 TAAAATTATCAAAATACCCTTGTAGTG
** * * * *
66641842 TAAAAGGACCAACATACCCCTGTAGGG
1 TAAAATTATCAAAATACCCTTGTAGTG
66641869 TAAAAT
1 TAAAAT
66641875 GACTGTTTTG
Statistics
Matches: 217, Mismatches: 24, Indels: 14
0.85 0.09 0.05
Matches are distributed among these distances:
25 1 0.00
26 23 0.11
27 190 0.88
28 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.30
Consensus pattern (27 bp):
TAAAATTATCAAAATACCCTTGTAGTG
Found at i:66647503 original size:45 final size:45
Alignment explanation
Indices: 66647445--66647653 Score: 175
Period size: 45 Copynumber: 4.6 Consensus size: 45
66647435 TCCGTTGAGT
* * ** * *
66647445 TGCCATAGTGTCTTTCAACCATGGTCTTATTCCTTTGATTCGTGA
1 TGCCATAATGTCTTTCAACCATGGTCTTACTCAATAGAATCGTGA
**
66647490 TGCCATAATGTCTTTCAGTCATGGTCTTACTCAATAGAATCGTGA
1 TGCCATAATGTCTTTCAACCATGGTCTTACTCAATAGAATCGTGA
** * ** * * **
66647535 TGCCATAACATCTTTTAGTCATGTTCTTACTCGATAGAATCCCGA
1 TGCCATAATGTCTTTCAACCATGGTCTTACTCAATAGAATCGTGA
* ** * * *
66647580 TGCCATAATGTCTTTTAGTCATGTTCTTACTCGATAGAATAGTGA
1 TGCCATAATGTCTTTCAACCATGGTCTTACTCAATAGAATCGTGA
* * **
66647625 TGTCATAACGTCTTTCAGTCATGGTCTTA
1 TGCCATAATGTCTTTCAACCATGGTCTTA
66647654 TTCTTTTTGG
Statistics
Matches: 140, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 140 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (45 bp):
TGCCATAATGTCTTTCAACCATGGTCTTACTCAATAGAATCGTGA
Found at i:66647600 original size:90 final size:90
Alignment explanation
Indices: 66647488--66647653 Score: 260
Period size: 90 Copynumber: 1.8 Consensus size: 90
66647478 TTTGATTCGT
* *
66647488 GATGCCATAATGTCTTTCAGTCATGGTCTTACTCAATAGAATCGTGATGCCATAACATCTTTTAG
1 GATGCCATAATGTCTTTCAGTCATGGTCTTACTCAATAGAATAGTGATGCCATAACATCTTTCAG
*
66647553 TCATGTTCTTACTCGATAGAATCCC
66 TCATGGTCTTACTCGATAGAATCCC
* * * * *
66647578 GATGCCATAATGTCTTTTAGTCATGTTCTTACTCGATAGAATAGTGATGTCATAACGTCTTTCAG
1 GATGCCATAATGTCTTTCAGTCATGGTCTTACTCAATAGAATAGTGATGCCATAACATCTTTCAG
66647643 TCATGGTCTTA
66 TCATGGTCTTA
66647654 TTCTTTTTGG
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 68 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (90 bp):
GATGCCATAATGTCTTTCAGTCATGGTCTTACTCAATAGAATAGTGATGCCATAACATCTTTCAG
TCATGGTCTTACTCGATAGAATCCC
Found at i:66660806 original size:29 final size:28
Alignment explanation
Indices: 66660774--66660876 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
66660764 GTGACGAGAT
* *
66660774 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
66660803 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
66660832 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
66660861 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66660877 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:66668604 original size:29 final size:28
Alignment explanation
Indices: 66668572--66668674 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
66668562 GTGACGAGAT
* *
66668572 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
66668601 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
66668630 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
66668659 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
66668675 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:66673547 original size:39 final size:40
Alignment explanation
Indices: 66673446--66673547 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 40
66673436 TATTCAAATG
* *
66673446 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTGACT
66673486 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAA-ATCCCGAAGGCATTTGTGCGAG-TGACT
66673526 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGG
66673548 TACTTGGGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
38 1 0.02
39 14 0.25
40 40 0.70
41 2 0.04
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTGACT
Found at i:66678877 original size:28 final size:28
Alignment explanation
Indices: 66678812--66678912 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
66678802 ATAGTGAATC
*
66678812 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
66678841 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
66678869 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
66678899 CGCACACTTAGTGC
1 CGCACACTTAGTGC
66678913 CATACCCTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:66678961 original size:29 final size:29
Alignment explanation
Indices: 66678900--66679030 Score: 174
Period size: 29 Copynumber: 4.5 Consensus size: 29
66678890 TTTTAAACCC
*** *
66678900 GCACACTTAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
66678928 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
66678958 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
66678987 GCACACTTAGTGCCATATATTTTCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
66679016 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
66679031 ATCTCGTCAC
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 89 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:66686788 original size:28 final size:28
Alignment explanation
Indices: 66686723--66686823 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
66686713 ATAGTGAATC
*
66686723 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
66686752 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
66686780 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
66686810 CGCACACTTAGTGC
1 CGCACACTTAGTGC
66686824 CATACCCTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:66686872 original size:29 final size:29
Alignment explanation
Indices: 66686811--66686941 Score: 174
Period size: 29 Copynumber: 4.5 Consensus size: 29
66686801 TTTTAAACCC
*** *
66686811 GCACACTTAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
66686839 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
66686869 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
66686898 GCACACTTAGTGCCATATATTTTCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
66686927 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
66686942 ATCTCGTCAC
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 89 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:66689416 original size:28 final size:28
Alignment explanation
Indices: 66689384--66689453 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
66689374 AATGAGATTG
66689384 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
66689412 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
66689440 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
66689454 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:66691842 original size:41 final size:41
Alignment explanation
Indices: 66691797--66691914 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
66691787 TGAAAGATAA
66691797 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
66691838 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
66691868 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
66691909 ATGTAG
1 ATGTAG
