Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 249 of 345
Found at i:73337115 original size:25 final size:24
Alignment explanation
Indices: 73337019--73337187 Score: 74
Period size: 25 Copynumber: 6.8 Consensus size: 24
73337009 GGTAAACACA
73337019 GAATTCTCTGAAAAGCCTTTGTGG
1 GAATTCTCTGAAAAGCCTTTGTGG
* *
73337043 CAATTACTCTGGAACA-CCTTTGTGG
1 GAATT-CTCT-GAAAAGCCTTTGTGG
* * * *
73337068 CAATTTTTTTG-AAA-CATAGTTGTGG
1 GAA-TTCTCTGAAAAGCCT--TTGTGG
73337093 TGAATTCTCTGAAAAGCCTTTGTGG
1 -GAATTCTCTGAAAAGCCTTTGTGG
* * * * * * *
73337118 AAAATACTTTGGAATGTCTTTGTAGC
1 -GAATTCTCTGAAAAGCCTTTGT-GG
* * *
73337144 GAATTTTCTGAAATGTCTTTGTGG
1 GAATTCTCTGAAAAGCCTTTGTGG
* *
73337168 CGAATTCTTTGGAAAGCCTT
1 -GAATTCTCTGAAAAGCCTT
73337188 CGTTATGAAC
Statistics
Matches: 106, Mismatches: 29, Indels: 19
0.69 0.19 0.12
Matches are distributed among these distances:
23 4 0.04
24 6 0.06
25 82 0.77
26 12 0.11
27 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (24 bp):
GAATTCTCTGAAAAGCCTTTGTGG
Found at i:73337166 original size:75 final size:75
Alignment explanation
Indices: 73337019--73337187 Score: 187
Period size: 75 Copynumber: 2.3 Consensus size: 75
73337009 GGTAAACACA
* * * *
73337019 GAATTCTCTGAAAAGCCTTTGTGGCAATTACTCTGGAACACCTTTGTGGCAATTTTTTTGAAACA
1 GAATTCTCTGAAAAGCCTTTGTGGAAAATACTCTGGAACACCTTTGTAGCAATTTTTCTGAAACA
*
73337084 TAGTTGTGGT
66 TAGTTGTGGC
* *** *
73337094 GAATTCTCTGAAAAGCCTTTGTGGAAAATACTTTGGAATGTCTTTGTAGCGAA-TTTTCTGAAAT
1 GAATTCTCTGAAAAGCCTTTGTGGAAAATACTCTGGAACACCTTTGTAGC-AATTTTTCTGAAAC
* **
73337158 GTCTTTGTGGC
65 ATAGTTGTGGC
* *
73337169 GAATTCTTTGGAAAGCCTT
1 GAATTCTCTGAAAAGCCTT
73337188 CGTTATGAAC
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
75 76 0.97
76 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (75 bp):
GAATTCTCTGAAAAGCCTTTGTGGAAAATACTCTGGAACACCTTTGTAGCAATTTTTCTGAAACA
TAGTTGTGGC
Found at i:73339711 original size:19 final size:20
Alignment explanation
Indices: 73339674--73339713 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
73339664 TGGGATTAAA
73339674 TCGAAACAAATTAGAAAATT
1 TCGAAACAAATTAGAAAATT
73339694 TCGAAA-AAACTT-GAAAATT
1 TCGAAACAAA-TTAGAAAATT
73339713 T
1 T
73339714 TAAAAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.28
Consensus pattern (20 bp):
TCGAAACAAATTAGAAAATT
Found at i:73354301 original size:40 final size:40
Alignment explanation
Indices: 73354246--73354455 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
73354236 GAACATTGAA
73354246 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
73354286 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
73354326 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
73354366 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
73354405 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
73354446 CTATATCCGG
1 ATATATCCGG
73354456 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:73358836 original size:27 final size:28
Alignment explanation
Indices: 73358806--73358875 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
73358796 ATAATAAGTC
*
73358806 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
73358833 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
73358861 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73358876 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:73366919 original size:27 final size:28
Alignment explanation
Indices: 73366889--73366958 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
73366879 ATAATAAGTC
*
73366889 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
73366916 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
73366944 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73366959 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:73374998 original size:27 final size:28
Alignment explanation
Indices: 73374968--73375037 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
73374958 ATAATAAGTC
*
73374968 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
73374995 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
73375023 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73375038 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:73388638 original size:18 final size:18
Alignment explanation
Indices: 73388611--73388696 Score: 147
Period size: 18 Copynumber: 4.8 Consensus size: 18
73388601 TTGAGCTATG
* *
73388611 TGGG-CCACACGGGCATG
1 TGGGCCCACACGGGCGTA
73388628 TGGGCCCACACGGGCGTA
1 TGGGCCCACACGGGCGTA
73388646 TGGGCCCACACGGGCGTA
1 TGGGCCCACACGGGCGTA
73388664 TGGGCCCACACGGGCGTA
1 TGGGCCCACACGGGCGTA
73388682 TGGGCCCACACGGGC
1 TGGGCCCACACGGGC
73388697 CGACAATACT
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
17 4 0.06
18 62 0.94
ACGTcount: A:0.16, C:0.34, G:0.40, T:0.10
Consensus pattern (18 bp):
TGGGCCCACACGGGCGTA
Found at i:73390775 original size:93 final size:93
Alignment explanation
Indices: 73390663--73390834 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
73390653 CGCCCATAAG
* *
73390663 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
73390728 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
73390756 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
73390821 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
73390835 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:73390831 original size:46 final size:46
Alignment explanation
Indices: 73390656--73390831 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
73390646 TGTAACCCGC
* * *
73390656 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
73390702 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
73390752 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
73390795 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
73390832 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:73398296 original size:18 final size:19
Alignment explanation
Indices: 73398275--73398310 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
73398265 AATAAAGAAA
*
73398275 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
73398293 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
73398311 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:73399738 original size:30 final size:29
Alignment explanation
Indices: 73399652--73399781 Score: 219
Period size: 28 Copynumber: 4.5 Consensus size: 29
73399642 AAAATTGTAC
*
73399652 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
*
73399681 AGCAC-AAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
73399709 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
73399739 AGCACTAAGTGTGCGAGCT-AAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
73399767 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
73399782 GATTCACTAT
Statistics
Matches: 98, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
28 48 0.49
29 26 0.27
30 24 0.24
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:73399766 original size:58 final size:57
Alignment explanation
Indices: 73399652--73399781 Score: 217
Period size: 58 Copynumber: 2.3 Consensus size: 57
73399642 AAAATTGTAC
73399652 AGCACTAAGTGTGCGAACTGAAAATATATAGCACAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACAAGTGTGCGAACTGAAAATATAT
* *
73399709 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCT-AAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCAC-AAGTGTGCGAACTGAAAATATAT
73399767 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
73399782 GATTCACTAT
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
57 23 0.33
58 34 0.49
59 12 0.17
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (57 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACAAGTGTGCGAACTGAAAATATAT
Found at i:73401571 original size:46 final size:46
Alignment explanation
Indices: 73401504--73401678 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
73401494 TGTAACCCGC
* *
73401504 CCATAAGCGAACTCGGACTCAACTCAAAGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
73401550 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
73401600 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
73401643 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
73401679 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 61 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:73401640 original size:93 final size:93
Alignment explanation
Indices: 73401511--73401682 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
73401501 CGCCCATAAG
* *
73401511 CGAACTCGGACTCAACTCAAAGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
73401576 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
73401604 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCTATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
73401669 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
73401683 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAAAGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:73413616 original size:41 final size:41
Alignment explanation
Indices: 73413571--73413652 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
73413561 GCTGGACACA
*
73413571 TTGATTAACAAAAGCTAATAAATTTGTCTTAATCTAAACAT
1 TTGATTAACAAAAGCTAATAAATCTGTCTTAATCTAAACAT
**
73413612 TTGATTAACAGCAGCTAATAAATCTGTCTTAATCTAAACAT
1 TTGATTAACAAAAGCTAATAAATCTGTCTTAATCTAAACAT
73413653 ATTAAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (41 bp):
TTGATTAACAAAAGCTAATAAATCTGTCTTAATCTAAACAT
Found at i:73414757 original size:28 final size:28
Alignment explanation
Indices: 73414685--73414741 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
73414675 TGTTAGTGCA
*
73414685 TAAATACCAATTTATATGACGGAGTACT
1 TAAATACCAATTTATATGACGGAATACT
73414713 TAAATACCAATTTATATGACGGAATACT
1 TAAATACCAATTTATATGACGGAATACT
73414741 T
1 T
73414742 GGGATACCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (28 bp):
TAAATACCAATTTATATGACGGAATACT
Found at i:73415257 original size:18 final size:15
Alignment explanation
Indices: 73415219--73415250 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
73415209 AAGATAATGG
73415219 GTTAAATTGTTGTAA
1 GTTAAATTGTTGTAA
73415234 GTTAAATTGTTGTAA
1 GTTAAATTGTTGTAA
73415249 GT
1 GT
73415251 ACATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (15 bp):
GTTAAATTGTTGTAA
Found at i:73417106 original size:40 final size:40
Alignment explanation
Indices: 73417023--73417242 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
73417013 ACCCAAGTAT
** * *
73417023 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
73417061 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