66691915 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:66691853 original size:71 final size:71
Alignment explanation
Indices: 66691765--66691928 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
66691755 GAGATGTATC
66691765 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
66691830 AGGACA
66 AGGACA
66691836 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
66691901 AGGACA
66 AGGACA
66691907 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
66691929 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:66694875 original size:39 final size:40
Alignment explanation
Indices: 66694698--66694879 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
66694688 CCGCACCAAG
* * * * * * *
66694698 GCCTACGGGACTTA-CCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
66694737 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
66694777 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
66694817 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
66694856 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
66694880 CATTCAATTT
Statistics
Matches: 122, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 43 0.35
40 77 0.63
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:66702861 original size:40 final size:40
Alignment explanation
Indices: 66702802--66702970 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
66702792 CGGGACTTTA
* * *
66702802 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
66702842 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
66702882 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
66702922 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
66702962 CCCGGATAT
1 CCCGGATAT
66702971 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:66705598 original size:39 final size:39
Alignment explanation
Indices: 66705544--66705669 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
66705534 TTCAGTGATG
*
66705544 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
66705583 TATATTCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* ** *
66705622 TATATCCGGACTTAAGGTCCGCAGGCTACATGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
66705661 TATGTCCGG
1 TATATCCGG
66705670 GCTAAAGTCC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:66707550 original size:24 final size:24
Alignment explanation
Indices: 66707522--66707588 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
66707512 TTCCTCAAAT
* *
66707522 CTCTCCATAAATCACTCCTTGATT
1 CTCTCCATAAATCACTCCATGATA
* *
66707546 TTCTCC-TAATATCTCTCCATGATA
1 CTCTCCATAA-ATCACTCCATGATA
* *
66707570 CACTCCATAAATCAGTCCA
1 CTCTCCATAAATCACTCCA
66707589 ACCTCCCATT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
23 3 0.09
24 27 0.82
25 3 0.09
ACGTcount: A:0.28, C:0.33, G:0.04, T:0.34
Consensus pattern (24 bp):
CTCTCCATAAATCACTCCATGATA
Found at i:66711335 original size:15 final size:15
Alignment explanation
Indices: 66711315--66711345 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
66711305 ACTTGAACTA
66711315 AGTTGTGTGATAAAT
1 AGTTGTGTGATAAAT
66711330 AGTTGTGTGATAAAT
1 AGTTGTGTGATAAAT
66711345 A
1 A
66711346 ATCTAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTTGTGTGATAAAT
Found at i:66711597 original size:40 final size:39
Alignment explanation
Indices: 66711560--66711705 Score: 195
Period size: 40 Copynumber: 3.7 Consensus size: 39
66711550 TGAGGAATGT
* * *
66711560 TATCTGGGCTTAAAGACCTGCAGGCTTGGTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTT-GTGCTGGAATTA
*
66711600 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT-
1 TATCCGGGCTTAAAGACCCGCAGGCT-TGTGCTGGAAT-TA
*
66711640 TATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTGGAATTA
1 TATCCGGGCTTAAAGACCCGCAGGCTT-GTGCTGGAATTA
*
66711680 TATCCGGGCTTAAAGACCCACAGGCT
1 TATCCGGGCTTAAAGACCCGCAGGCT
66711706 ACGAGCTGGT
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
39 2 0.02
40 91 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTGTGCTGGAATTA
Found at i:66711686 original size:80 final size:80
Alignment explanation
Indices: 66711553--66711706 Score: 254
Period size: 80 Copynumber: 1.9 Consensus size: 80
66711543 TGATACTTGA
* * * * *
66711553 GGAATGTTATCTGGGCTTAAAGACCTGCAGGCTTGGTGCTGGAATTGTATCCGGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTGGAATTATATCCGGGCTTAAAGACC
*
66711618 CGCAGGCTATATGCT
66 CACAGGCTATATGCT
66711633 GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTGGAATTATATCCGGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTGGAATTATATCCGGGCTTAAAGACC
66711698 CACAGGCTA
66 CACAGGCTA
66711707 CGAGCTGGTA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTGGAATTATATCCGGGCTTAAAGACC
CACAGGCTATATGCT
Found at i:66711941 original size:2 final size:2
Alignment explanation
Indices: 66711934--66711970 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
66711924 CCAAAGAACG
66711934 AT AT AT AT AT AT AT AT AT AT AT AT AT 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
66711971 CACGTGTGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:66712122 original size:2 final size:2
Alignment explanation
Indices: 66712115--66712146 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
66712105 TTGTGTATTC
66712115 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
66712147 TCGGCTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66718639 original size:40 final size:40
Alignment explanation
Indices: 66718594--66718761 Score: 275
Period size: 40 Copynumber: 4.2 Consensus size: 40
66718584 CAGGATCTAG
* * *
66718594 CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGT
1 CCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGC
*
66718634 TCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
*
66718674 CCGGATATTGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
66718714 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
66718754 CCGGATAT
1 CCGGATAT
66718762 CATTCGAATA
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 119 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
Found at i:66720892 original size:23 final size:22
Alignment explanation
Indices: 66720862--66720905 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
66720852 TCTCAATTCA
*
66720862 TAAATAAATTCATACCAAAACT
1 TAAATAAAATCATACCAAAACT
*
66720884 TAAACTAAAATCATACCTAAAC
1 TAAA-TAAAATCATACCAAAAC
66720906 ATACGATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAATAAAATCATACCAAAACT
Found at i:66739016 original size:13 final size:13
Alignment explanation
Indices: 66738998--66739031 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
66738988 CATACATTTT
*
66738998 ATATTCATTTCTC
1 ATATTCAATTCTC
66739011 ATATTCAATTCTC
1 ATATTCAATTCTC
66739024 ATATTCAA
1 ATATTCAA
66739032 ACAAAAGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTCAATTCTC
Found at i:66739411 original size:13 final size:13
Alignment explanation
Indices: 66739393--66739426 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