73417101 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
73417141 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
73417181 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
73417221 CTTCAGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
73417243 CATTCGAATA
Statistics
Matches: 153, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.10
40 124 0.81
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:73424668 original size:40 final size:39
Alignment explanation
Indices: 73424623--73424752 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
73424613 CGGAATACAA
73424623 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
73424663 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
73424703 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
73424743 CCGGATATAA
1 CCGGATATAA
73424753 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:73428484 original size:8 final size:8
Alignment explanation
Indices: 73428473--73428554 Score: 67
Period size: 8 Copynumber: 9.9 Consensus size: 8
73428463 ATATTAAATA
73428473 TTAAATTT
1 TTAAATTT
*
73428481 TTAAGTTT
1 TTAAATTT
**
73428489 TTTTATTT
1 TTAAATTT
*
73428497 TT-TATTT
1 TTAAATTT
*
73428504 TTTAATTT
1 TTAAATTT
73428512 TTAAATTT
1 TTAAATTT
*
73428520 TAAAATTTT
1 TTAAA-TTT
73428529 TTAAAGATTT
1 TT-AA-ATTT
73428539 TTATAATTT
1 TTA-AATTT
73428548 TTAAATT
1 TTAAATT
73428555 AACATATAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
7 7 0.11
8 33 0.54
9 12 0.20
10 8 0.13
11 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (8 bp):
TTAAATTT
Found at i:73428529 original size:9 final size:9
Alignment explanation
Indices: 73428507--73428552 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 9
73428497 TTTATTTTTT
73428507 AATTTTT-A
1 AATTTTTAA
73428515 AA-TTTTAA
1 AATTTTTAA
73428523 AATTTTTTAA
1 AA-TTTTTAA
*
73428533 AGATTTTTAT
1 A-ATTTTTAA
73428543 AATTTTTAA
1 AATTTTTAA
73428552 A
1 A
73428553 TTAACATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
7 4 0.12
8 5 0.16
9 8 0.25
10 14 0.44
11 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (9 bp):
AATTTTTAA
Found at i:73430008 original size:15 final size:15
Alignment explanation
Indices: 73429988--73430020 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
73429978 TTAAAGTAAT
73429988 AATATTTTT-CCATAA
1 AATATTTTTACCA-AA
73430003 AATATTTTTACCAAA
1 AATATTTTTACCAAA
73430018 AAT
1 AAT
73430021 CAATCAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATTTTTACCAAA
Found at i:73430586 original size:2 final size:2
Alignment explanation
Indices: 73430579--73430603 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
73430569 TTTTAAGGTA
73430579 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 A
73430604 ATCATGAGAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:73432399 original size:40 final size:40
Alignment explanation
Indices: 73432287--73432439 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
73432277 GGATATAGCG
* * * * ***
73432287 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
73432327 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
73432367 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
73432407 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
73432440 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:73440426 original size:40 final size:40
Alignment explanation
Indices: 73440314--73440466 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
73440304 GGATATAGCG
* * * * ***
73440314 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
73440354 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
73440394 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
73440434 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
73440467 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:73443503 original size:25 final size:26
Alignment explanation
Indices: 73443453--73443504 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
73443443 TTTGGTTAAA
* *
73443453 TCTACTTTTATTTTGAACTTTCTTAT
1 TCTACTTTTATTTTGAACCTTATTAT
*
73443479 TCTA-TTTTATTTTGATCCTTATTAT
1 TCTACTTTTATTTTGAACCTTATTAT
73443504 T
1 T
73443505 TAATTATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.19, C:0.13, G:0.04, T:0.63
Consensus pattern (26 bp):
TCTACTTTTATTTTGAACCTTATTAT
Found at i:73447065 original size:26 final size:25
Alignment explanation
Indices: 73447036--73447151 Score: 62
Period size: 26 Copynumber: 4.6 Consensus size: 25
73447026 CTTATGAGCA
73447036 TCCCGATATATGGCTCTTCGTGAGAT
1 TCCCGATATATGGCT-TTCGTGAGAT
* * *
73447062 TCCCGAT-TAAAGGCTCTTTGTGAGCT
1 TCCCGATAT-ATGGCT-TTCGTGAGAT
** *
73447088 TCTTGAT-TAATGGCTTTC-TAGAGCT
1 TCCCGATAT-ATGGCTTTCGT-GAGAT
* *
73447113 TCCCGATAT-TGGCTTGCTTGA-ACT
1 TCCCGATATATGGCTTTCGTGAGA-T
*
73447137 TCTCGATATATGGCT
1 TCCCGATATATGGCT
73447152 ATCCAGAGCT
Statistics
Matches: 72, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
24 19 0.26
25 19 0.26
26 34 0.47
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (25 bp):
TCCCGATATATGGCTTTCGTGAGAT
Found at i:73447125 original size:24 final size:25
Alignment explanation
Indices: 73447097--73447164 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 25
73447087 TTCTTGATTA
73447097 ATGGCTTTCTAGAGCTTCCCGATAT
1 ATGGCTTTCTAGAGCTTCCCGATAT
* * * *
73447122 -TGGCTTGCTTGAACTTCTCGATAT
1 ATGGCTTTCTAGAGCTTCCCGATAT
* *
73447146 ATGGCTATCCAGAGCTTCC
1 ATGGCTTTCTAGAGCTTCC
73447165 TAATTAATGG
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
24 20 0.62
25 12 0.38
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (25 bp):
ATGGCTTTCTAGAGCTTCCCGATAT
Found at i:73447163 original size:25 final size:24
Alignment explanation
Indices: 73447083--73447163 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
73447073 GGCTCTTTGT
*
73447083 GAGCTTCTTGAT-TAATGGCTTTCTA
1 GAGCTTCTCGATAT-ATGGC-TTCTA
* *
73447108 GAGCTTCCCGATAT-TGGCTTGCTT
1 GAGCTTCTCGATATATGGCTT-CTA
* *
73447132 GAACTTCTCGATATATGGCTATCCA
1 GAGCTTCTCGATATATGGCT-TCTA
73447157 GAGCTTC
1 GAGCTTC
73447164 CTAATTAATG
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
23 2 0.05
24 18 0.41
25 22 0.50
26 2 0.05
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (24 bp):
GAGCTTCTCGATATATGGCTTCTA
Found at i:73447260 original size:25 final size:25
Alignment explanation
Indices: 73447231--73447292 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
73447221 GGCTCTTATG
*
73447231 AGCTTCTCGTTATACAACCCAGATA
1 AGCTTCTCGTTAGACAACCCAGATA
* * *
73447256 AGCTTCTCGTTAGATAGCCCGGATA
1 AGCTTCTCGTTAGACAACCCAGATA
73447281 AGCTTCTCGTTA
1 AGCTTCTCGTTA
73447293 CATGGCTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (25 bp):
AGCTTCTCGTTAGACAACCCAGATA
Found at i:73451770 original size:46 final size:46
Alignment explanation
Indices: 73451713--73451804 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
73451703 TATTCTACAG
*
73451713 AATAAACTACCCAACAAACTAAAAGATCTAGGGAGTTTTACGATTC
1 AATAAAATACCCAACAAACTAAAAGATCTAGGGAGTTTTACGATTC
* *
73451759 AATAAAATACCCAACAAGCTAAAAGATCTAGGGAGTTTTATGATTC
1 AATAAAATACCCAACAAACTAAAAGATCTAGGGAGTTTTACGATTC
73451805 CTTGCTTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.25
Consensus pattern (46 bp):
AATAAAATACCCAACAAACTAAAAGATCTAGGGAGTTTTACGATTC
Found at i:73456841 original size:29 final size:29
Alignment explanation
Indices: 73456742--73456929 Score: 238
Period size: 29 Copynumber: 6.5 Consensus size: 29
73456732 ACTCGATTTC
* * **
73456742 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
73456771 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
* *
73456799 CGCACAC-CAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
73456828 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
73456857 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
73456886 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
73456915 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
73456930 ATCTCGTCAC
Statistics
Matches: 140, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
28 22 0.16
29 118 0.84
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:73464944 original size:29 final size:29
Alignment explanation
Indices: 73464854--73465013 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
73464844 ACTCGATTTC
* * **
73464854 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
73464883 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
73464911 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
73464941 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
73464970 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
73464999 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
73465014 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:73467676 original size:38 final size:38
Alignment explanation
Indices: 73467616--73467763 Score: 156
Period size: 38 Copynumber: 3.9 Consensus size: 38
73467606 CTGCAACACA
* * *
73467616 CCAGTTTGCTCAGAAGAACTATTCCATCCGATAACACAC
1 CCAGTATGCTCATAAGAGCTATTCCATCCGATAACA-AC
* * * **
73467655 CCA-TATCCTCATAAGAGCTATTACATTCGATAACATT
1 CCAGTATGCTCATAAGAGCTATTCCATCCGATAACAAC
* * *
73467692 CTAGTATGCTTATAAGAGCTATTCTATCCGATAA-AAC
1 CCAGTATGCTCATAAGAGCTATTCCATCCGATAACAAC
*
73467729 GCCAGTATGCTCATAAGAGCTATTCCATCCAATAA
1 -CCAGTATGCTCATAAGAGCTATTCCATCCGATAA
73467764 TATTCCACAA
Statistics
Matches: 87, Mismatches: 20, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
37 3 0.03
38 81 0.93
39 3 0.03
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.28
Consensus pattern (38 bp):
CCAGTATGCTCATAAGAGCTATTCCATCCGATAACAAC
Found at i:73478900 original size:40 final size:40
Alignment explanation
Indices: 73478841--73479047 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
73478831 CATTGGAATG
* * *
73478841 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
73478881 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * **
73478921 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * *
73478961 AAATCCGGGTTAAGA-CCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
73479000 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
73479040 ATATCCGG
1 ATATCCGG
73479048 TTAAATTCCG
Statistics
Matches: 139, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
39 32 0.23
40 105 0.76
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:73479046 original size:79 final size:80
Alignment explanation
Indices: 73478845--73479051 Score: 231
Period size: 79 Copynumber: 2.6 Consensus size: 80
73478835 GGAATGATAT
* * *
73478845 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGCATTCG
*** *
73478910 TGCGAGTTGTTATAT
66 TGCGAGTCACTATAA