66739383 ACTGACTTGT
66739393 GCCACACGACCAA
1 GCCACACGACCAA
66739406 GCCACACGACCAA
1 GCCACACGACCAA
66739419 GCCACACG
1 GCCACACG
66739427 CCCGTGTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.47, G:0.18, T:0.00
Consensus pattern (13 bp):
GCCACACGACCAA
Found at i:66741361 original size:24 final size:24
Alignment explanation
Indices: 66741266--66741366 Score: 96
Period size: 24 Copynumber: 4.2 Consensus size: 24
66741256 GACTCACCAA
*
66741266 AGCTCGTATGAGCTTACCGATATATC
1 AGCTCGTAAGAGCTTACCG-T-TATC
**
66741292 AGCTCGTAAGAGCTTACTATTATC
1 AGCTCGTAAGAGCTTACCGTTATC
* * * * *
66741316 AGCTCATAAGAACTTACTGTTTTT
1 AGCTCGTAAGAGCTTACCGTTATC
*
66741340 AGCTCGTTAGAGCTTACCGTT-TC
1 AGCTCGTAAGAGCTTACCGTTATC
66741363 AGCT
1 AGCT
66741367 TAATAGAGCT
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
23 5 0.08
24 40 0.65
25 1 0.02
26 16 0.26
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (24 bp):
AGCTCGTAAGAGCTTACCGTTATC
Found at i:66743525 original size:2 final size:2
Alignment explanation
Indices: 66743518--66743542 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
66743508 GTCATAGATT
66743518 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
66743543 GTAAACATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66754060 original size:27 final size:27
Alignment explanation
Indices: 66754019--66754189 Score: 198
Period size: 27 Copynumber: 6.3 Consensus size: 27
66754009 TGGATAAGTT
*
66754019 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTATAGG
** *
66754046 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTATAGG
*
66754073 GTAGAATTACCGAAATACCCCTATATG
1 GTAGAATTACCGAAATACCCCTATAGG
* *
66754100 GTAGAATTACTGAAATACCCTTATAGG
1 GTAGAATTACCGAAATACCCCTATAGG
* * *
66754127 GTAGAAATACCAAAATACCCTTATAGG
1 GTAGAATTACCGAAATACCCCTATAGG
** * * *
66754154 ACAGAATTACCGAGATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTATAGG
*
66754181 GTAAAATTA
1 GTAGAATTA
66754190 TCATTTTGCC
Statistics
Matches: 123, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTATAGG
Found at i:66757635 original size:39 final size:39
Alignment explanation
Indices: 66757581--66757724 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
66757571 GAATGTTCGA
66757581 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
66757620 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
66757659 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
66757698 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
66757725 CTTTGTGCGG
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:66757671 original size:78 final size:79
Alignment explanation
Indices: 66757582--66757738 Score: 271
Period size: 78 Copynumber: 2.0 Consensus size: 79
66757572 AATGTTCGAG
66757582 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
66757646 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
66757660 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
66757725 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
66757739 CCATAACCGA
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
78 54 0.73
79 20 0.27
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:66764833 original size:27 final size:27
Alignment explanation
Indices: 66764791--66764963 Score: 186
Period size: 27 Copynumber: 6.4 Consensus size: 27
66764781 TGGATAAGTT
*
66764791 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*** *
66764818 GTAGAATTATTAAAATACTCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
66764845 GTAGAATTACCGAAATAGCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
66764872 ATAGAATTACCGAAATACCCTTGTAGT
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
66764899 GTAGAAATATCGAAGTAACCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
66764926 GTAGAATTACC-AAGATACCCTTGTGGG
1 GTAGAATTACCGAA-ATACCCCTGTAGG
*
66764953 GTAAAATTACC
1 GTAGAATTACC
66764964 ATTTTGCCCC
Statistics
Matches: 117, Mismatches: 28, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
26 2 0.02
27 115 0.98
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:66765755 original size:27 final size:26
Alignment explanation
Indices: 66765717--66765776 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
66765707 ATATATATAT
* *
66765717 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGATGACCTAGCCACA
* * *
66765743 ATATTTGTATCTGATGACTTAGTCACA
1 ATATCTGT-TCTGATGACCTAGCCACA
66765770 ATATCTG
1 ATATCTG
66765777 GCAGCCTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGATGACCTAGCCACA
Found at i:66776353 original size:43 final size:43
Alignment explanation
Indices: 66776233--66776378 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 43
66776223 TACCCCAAAT
* *
66776233 ATGGTCTTACATGTTAA--CACATATC-ATGCCACTGTCCCAGAC
1 ATGGTCTTACATG-TAATCCA-ATAACAATGCCAATGTCCCAGAC
* * * * * *
66776275 AGGGTCTTACACGAAATCGATTAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCCAATAACAATGCCAATGTCCCAGAC
* *
66776318 ATGGTCTTACATGTAATCTCAAT-ACAATGCTAATGTCCTAGAC
1 ATGGTCTTACATGTAATC-CAATAACAATGCCAATGTCCCAGAC
*
66776361 ATGGTCTTACTTGTAATC
1 ATGGTCTTACATGTAATC
66776379 ACATCACGAT
Statistics
Matches: 84, Mismatches: 16, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
41 2 0.02
42 14 0.17
43 66 0.79
44 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCCAATAACAATGCCAATGTCCCAGAC
Found at i:66778934 original size:27 final size:27
Alignment explanation
Indices: 66778896--66779007 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
66778886 AGCATGGCTG
* *
66778896 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
* *
66778922 CCAGATAGAGATAATCGTGGCAGACCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
66778950 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
66778977 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
66779004 CCAG
1 CCAG
66779008 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:66778988 original size:54 final size:54
Alignment explanation
Indices: 66778896--66779007 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
66778886 AGCATGGCTG
* *
66778896 CCAGAACAGATAATGTGACAGAGTCACCAGATAGAGATAATCGTGGCAGACCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGACCCA
* * * *
66778950 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGACCCA
66779004 CCAG
1 CCAG
66779008 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGACCCA
Found at i:66779453 original size:16 final size:16
Alignment explanation
Indices: 66779420--66779453 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66779410 TCTCAAAATC
*
66779420 TCAGCTTTTCGGCATT
1 TCAGCTTTTCGACATT
*
66779436 TCAGCTTTTCGACTTT
1 TCAGCTTTTCGACATT
66779452 TC
1 TC
66779454 TGATCTAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.26, G:0.15, T:0.47
Consensus pattern (16 bp):
TCAGCTTTTCGACATT
Found at i:66785413 original size:39 final size:40
Alignment explanation
Indices: 66785313--66785495 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
66785303 TCGAATGATG
* * *