* * ** *
73478925 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGA-CCGAAGGCAATT-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGC-ATTC
73478988 GTGCGAGTCACTATAA
65 GTGCGAGTCACTATAA
** * * *
73479004 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATTATATCC-GGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAA
73479052 ATTCCGAAGG
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
78 6 0.06
79 53 0.50
80 46 0.44
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTATATCCGGGTTAAGACCCGAAGGCATTCG
TGCGAGTCACTATAA
Found at i:73488162 original size:40 final size:40
Alignment explanation
Indices: 73488096--73488246 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
73488086 AAATTGAATG
* * *
73488096 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
73488135 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
73488175 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
73488215 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
73488247 ACATGCTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:73488260 original size:40 final size:39
Alignment explanation
Indices: 73488133--73488262 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
73488123 ATGCTGGAAA
* * *
73488133 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* *
73488174 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
73488212 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
73488253 TTATATCCGG
1 TTATATCCGG
73488263 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:73490153 original size:40 final size:40
Alignment explanation
Indices: 73490094--73490301 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
73490084 CATTGGAATG
* * *
73490094 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
73490134 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * **
73490174 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * * *
73490214 AAATCCGTGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * * *
73490254 ATAACCGGGCTTCGTCCTGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
73490294 ATATCCGG
1 ATATCCGG
73490302 TTAAATTCCG
Statistics
Matches: 138, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
39 3 0.02
40 133 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:73492887 original size:40 final size:40
Alignment explanation
Indices: 73492748--73492893 Score: 132
Period size: 41 Copynumber: 3.6 Consensus size: 40
73492738 ACTCGATATC
** *
73492748 TCGCACACTAAGTGCCA-ATGCATAGCCAAAGCTATTATAATT
1 TCGCACACTAAGTGCCATAT--ATAGCCAAAGCTATTCCAA-A
* * * * ****
73492790 TCGTACACTAAGTGCCTTACATAGCCAAAGCAATCTCGGTC
1 TCGCACACTAAGTGCCATATATAGCCAAAGCTAT-TCCAAA
* *
73492831 TCCCACACTAAGTGCCATATATAGCCGAAGCTATTCCAAA
1 TCGCACACTAAGTGCCATATATAGCCAAAGCTATTCCAAA
73492871 TCGCACACTAAGTGCCATATATA
1 TCGCACACTAAGTGCCATATATA
73492894 TATCCGAATC
Statistics
Matches: 82, Mismatches: 20, Indels: 6
0.76 0.19 0.06
Matches are distributed among these distances:
40 24 0.29
41 41 0.50
42 16 0.20
43 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCAAAGCTATTCCAAA
Found at i:73501662 original size:20 final size:20
Alignment explanation
Indices: 73501637--73501675 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
73501627 AGAGACTAAA
* *
73501637 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
73501657 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
73501676 AATGGATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:73504419 original size:29 final size:29
Alignment explanation
Indices: 73504385--73504516 Score: 88
Period size: 29 Copynumber: 4.6 Consensus size: 29
73504375 TACTCGATTT
* * *
73504385 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
73504414 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
73504443 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
73504472 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
73504501 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
73504517 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:73504477 original size:58 final size:59
Alignment explanation
Indices: 73504384--73504516 Score: 137
Period size: 58 Copynumber: 2.3 Consensus size: 59
73504374 ATACTCGATT
* * * *
73504384 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGCA
* * * ** * *
73504442 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGCA
73504501 T-GCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
73504517 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
57 4 0.06
58 57 0.92
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGCA
Found at i:73515156 original size:46 final size:46
Alignment explanation
Indices: 73515106--73515277 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
73515096 TGGTTGAGCA
73515106 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
73515152 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
* * *
73515196 GCATCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TC--CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
73515244 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
73515278 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 85 0.82
47 2 0.02
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:73515265 original size:92 final size:93