66785313 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
66785353 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
*
66785393 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * *
66785432 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
* **
66785473 -CTGGGCTTTGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
66785496 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 33 0.28
40 75 0.64
41 9 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:66785479 original size:79 final size:81
Alignment explanation
Indices: 66785313--66785497 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
66785303 TCGAATGATG
* * *
66785313 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
66785377 CGTGCGAGTTAATAAA
66 CGTGCGAGTCAATAAA
* **
66785393 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
66785455 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATA-AA
* **
66785473 -CTGGGCTTTGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66785498 AGCGAGTCGT
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.61
80 34 0.38
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATAAA
Found at i:66785528 original size:79 final size:79
Alignment explanation
Indices: 66785313--66785530 Score: 174
Period size: 79 Copynumber: 2.7 Consensus size: 79
66785303 TCGAATGATG
* * * * ** *
66785313 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
66785376 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
66785393 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
66785458 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
* ** * ** * *
66785473 -CTGGGCTTTGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
66785531 TACGTGATTC
Statistics
Matches: 112, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
79 68 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:66787036 original size:22 final size:23
Alignment explanation
Indices: 66787008--66787050 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
66786998 TATCCCCACA
*
66787008 TGGAGTGTAG-GGCTGGATGAAG
1 TGGAGTGTAGAGGATGGATGAAG
66787030 TGGAGTGTAGAGGATGGATGA
1 TGGAGTGTAGAGGATGGATGA
66787051 GTAGGATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.26, C:0.02, G:0.49, T:0.23
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGATGAAG
Found at i:66794467 original size:17 final size:19
Alignment explanation
Indices: 66794445--66794483 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
66794435 ATTTGGGCTT
66794445 TGTGGG-CCACATAGG-CG
1 TGTGGGCCCACATAGGCCG
*
66794462 TGTGGGCCCAGATAGGCCG
1 TGTGGGCCCACATAGGCCG
66794481 TGT
1 TGT
66794484 TATAGGCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 8 0.42
19 5 0.26
ACGTcount: A:0.15, C:0.23, G:0.41, T:0.21
Consensus pattern (19 bp):
TGTGGGCCCACATAGGCCG
Found at i:66799450 original size:47 final size:46
Alignment explanation
Indices: 66799371--66799460 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 46
66799361 CGGGTGTTCA
66799371 CATCCACAATGAACTCAGAACACAACTCAACGAGTTTGGATGCTTG
1 CATCCACAATGAACTCAGAACACAACTCAACGAGTTTGGATGCTTG
* *** *
66799417 CATCCATAAGTGAACTCAGAATGTAACTTAACGAGTTTGGATGC
1 CATCCACAA-TGAACTCAGAACACAACTCAACGAGTTTGGATGC
66799461 CTCATAATTC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
46 8 0.21
47 30 0.79
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (46 bp):
CATCCACAATGAACTCAGAACACAACTCAACGAGTTTGGATGCTTG
Found at i:66803188 original size:20 final size:20
Alignment explanation
Indices: 66803163--66803221 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
66803153 TAAATATGGT
66803163 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
66803183 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
66803203 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
66803222 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:66803341 original size:47 final size:48
Alignment explanation
Indices: 66803272--66803390 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
66803262 GAGGAAGTGA
66803272 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGGCCCCAGTTATT
*
66803319 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
*
66803367 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
66803391 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 1 0.02
47 43 0.65
48 11 0.17
49 11 0.17
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
Found at i:66803366 original size:24 final size:24
Alignment explanation
Indices: 66803272--66803390 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
66803262 GAGGAAGTGA
*
66803272 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
66803296 GAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
66803319 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
66803343 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
66803367 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
66803391 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 22 0.26
24 51 0.61
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:66803617 original size:31 final size:31
Alignment explanation
Indices: 66803582--66803645 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
66803572 CGTTTACAGT
66803582 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
66803613 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
66803644 AA
1 AA
66803646 CATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:66803651 original size:38 final size:38
Alignment explanation
Indices: 66803599--66803706 Score: 180
Period size: 38 Copynumber: 2.8 Consensus size: 38
66803589 TCGGCCCAGT
66803599 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
66803637 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
* *
66803675 GATATGAAATATGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
66803707 GCATGATTGA
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
38 52 0.80
39 13 0.20
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:66806427 original size:17 final size:17
Alignment explanation
Indices: 66806405--66806445 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
66806395 GAGATGATTT
*
66806405 GTGAATTGGTATGTTTG
1 GTGAATTGATATGTTTG
66806422 GTGAATTGATATGTTTG
1 GTGAATTGATATGTTTG
*
66806439 GGGAATT
1 GTGAATT
66806446 AAGCATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (17 bp):
GTGAATTGATATGTTTG
Found at i:66811078 original size:33 final size:33
Alignment explanation
Indices: 66811041--66811107 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
66811031 CTAAGCCCGG
*
66811041 ATCAGTAACAAT-TGGGCCTGAGCCCTATTCAGT
1 ATCAGT-ACAATCTGGGCCTGAGCCCTATACAGT
* *
66811074 ATCAGTACAGTCTGGGCCTTAGCCCTATACAGT
1 ATCAGTACAATCTGGGCCTGAGCCCTATACAGT
66811107 A
1 A
66811108 ATAGCGTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 4 0.13
33 26 0.87
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (33 bp):
ATCAGTACAATCTGGGCCTGAGCCCTATACAGT
Found at i:66813412 original size:41 final size:42
Alignment explanation
Indices: 66813340--66813420 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 42
66813330 AGCAGGTTAT
* *
66813340 AATGCCGGTGAAATGATATCATGCTTCAAGTCTAGCAGGCGA
1 AATGCCGGTGAAATGATATCATGCTTAAAGTCTAACAGGCGA
66813382 AATGCCGGTG-AATGAGT-TCA-GACTTAAAGTCTAACAGGC
1 AATGCCGGTGAAATGA-TATCATG-CTTAAAGTCTAACAGGC
66813421 TTCGGGCCGG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
40 1 0.03
41 23 0.66
42 11 0.31
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (42 bp):
AATGCCGGTGAAATGATATCATGCTTAAAGTCTAACAGGCGA
Found at i:66815431 original size:27 final size:26
Alignment explanation
Indices: 66815400--66815569 Score: 171
Period size: 27 Copynumber: 6.4 Consensus size: 26
66815390 GGCATAATCA
* * *
66815400 TCATTTTACCATACAGGGATATTATGG
1 TCATTTTACCCTACAGGG-CATTACGG
*
66815427 TCA-TTTATCCTACAAGGGCATTACGG
1 TCATTTTACCCTAC-AGGGCATTACGG
* *
66815453 TCATTTTACCCTATAGGGGTATTACGG
1 TCATTTTACCCTACA-GGGCATTACGG
* *
66815480 TTATTTTACCCTACAGGTCATTACGG
1 TCATTTTACCCTACAGGGCATTACGG
*
66815506 TCATTTTACCCTACAAGGGCATTATGG
1 TCATTTTACCCTAC-AGGGCATTACGG
* * * *
66815533 TTATTTTACCCTATAGGGGCATTATGA
1 TCATTTTACCCTACA-GGGCATTACGG
66815560 TCATTTTACC
1 TCATTTTACC
66815570 TATTTTAGGT
Statistics
Matches: 120, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
26 41 0.34
27 79 0.66
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (26 bp):
TCATTTTACCCTACAGGGCATTACGG
Found at i:66815444 original size:53 final size:53
Alignment explanation
Indices: 66815399--66815569 Score: 193
Period size: 53 Copynumber: 3.2 Consensus size: 53
66815389 GGGCATAATC
* * *
66815399 ATCATTTTACCATACAGGGATATTATGGTCA-TTTATCCTACAAGGGCATTACG
1 ATCATTTTACCCTACAGGG-TATTATGGTTATTTTACCCTACAAGGGCATTACG
* * * *
66815452 GTCATTTTACCCTATAGGGGTATTACGGTTATTTTACCCTAC-AGGTCATTACG
1 ATCATTTTACCCTACA-GGGTATTATGGTTATTTTACCCTACAAGGGCATTACG
* * * * *
66815505 GTCATTTTACCCTACAAGGGCATTATGGTTATTTTACCCTATAGGGGCATTATG
1 ATCATTTTACCCTAC-AGGGTATTATGGTTATTTTACCCTACAAGGGCATTACG
66815559 ATCATTTTACC
1 ATCATTTTACC
66815570 TATTTTAGGT
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
53 68 0.69
54 31 0.31
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (53 bp):
ATCATTTTACCCTACAGGGTATTATGGTTATTTTACCCTACAAGGGCATTACG
Found at i:66815566 original size:80 final size:80
Alignment explanation
Indices: 66815389--66815569 Score: 231
Period size: 80 Copynumber: 2.3 Consensus size: 80
66815379 CGGAGCATAA
* * * *
66815389 GGGCATAATCATCATTTTACCATACAGGGATATTATGGTCATTTATCCTACAAGGGCATTACGGT
1 GGGCATTATGATCATTTTACCATACAGGGATATTACGGTCATTTACCCTACAAGGGCATTACGGT
66815454 CATTTTACCCTATAG
66 CATTTTACCCTATAG
* * * * * *
66815469 GGGTATTACGGTTATTTTACCCTACA-GG-TCATTACGGTCATTTTACCCTACAAGGGCATTATG
1 GGGCATTATGATCATTTTACCATACAGGGAT-ATTACGGTCA-TTTACCCTACAAGGGCATTACG
*
66815532 GTTATTTTACCCTATAG
64 GTCATTTTACCCTATAG
66815549 GGGCATTATGATCATTTTACC
1 GGGCATTATGATCATTTTACC
66815570 TATTTTAGGT
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
78 1 0.01
79 11 0.13
80 72 0.86
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (80 bp):
GGGCATTATGATCATTTTACCATACAGGGATATTACGGTCATTTACCCTACAAGGGCATTACGGT
CATTTTACCCTATAG
Found at i:66824158 original size:23 final size:23
Alignment explanation
Indices: 66824132--66824178 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
66824122 ATTATTGAGG
66824132 ACATGTTGAGCATGTCGAATAAA
1 ACATGTTGAGCATGTCGAATAAA
66824155 ACATGTTGAGCATGTCGAATAAA
1 ACATGTTGAGCATGTCGAATAAA
66824178 A
1 A
66824179 GTGAAAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (23 bp):
ACATGTTGAGCATGTCGAATAAA
Found at i:66826945 original size:17 final size:19
Alignment explanation
Indices: 66826923--66826959 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
66826913 TTGGGCTTAA
66826923 TGGG-CCACACGGG-CGTG
1 TGGGCCCACACGGGCCGTG
*
66826940 TGGGCCCACATGGGCCGTG
1 TGGGCCCACACGGGCCGTG
66826959 T
1 T
66826960 TATGGGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 4 0.24
18 8 0.47
19 5 0.29
ACGTcount: A:0.11, C:0.30, G:0.43, T:0.16
Consensus pattern (19 bp):
TGGGCCCACACGGGCCGTG
Found at i:66837979 original size:38 final size:38
Alignment explanation
Indices: 66837936--66838066 Score: 127
Period size: 38 Copynumber: 3.2 Consensus size: 38
66837926 TTTCAAATTA
66837936 ACATGTATAACCGTGGCATATCCACTTAGCACCAAGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCAAGTT
* * * *
66837974 ACATGTTTAACCGTGGTATATCCAGTTAGCACCACATTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCA-AGT--T
* *
66838015 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCAAGTT
66838059 ACATGTAT
1 ACATGTAT
66838067 CAATATGTGT
Statistics
Matches: 73, Mismatches: 11, Indels: 18
0.72 0.11 0.18
Matches are distributed among these distances:
38 32 0.44
39 2 0.03
40 4 0.05
41 2 0.03
42 1 0.01
43 1 0.01
44 2 0.03
45 3 0.04
46 1 0.01
47 25 0.34
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCAAGTT
Found at i:66838090 original size:48 final size:48
Alignment explanation
Indices: 66837981--66838114 Score: 171
Period size: 48 Copynumber: 2.8 Consensus size: 48
66837971 GTTACATGTT
* * * *
66837981 TAACCGTGGTATATCCAGTTAGCACCACATTA-ATGAATCAATATATG
1 TAACCGTAGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * *
66838028 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTAGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * *
66838076 TAATCGTAGTATATCCACTTACCACCACGTTACACGTAT
1 TAACCGTAGTATATCCACTTAGCACCACGTTACATGTAT
66838115 AACCGTGGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
47 29 0.38
48 47 0.62
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (48 bp):
TAACCGTAGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:66841831 original size:25 final size:25
Alignment explanation
Indices: 66841802--66841850 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
66841792 TTATAATATG
* * *
66841802 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
66841827 AAAATGACCATTATACCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
66841851 TTATGTATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:66841917 original size:20 final size:20
Alignment explanation
Indices: 66841892--66841950 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
66841882 TAAATATGGT
66841892 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
66841912 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
66841932 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
66841951 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:66842055 original size:23 final size:23
Alignment explanation
Indices: 66842000--66842118 Score: 143
Period size: 24 Copynumber: 5.0 Consensus size: 23
66841990 GAGGAAGTGA
66842000 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
66842023 CGAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
66842047 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
66842071 GAAAGGGCTT-TGGCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