Alignment explanation
Indices: 73515103--73515272 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 93
73515093 GGATGGTTGA
* * *
73515103 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
73515168 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
73515196 GCAT-CGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
73515260 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
73515273 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 69 0.95
93 4 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:73520941 original size:40 final size:39
Alignment explanation
Indices: 73520831--73520974 Score: 189
Period size: 39 Copynumber: 3.6 Consensus size: 39
73520821 AATGTTCGAG
73520831 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
73520870 TGATATCCAGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
73520909 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
73520949 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
73520975 GTTTGAACGA
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 51 0.55
40 41 0.45
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:73522990 original size:38 final size:38
Alignment explanation
Indices: 73522948--73523030 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
73522938 TATTTGATTT
*
73522948 AAAAAAAATGAAAAA-GAAATTGAAAAAAAACTTTTGA
1 AAAAAAAATCAAAAAGGAAATTGAAAAAAAACTTTTGA
** * * *
73522985 AAAAAATGTCAAAAAGGAATTTGAAAAAGAATTTTTGA
1 AAAAAAAATCAAAAAGGAAATTGAAAAAAAACTTTTGA
73523023 AAAAAAAA
1 AAAAAAAA
73523031 AAGTGGTCCA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
37 12 0.32
38 25 0.68
ACGTcount: A:0.65, C:0.02, G:0.12, T:0.20
Consensus pattern (38 bp):
AAAAAAAATCAAAAAGGAAATTGAAAAAAAACTTTTGA
Found at i:73523013 original size:13 final size:12
Alignment explanation
Indices: 73522956--73523018 Score: 56
Period size: 12 Copynumber: 5.1 Consensus size: 12
73522946 TTAAAAAAAA
*
73522956 TGAAAAAGAAAT
1 TGAAAAAGAATT
*
73522968 TGAAAAAAAACTTT
1 TGAAAAAGAA--TT
*
73522982 TGAAAAA-AATG
1 TGAAAAAGAATT
*
73522993 TCAAAAAGGAATT
1 TGAAAAA-GAATT
73523006 TGAAAAAGAATT
1 TGAAAAAGAATT
73523018 T
1 T
73523019 TTGAAAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
11 7 0.17
12 15 0.37
13 11 0.27
14 8 0.20
ACGTcount: A:0.59, C:0.03, G:0.14, T:0.24
Consensus pattern (12 bp):
TGAAAAAGAATT
Found at i:73523383 original size:30 final size:29
Alignment explanation
Indices: 73523343--73523413 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 29
73523333 CTGGGTGATT
73523343 CCACATGGCCATGTGGCGCACATGACCTGA
1 CCACATGGCCATGTGGCGCACATGACCT-A
* * *
73523373 CCACACGGCCATGTGGCTCACATGGCCTA
1 CCACATGGCCATGTGGCGCACATGACCTA
*
73523402 GCACATGGCCAT
1 CCACATGGCCAT
73523414 ATTTTTCTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 11 0.31
30 25 0.69
ACGTcount: A:0.23, C:0.35, G:0.25, T:0.17
Consensus pattern (29 bp):
CCACATGGCCATGTGGCGCACATGACCTA
Found at i:73523492 original size:17 final size:17
Alignment explanation
Indices: 73523467--73523500 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
73523457 AACCAAAGTG
73523467 ATTTCATTTACTTTTAT
1 ATTTCATTTACTTTTAT
* *
73523484 ATTTTATTTATTTTTAT
1 ATTTCATTTACTTTTAT
73523501 TTATGTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTCATTTACTTTTAT
Found at i:73524094 original size:71 final size:70
Alignment explanation
Indices: 73523956--73524101 Score: 249
Period size: 71 Copynumber: 2.1 Consensus size: 70
73523946 TTTTGGAATA
*
73523956 ATTTGTGGATTTTTGTGCATTGTGTGATTCATACTTTAAGACATGAGATAGTCTCCCTGAACTAA
1 ATTTTTGGATTTTTGTGCATTGTGTGATTCATACTTTAAGACATGAGATAGTCTCCCTGAACT-A
73524021 AAAATT
65 AAAATT
*
73524027 ATTTTTGGATTTTTGTGCATTGTGTGATTTATACTTTAAGACATG-GATAGTCTCCCTGAACTGA
1 ATTTTTGGATTTTTGTGCATTGTGTGATTCATACTTTAAGACATGAGATAGTCTCCCTGAACT-A
73524091 AAAATT
65 AAAATT
73524097 ATTTT
1 ATTTT
73524102 GAAATTTTAA
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
70 29 0.40
71 43 0.60
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (70 bp):
ATTTTTGGATTTTTGTGCATTGTGTGATTCATACTTTAAGACATGAGATAGTCTCCCTGAACTAA
AAATT
Found at i:73525563 original size:33 final size:34
Alignment explanation
Indices: 73525487--73525575 Score: 112
Period size: 34 Copynumber: 2.6 Consensus size: 34
73525477 GTTTCAGTTA
*
73525487 GGGCCTTAGCCCATTTCAGAATCAGAAATAGTGT
1 GGGCCTAAGCCCATTTCAGAATCAGAAATAGTGT
*
73525521 GGGCCTAAGCCCATTTCAGTAA-CAG-TATCAGTG-
1 GGGCCTAAGCCCATTTCAG-AATCAGAAAT-AGTGT
*
73525554 GGGCCTAAGCCCATTACAGAAT
1 GGGCCTAAGCCCATTTCAGAAT
73525576 TAGTACAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
32 2 0.04
33 20 0.41
34 25 0.51
35 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (34 bp):
GGGCCTAAGCCCATTTCAGAATCAGAAATAGTGT
Found at i:73532957 original size:47 final size:45
Alignment explanation
Indices: 73532887--73533104 Score: 172
Period size: 47 Copynumber: 4.6 Consensus size: 45
73532877 ATGATAACCC
* *
73532887 GTGTAAGACCACGTCTGGGACATGGCATCGGCGTAGAGGTGAGTGCCA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCGTAGA-GTGAGTGCTA
* * *
73532935 GTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-TGATGTTATCTA
1 GTGTAAGACATGTCTGGGACATGCATCGGCGTAGAGTGA-G-T-GCTA
* * **
73532982 GTGTAAGACGTGTCTGCGACATGCATCGGC-TA-AGTTTTGTGCTA
1 GTGTAAGACATGTCTGGGACATGCATCGGCGTAGAG-TGAGTGCTA
* * * * *