66842094 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
66842118 A
1 A
66842119 TGATAAAGCA
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
23 38 0.45
24 39 0.46
25 7 0.08
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:66842069 original size:47 final size:47
Alignment explanation
Indices: 66842000--66842117 Score: 168
Period size: 47 Copynumber: 2.5 Consensus size: 47
66841990 GAGGAAGTGA
66842000 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGCCCCAGTTATT
* *
66842047 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGCCCCAGTTATT
*
66842094 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
66842118 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
46 10 0.15
47 44 0.68
48 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGCCCCAGTTATT
Found at i:66842103 original size:24 final size:24
Alignment explanation
Indices: 66842000--66842117 Score: 152
Period size: 23 Copynumber: 5.0 Consensus size: 24
66841990 GAGGAAGTGA
*
66842000 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
66842024 GAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
66842047 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
66842071 GAAAGGGCTT-TGGCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
66842094 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
66842118 ATGATAAAGC
Statistics
Matches: 82, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
23 38 0.46
24 36 0.44
25 8 0.10
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:66842344 original size:31 final size:31
Alignment explanation
Indices: 66842309--66842372 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
66842299 CGTTTACAGT
66842309 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
66842340 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
66842371 AA
1 AA
66842373 CATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:66842378 original size:38 final size:36
Alignment explanation
Indices: 66842326--66842418 Score: 159
Period size: 38 Copynumber: 2.5 Consensus size: 36
66842316 TCGGCCCAGT
66842326 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATG
1 AATATGAAATATGAAAAGGCTTCGGCCC-GTATTATG
*
66842363 AAATATGAAACATGAAAAGGCTTCGGCCCGTATTATG
1 -AATATGAAATATGAAAAGGCTTCGGCCCGTATTATG
66842400 AATATGAAATATGAAAAGG
1 AATATGAAATATGAAAAGG
66842419 GTACGGCCAG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
36 18 0.34
37 8 0.15
38 27 0.51
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.25
Consensus pattern (36 bp):
AATATGAAATATGAAAAGGCTTCGGCCCGTATTATG
Found at i:66843078 original size:40 final size:39
Alignment explanation
Indices: 66842933--66843095 Score: 179
Period size: 38 Copynumber: 4.2 Consensus size: 39
66842923 CTTGGTACTN
* *
66842933 CGGATATGGTCACTAGCA-TAATGCCTTCGGACTTAGCC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGACTTAGCC
* * * *
66842971 CGGATATAGTCGCTAGCACAAATGCCTTCGG-GTTTGGC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGACTTAGCC
* * *
66843009 CGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGTC
1 CGGATATAGTCACTAGCACAAATGCCTTCGGA-CTTAGCC
* *
66843049 CGGATATAGTCACTTAGCATAAAAG-CTTCGGGACTTAGCC
1 CGGATATAGTCAC-TAGCACAAATGCCTTC-GGACTTAGCC
66843089 CGGATAT
1 CGGATAT
66843096 CATTCGTATA
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
38 48 0.47
39 11 0.11
40 33 0.32
41 11 0.11
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (39 bp):
CGGATATAGTCACTAGCACAAATGCCTTCGGACTTAGCC
Found at i:66846054 original size:24 final size:24
Alignment explanation
Indices: 66846027--66846252 Score: 345
Period size: 24 Copynumber: 9.6 Consensus size: 24
66846017 CTTATTATGT
* * *
66846027 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
66846051 TCGCACACATAGTGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
66846075 TCGCACAC-TAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
66846098 TCGCACAC-TAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
66846121 TCGCACACATAGTGCCATAGT-AA
1 TCGCACACATAGTGCCATAGTAAA
*
66846144 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
66846168 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
66846192 TCGCACACATAGTGCCATAG--AA
1 TCGCACACATAGTGCCATAGTAAA
*
66846214 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
66846238 TCGCACACATAGTGC
1 TCGCACACATAGTGC
66846253 ATTTGAGATA
Statistics
Matches: 194, Mismatches: 4, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
22 22 0.11
23 67 0.35
24 105 0.54
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:66846132 original size:70 final size:70
Alignment explanation
Indices: 66846027--66846252 Score: 357
Period size: 70 Copynumber: 3.2 Consensus size: 70
66846017 CTTATTATGT
* * * * *
66846027 TCGCACACATAGAGCTATAGCAAATCGCACACATAGTGCTATAGCAAATCGCACAC-TAGTGCTA
1 TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAG--AATCGCACACATAGTGCCA
*
66846091 TAGTAAA
64 TAGTGAA
66846098 TCGCACAC-TAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAATCGCACACATAGTGCCAT
1 TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAG-AATCGCACACATAGTGCCAT
66846162 AGTGAA
65 AGTGAA
66846168 TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGAATCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGAATCGCACACATAGTGCCATA
66846233 GTGAA
66 GTGAA
66846238 TCGCACACATAGTGC
1 TCGCACACATAGTGC
66846253 ATTTGAGATA
Statistics
Matches: 146, Mismatches: 7, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
69 10 0.07
70 93 0.64
71 43 0.29
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (70 bp):
TCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGAATCGCACACATAGTGCCATA
GTGAA
Found at i:66846227 original size:117 final size:116
Alignment explanation
Indices: 66846027--66846252 Score: 346
Period size: 117 Copynumber: 1.9 Consensus size: 116
66846017 CTTATTATGT
* * *
66846027 TCGCACACATAGAGCTATAGCAAATCGCACACATAGTGCTATAGCAAATCGCACACTAGTGCTAT
1 TCGCACACATAGAGCCATAGCAAATCGCACACATAGTGCCATAGCAAATCGCACACTAGTGCCAT
66846092 AGTAAATCGCACACTAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAA
66 AG-AAATCGCACACTAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAA
* ** *
66846144 TCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCA
1 TCGCACACATAGAGCCATAGCAAATCGCACACATAGTGCCATAGCAAATCGCACAC-TAGTGCCA
*
66846209 TAG-AATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGC
65 TAGAAATCGCACAC-TAGTGCCATAGTAAATCGCACACATAGTGC
66846253 ATTTGAGATA
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
116 10 0.10
117 79 0.80
118 10 0.10
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (116 bp):
TCGCACACATAGAGCCATAGCAAATCGCACACATAGTGCCATAGCAAATCGCACACTAGTGCCAT
AGAAATCGCACACTAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAA
Found at i:66853808 original size:24 final size:24
Alignment explanation
Indices: 66853781--66854010 Score: 363
Period size: 24 Copynumber: 9.6 Consensus size: 24
66853771 CTTATTATGT
* * *