73533026 GTGTAAGACATGTCTGGGACATGCATCAGCACGTATACATGAGAGATA
1 GTGTAAGACATGTCTGGGACATGCATC-G-GCGTAGA-GTGAGTGCTA
*
73533074 GAGTAAGACCATGTCTGGGACATGGCATCGG
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGG
73533105 GCTCGATGGA
Statistics
Matches: 137, Mismatches: 21, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
44 31 0.23
45 4 0.03
46 15 0.11
47 46 0.34
48 21 0.15
49 15 0.11
50 5 0.04
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (45 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCGTAGAGTGAGTGCTA
Found at i:73532957 original size:91 final size:89
Alignment explanation
Indices: 73532844--73533052 Score: 208
Period size: 91 Copynumber: 2.3 Consensus size: 89
73532834 ACGATGGCTG
* * * * *
73532844 GTGTAAGACGTGTCTAGAACATGCAGTC-GCATC-ATGA-TAACCCGTGTAAGACCACGTCTGGG
1 GTGTAAGACATGTCTGGGACATGCA-TCGGCATCGATGATTAACCAGTGTAAGA-CACGTCTGCG
73532906 ACATGGCATCGGCGTAGAGGTGAGTGCCA
64 ACAT-GCATCGGC-TA-AGGTGAGTGCCA
* * * **
73532935 GTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGTTATCTAGTGTAAGACGTGTCTGCG
1 GTGTAAGACATGTCTGGGACATGCATCGGCATCGATGA--TTAACCAGTGTAAGACACGTCTGCG
* ** *
73533000 ACATGCATCGGCTAAGTTTTGTGCTA
64 ACATGCATCGGCTAAGGTGAGTGCCA
73533026 GTGTAAGACATGTCTGGGACATGCATC
1 GTGTAAGACATGTCTGGGACATGCATC
73533053 AGCACGTATA
Statistics
Matches: 99, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
90 2 0.02
91 61 0.62
92 6 0.06
93 8 0.08
94 11 0.11
95 11 0.11
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (89 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCATCGATGATTAACCAGTGTAAGACACGTCTGCGAC
ATGCATCGGCTAAGGTGAGTGCCA
Found at i:73534021 original size:55 final size:55
Alignment explanation
Indices: 73533916--73534047 Score: 128
Period size: 55 Copynumber: 2.4 Consensus size: 55
73533906 CTTAAACTTT
* * *
73533916 TAAA-TCAATATTGTCCACG-GTTAGGCCATACGAGCGTGTGCCATAGCCGTGTCAA
1 TAAAGTCAGTATTGCCCACGAG-TAGGCCACACGAGCGTGTGCCATAGCCGTG-CAA
* * **
73533971 T-AAGTCAGTATTGCCCACGAGTAGGCCACACGGGCGTGTGTCAT-GACCGTGCCC
1 TAAAGTCAGTATTGCCCACGAGTAGGCCACACGAGCGTGTGCCATAG-CCGTGCAA
* *
73534025 TAAAGTCAGTGTTGCACACGAGT
1 TAAAGTCAGTATTGCCCACGAGT
73534048 TGAGGATGTG
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
54 5 0.08
55 58 0.91
56 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (55 bp):
TAAAGTCAGTATTGCCCACGAGTAGGCCACACGAGCGTGTGCCATAGCCGTGCAA
Found at i:73536037 original size:28 final size:28
Alignment explanation
Indices: 73535968--73536068 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
73535958 GACAAGATTG
* * * *
73535968 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
73535998 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
73536026 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
73536055 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
73536069 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:73536062 original size:29 final size:28
Alignment explanation
Indices: 73535997--73536068 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
73535987 AAAATTGTAC
*
73535997 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
73536025 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
73536054 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
73536069 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:73540274 original size:24 final size:24
Alignment explanation
Indices: 73540247--73540337 Score: 155
Period size: 24 Copynumber: 3.8 Consensus size: 24
73540237 CTTATTATGT
* **
73540247 TCGCACCCATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
73540271 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
73540295 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
73540319 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
73540338 TATTTCCAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:73540362 original size:29 final size:29
Alignment explanation
Indices: 73540320--73540393 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
73540310 CATAGTAAAT
*
73540320 CGCACACATAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
73540349 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
73540378 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
73540394 ATCTCGTCAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:73548129 original size:24 final size:24
Alignment explanation
Indices: 73548093--73548230 Score: 251
Period size: 24 Copynumber: 5.8 Consensus size: 24
73548083 CTTATTATGT
**
73548093 TCGCAC-CATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
73548116 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
73548140 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
73548164 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
73548188 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
73548212 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
73548231 TATTTCCAGC
Statistics
Matches: 112, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
23 6 0.05
24 106 0.95
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:73548255 original size:29 final size:29
Alignment explanation
Indices: 73548213--73548286 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
73548203 CATAGTAAAT
*
73548213 CGCACACATAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