66853781 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
66853805 TCGCACACATAGTGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
66853829 TCGCACAC-TAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
66853852 TCGCACACTTAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
66853876 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
66853900 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
66853924 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
66853948 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
66853972 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
66853996 TCGCACACATAGTGC
1 TCGCACACATAGTGC
66854011 ATTTGAGATA
Statistics
Matches: 197, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
23 22 0.11
24 175 0.89
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:66857514 original size:27 final size:28
Alignment explanation
Indices: 66857473--66857578 Score: 137
Period size: 27 Copynumber: 3.9 Consensus size: 28
66857463 CAGCCAGAAT
* * *
66857473 AGATA-TTGTGACAGAGTCACTAGATAC
1 AGATATTTGTGGCAGAGCCACCAGATAC
* *
66857500 AGATA-TTGTGGCAGAGCCACCAAAAAC
1 AGATATTTGTGGCAGAGCCACCAGATAC
66857527 AGATATTTGTGGCAGAGCCACCAGAT-C
1 AGATATTTGTGGCAGAGCCACCAGATAC
*
66857554 AGATATTTGTGGGAGAGCCACCAGA
1 AGATATTTGTGGCAGAGCCACCAGA
66857579 ACGTTTCCTC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
27 52 0.74
28 18 0.26
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (28 bp):
AGATATTTGTGGCAGAGCCACCAGATAC
Found at i:66857543 original size:55 final size:54
Alignment explanation
Indices: 66857473--66857576 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 54
66857463 CAGCCAGAAT
* *
66857473 AGATATTGTGACAGAGTCACTAGATACAGATA-TTGTGGCAGAGCCACCAAAAAC
1 AGATATTGTGACAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCACCAAAAAC
* *
66857527 AGATATTTGTGGCAGAGCCACCAGATCAGATATTTGTGGGAGAGCCACCA
1 AGATA-TTGTGACAGAGCCACCAGATCAGATATTTGTGGCAGAGCCACCA
66857577 GAACGTTTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
54 11 0.25
55 33 0.75
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (54 bp):
AGATATTGTGACAGAGCCACCAGATCAGATATTTGTGGCAGAGCCACCAAAAAC
Found at i:66871614 original size:15 final size:15
Alignment explanation
Indices: 66871596--66871626 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
66871586 AATGAATGAT
66871596 TTTAATTTGAATTTA
1 TTTAATTTGAATTTA
66871611 TTTAATTTGAATTTA
1 TTTAATTTGAATTTA
66871626 T
1 T
66871627 ATTGATCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTAATTTGAATTTA
Found at i:66872042 original size:43 final size:42
Alignment explanation
Indices: 66871887--66872043 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 42
66871877 TGTGTTTTCG
* * *
66871887 TGTAAGACCACGTCTAGGACGTTAGCATCGAT-TTATGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGATTCA
* * * * * *
66871929 TGTGTAAGACCATGTCTGGGACATCGACATC-ATATTTAATTTCG
1 --TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGA-TTCA
*
66871973 TGTAAGACC-CTATCTGGGACAG-TGGCATCGATATTTGATTGCA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATT-CA
66872016 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
66872044 TGTACGGGCT
Statistics
Matches: 88, Mismatches: 17, Indels: 17
0.72 0.14 0.14
Matches are distributed among these distances:
42 25 0.28
43 35 0.40
44 28 0.32
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTCA
Found at i:66874524 original size:34 final size:34
Alignment explanation
Indices: 66874480--66874551 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
66874470 GCATTACTAT
* * *
66874480 TACTGTTACTGTATTCGGCTAAGGCCCGT-ACTGA
1 TACTGATACTGTAATAGGCTAAGGCCC-TAACTGA
*
66874514 TACTGATACTGTAATAGGCTATGGCCCTAACTGA
1 TACTGATACTGTAATAGGCTAAGGCCCTAACTGA
66874548 TACT
1 TACT
66874552 AGATTGTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 1 0.03
34 32 0.97
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (34 bp):
TACTGATACTGTAATAGGCTAAGGCCCTAACTGA
Found at i:66882628 original size:43 final size:43
Alignment explanation
Indices: 66882471--66882629 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
66882461 TATGTGTTTT
* *
66882471 CATGTAAGACCACATCGAGGACATTGGCATCGAT-TTATGATTTA
1 CATGTAAGACCATATCTAGGACATTGGCATCGATATT-TGA-TTA
* * * * * * * *
66882515 CGTGTAATACCATGTTTGGGACATCGACATC-ATATTTGATTT
1 CATGTAAGACCATATCTAGGACATTGGCATCGATATTTGATTA
* * * *
66882557 CGTGTAAGACCCTATCTGGGACAGTGGCATCGATATTTGATTA
1 CATGTAAGACCATATCTAGGACATTGGCATCGATATTTGATTA
* * *
66882600 CATGTAAGACCATGTCCAGGACGTTGGCAT
1 CATGTAAGACCATATCTAGGACATTGGCAT
66882630 TGTACAAGCT
Statistics
Matches: 88, Mismatches: 25, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
42 26 0.30
43 38 0.43
44 24 0.27
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCATATCTAGGACATTGGCATCGATATTTGATTA
Found at i:66886322 original size:43 final size:43
Alignment explanation
Indices: 66886261--66886348 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
66886251 TTATCGATCA
*
66886261 ATACACATTATTTAACCTACAATTCATACATTTATGCATTCAT
1 ATACACATCATTTAACCTACAATTCATACATTTATGCATTCAT
66886304 ATACACATCATTTAACCTACAATTCATACATTTATGCATTCAT
1 ATACACATCATTTAACCTACAATTCATACATTTATGCATTCAT
66886347 AT
1 AT
66886349 TCAAATATCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.39
Consensus pattern (43 bp):
ATACACATCATTTAACCTACAATTCATACATTTATGCATTCAT
Found at i:66886369 original size:43 final size:43
Alignment explanation
Indices: 66886265--66886373 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
66886255 CGATCAATAC
* * *
66886265 ACATTATTTAACCTACAATTCATACATTTATGCATTCATATAC
1 ACATCATTTAAACTACAATTCATACATTTATGCATTCATATAA
*
66886308 ACATCATTTAACCTACAATTCATACATTTATGCATTCATATTCAA
1 ACATCATTTAAACTACAATTCATACATTTATGCATTCATA-T-AA
*
66886353 ATATCA-TTAAAC-ACAA-TCATA
1 ACATCATTTAAACTACAATTCATA
66886374 TTGTCCCTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
42 5 0.08
43 43 0.72
44 6 0.10
45 6 0.10
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.37
Consensus pattern (43 bp):
ACATCATTTAAACTACAATTCATACATTTATGCATTCATATAA
Found at i:66887690 original size:23 final size:23
Alignment explanation
Indices: 66887639--66887730 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 23
66887629 GAGCTGATGC
*
66887639 ACAGTAAGCTCTGACGAGTTGAA
1 ACAGTAAGCTCTGACGAGATGAA
* *
66887662 ATAGTAAGCTTTGACGAGATGAA
1 ACAGTAAGCTCTGACGAGATGAA
* * * *
66887685 CCAGTAATCTCAT-AAGAGGTGAGA
1 ACAGTAAGCTC-TGACGAGATGA-A
* *
66887709 ACAGTAAGCTCTTACTAGATGA
1 ACAGTAAGCTCTGACGAGATGA
66887731 TATATCGGTA
Statistics
Matches: 52, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
23 35 0.67
24 17 0.33
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (23 bp):
ACAGTAAGCTCTGACGAGATGAA
Found at i:66893318 original size:40 final size:40
Alignment explanation
Indices: 66893285--66893435 Score: 216
Period size: 40 Copynumber: 3.8 Consensus size: 40
66893275 GAATGTTATT
66893285 CGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATC
1 CGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATC
* *
66893325 CGGGCTTAAAGACCCGCGGGCTAT-ATGCTGGAA-TGTTATC
1 CGGGCTTAAAGACCCGCAGGCT-TCGTGCTGGAATTG-TATC
66893365 CGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATC
1 CGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATC
* * * *
66893405 TGGGCATAAAGACCCGCAGGCTACGAGCTGG
1 CGGGCTTAAAGACCCGCAGGCTTCGTGCTGG
66893436 TATTATACTT
Statistics
Matches: 99, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
39 3 0.03
40 93 0.94
41 3 0.03
ACGTcount: A:0.22, C:0.25, G:0.31, T:0.23
Consensus pattern (40 bp):
CGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATC
Found at i:66893415 original size:80 final size:80
Alignment explanation
Indices: 66893274--66893427 Score: 272
Period size: 80 Copynumber: 1.9 Consensus size: 80
66893264 TGATACTTGA
* *
66893274 GGAATGTTATTCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCATAAAGACC
*
66893339 CGCGGGCTATATGCT
66 CGCAGGCTATATGCT
*
66893354 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCTGGGCATAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCATAAAGACC
66893419 CGCAGGCTA
66 CGCAGGCTA
66893428 CGAGCTGGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (80 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCATAAAGACC
CGCAGGCTATATGCT
Found at i:66901160 original size:2 final size:2
Alignment explanation
Indices: 66901153--66901183 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
66901143 CTTGTGTATT
66901153 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
66901184 TCAGCCAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66906265 original size:42 final size:42
Alignment explanation
Indices: 66906154--66906281 Score: 116
Period size: 42 Copynumber: 3.0 Consensus size: 42
66906144 ATATCGTACA
* * *
66906154 ATGCCAACGTCCCAAACATGGTCTTAC-TGTAATCACATGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG-AATCACATATCG
* ** * * * *
66906196 ATACC-ACTGTCTTAGATGGGGTATTACACGAATCACATATCG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACATGAATCACATATCG
*
66906238 ATGCCAACGTCCCAGACGTGGTCTTACATGAGAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGA-ATCACATATCG
66906281 A
1 A
66906282 AAATCCTATG
Statistics
Matches: 64, Mismatches: 18, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
41 2 0.03
42 48 0.75
43 14 0.22
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAATCACATATCG
Found at i:66917021 original size:40 final size:40
Alignment explanation
Indices: 66916975--66917159 Score: 253
Period size: 40 Copynumber: 4.6 Consensus size: 40
66916965 CTCGCACAAG
* *
66916975 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
66917015 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
66917055 GCCTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
66917095 GCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAAT
*
66917136 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
66917160 CATTCGAATA
Statistics
Matches: 124, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
40 95 0.77
41 29 0.23
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:66928694 original size:74 final size:74
Alignment explanation
Indices: 66928607--66928744 Score: 267
Period size: 74 Copynumber: 1.9 Consensus size: 74
66928597 AAAGCTGAAA
66928607 TTTTTTTTAGACATATTATAAGCACTCATTTTCTAAATTCCTTCATTACCTATTCGGCCAACTCG
1 TTTTTTTTAGACATATTATAAGCACTCATTTTCTAAATTCCTTCATTACCTATTCGGCCAACTCG
66928672 TCTGAAATT
66 TCTGAAATT
*
66928681 TTTTTTTTAGACATATTATAAGCACTCATTTTCTAAATTCCTTCATTACCTATTTGGCCAACTC
1 TTTTTTTTAGACATATTATAAGCACTCATTTTCTAAATTCCTTCATTACCTATTCGGCCAACTC
66928745 AACTTAACCA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (74 bp):
TTTTTTTTAGACATATTATAAGCACTCATTTTCTAAATTCCTTCATTACCTATTCGGCCAACTCG
TCTGAAATT
Found at i:66930176 original size:20 final size:20
Alignment explanation
Indices: 66930151--66930188 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66930141 GTTTATTCGC
*
66930151 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
66930171 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
66930189 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:66931849 original size:28 final size:28
Alignment explanation
Indices: 66931817--66931913 Score: 171
Period size: 28 Copynumber: 3.5 Consensus size: 28
66931807 GCGTAGATCA
66931817 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
66931845 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
66931873 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
66931901 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
66931914 GGGTTTTAAA
Statistics
Matches: 68, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
26 3 0.04
27 8 0.12
28 57 0.84
ACGTcount: A:0.45, C:0.27, G:0.09, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:66938212 original size:20 final size:20
Alignment explanation
Indices: 66938187--66938224 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66938177 GTTTATTCGC
*
66938187 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
66938207 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
66938225 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:66939914 original size:18 final size:18
Alignment explanation
Indices: 66939855--66939916 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
66939845 GTAGATCACG
66939855 AAATTACCCCTAAAGAGCA
1 AAATTA-CCCTAAAGAGCA
* * *
66939874 AAATTA-CCGAAATTA-CG
1 AAATTACCCTAAA-GAGCA
66939891 AAATTACCCTAAAGAGCA
1 AAATTACCCTAAAGAGCA
66939909 AAATTACC
1 AAATTACC
66939917 GATATACCCC
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
17 13 0.38
18 15 0.44
19 6 0.18
ACGTcount: A:0.48, C:0.23, G:0.10, T:0.19
Consensus pattern (18 bp):
AAATTACCCTAAAGAGCA
Found at i:66941565 original size:28 final size:28
Alignment explanation
Indices: 66941525--66941607 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
66941515 ACTGTAAATG
* *
66941525 TGATTTGGGCCTAGTGGCCATATGAATT
1 TGATTTGGGCCTAATGGCCATATGAATA
* *
66941553 TGATTTGGGCCTAATTGGCCACATAAATA
1 TGATTTGGGCCTAA-TGGCCATATGAATA
*
66941582 TGA-ATGGGCCTAATGGGCCATATGAA
1 TGATTTGGGCCTAAT-GGCCATATGAA
66941608 AGAGATTGGG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
27 1 0.02
28 31 0.67
29 14 0.30
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (28 bp):
TGATTTGGGCCTAATGGCCATATGAATA
Found at i:66941617 original size:28 final size:28
Alignment explanation
Indices: 66941529--66941632 Score: 95
Period size: 28 Copynumber: 3.7 Consensus size: 28
66941519 TAAATGTGAT
* * *
66941529 TTGGGCCTAGT-GGCCATATGAATTTGA
1 TTGGGCCTAATGGGCCATATGAAATAGA
* *
66941556 TTTGGGCCTAATTGGCCACAT-AAATATGA
1 -TTGGGCCTAATGGGCCATATGAAATA-GA
* *
66941585 ATGGGCCTAATGGGCCATATGAAAGAGA
1 TTGGGCCTAATGGGCCATATGAAATAGA
* *
66941613 TTGGGCATAGTGGGCCATAT
1 TTGGGCCTAATGGGCCATAT
66941633 ATATAGGTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 49 0.79
29 13 0.21
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAAATAGA
Done.