73548242 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
73548271 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
73548287 ATCTCGTCAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:73554802 original size:28 final size:28
Alignment explanation
Indices: 73554733--73554833 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
73554723 GACAAGATTG
* * * *
73554733 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
73554763 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
73554791 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
73554820 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
73554834 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:73554827 original size:29 final size:28
Alignment explanation
Indices: 73554762--73554833 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
73554752 AAAATTGTAC
*
73554762 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
73554790 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
73554819 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
73554834 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:73557239 original size:349 final size:349
Alignment explanation
Indices: 73556600--73557638 Score: 1981
Period size: 349 Copynumber: 3.0 Consensus size: 349
73556590 CTCCTGATCA
*
73556600 AAAGCCAATTGTAATGAGAAGTATTTATCAAAACTTATTGGCATGATGCGTACAATTGTAGATTG
1 AAAGCCAATTGTAATGAGAAGTATTTATCAAAACTTATTGGCATGATGCGTACAAGTGTAGATTG
73556665 ATATAAAATATCATATCCTTATATACAAAAAAATTCTCAACAATAATGGTTTAGCTACTAACTTG
66 ATATAAAATATCATATCCTTATATACAAAAAAATTCTCAACAATAATGGTTTAGCTACTAACTTG
*
73556730 AGGCATTTAATCATTAATTTTGATAAACCATTTCATACATATAAACAATAGGCTTTTGCAAGTTA
131 AGGCATTTAATCATTAATTTTGATAAACCATTTCATACATATAAACAATAGGCTTTTGCTAGTTA
* *
73556795 CTCGTACTAATAATCTAGCATATAATAATAATTGAAAGTATGAGTAATAAAGTCACCAACATTAG
196 CTCGCACTAATAATCTAGCATATAATAATCATTGAAAGTATGAGTAATAAAGTCACCAACATTAG
*
73556860 CCAGACTTGTACCAATTGCATTATCTAAAAGTTTTGTTCATAAACAAATCATTAAATAAATAAAC
261 CCAGACTTGTACCAATTGCATTATCTAAAAGTTTTGTTCATAAACAAATCATTAAATAAATAATC
73556925 TCGCAAACTACAAGTTTTGTTCAT
326 TCGCAAACTACAAGTTTTGTTCAT
73556949 AAAGCCAATTGTAATGAGAAGTATTTATCAAAACTTATTGGCATGATGCGTACAAGTGTAGATTG
1 AAAGCCAATTGTAATGAGAAGTATTTATCAAAACTTATTGGCATGATGCGTACAAGTGTAGATTG
*
73557014 ATATAAAAGATCATATCCTTATATACAAAAAAATTCTCAACAATAATGGTTTAGCTACTAACTTG
66 ATATAAAATATCATATCCTTATATACAAAAAAATTCTCAACAATAATGGTTTAGCTACTAACTTG
73557079 AGGCATTTAATCATTAATTTTGATAAACCATTTCATACATATAAACAATAGGCTTTTGCTAGTTA
131 AGGCATTTAATCATTAATTTTGATAAACCATTTCATACATATAAACAATAGGCTTTTGCTAGTTA
73557144 CTCGCACTAATAATCTAGCATATAATAATCATTGAAAGTATGAGTAATAAAGTCACCAACATTAG
196 CTCGCACTAATAATCTAGCATATAATAATCATTGAAAGTATGAGTAATAAAGTCACCAACATTAG
73557209 CCAGACTTGTACCAATTGCATTATCTAAAAGTTTTGTTCATAAACAAATCATTAAATAAATAATC
261 CCAGACTTGTACCAATTGCATTATCTAAAAGTTTTGTTCATAAACAAATCATTAAATAAATAATC
**
73557274 TCGTGAACTACAAGTTTTGTTCAT
326 TCGCAAACTACAAGTTTTGTTCAT
73557298 AAAGCCAATTGTAATGAGAAGTATTTATCAAAACTTATTGGCATGATGCGTACAAGTGTAGATTG
1 AAAGCCAATTGTAATGAGAAGTATTTATCAAAACTTATTGGCATGATGCGTACAAGTGTAGATTG
*
73557363 ATATAAAATATCATATCCTTATATACAAAAAAATTCTTAACAATAATGGTTTAGCTACTAACTTG
66 ATATAAAATATCATATCCTTATATACAAAAAAATTCTCAACAATAATGGTTTAGCTACTAACTTG
73557428 AGGCATTTAATCATTAATTTTGATAAACCATTTCATACATATAAACAATAGGCTTTTGCTAGTTA
131 AGGCATTTAATCATTAATTTTGATAAACCATTTCATACATATAAACAATAGGCTTTTGCTAGTTA
73557493 CAT-GCACTAATAATCTAGCATATAATAATCATTGAAAGTATGAGTAATAAAGTCACCAACATTA
196 C-TCGCACTAATAATCTAGCATATAATAATCATTGAAAGTATGAGTAATAAAGTCACCAACATTA
73557557 GCCAGACTTGTACCAATTGCATTATCTAAAAGTTTTGTTCATAAACAAATCATTAAATAAATAAT
260 GCCAGACTTGTACCAATTGCATTATCTAAAAGTTTTGTTCATAAACAAATCATTAAATAAATAAT
73557622 CTCGCAAACTACAAGTT
325 CTCGCAAACTACAAGTT
73557639 GCAAGTGATA
Statistics
Matches: 677, Mismatches: 12, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
349 676 1.00
350 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (349 bp):
AAAGCCAATTGTAATGAGAAGTATTTATCAAAACTTATTGGCATGATGCGTACAAGTGTAGATTG
ATATAAAATATCATATCCTTATATACAAAAAAATTCTCAACAATAATGGTTTAGCTACTAACTTG
AGGCATTTAATCATTAATTTTGATAAACCATTTCATACATATAAACAATAGGCTTTTGCTAGTTA
CTCGCACTAATAATCTAGCATATAATAATCATTGAAAGTATGAGTAATAAAGTCACCAACATTAG
CCAGACTTGTACCAATTGCATTATCTAAAAGTTTTGTTCATAAACAAATCATTAAATAAATAATC
TCGCAAACTACAAGTTTTGTTCAT
Found at i:73560076 original size:40 final size:42
Alignment explanation
Indices: 73559973--73560119 Score: 127
Period size: 43 Copynumber: 3.5 Consensus size: 42
73559963 GAAAGCCGAG
**
73559973 CTCGTTGAGCAGTCCGAGTTCGTGATATATGTGAGAATCCGAA
1 CTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCC-AA
** * *
73560016 CTTATTGAGTGGTCCAAGTTCGTGATATATGTG-GCATCC-A
1 CTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCAA
* * * ** * * * *
73560056 CTCGTTGAGTGGTCTGAGTTCATCATGGATGCGAGCATCTGAG
1 CTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAGAATC-CAA
73560099 CTCGTTGAGTGGTCCGAGTTC
1 CTCGTTGAGTGGTCCGAGTTC
73560120 ATAATGGATG
Statistics
Matches: 83, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
40 25 0.30
41 5 0.06
42 5 0.06
43 48 0.58
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.31
Consensus pattern (42 bp):
CTCGTTGAGTGGTCCGAGTTCGTGATATATGTGAGAATCCAA
Found at i:73560188 original size:51 final size:51
Alignment explanation
Indices: 73560091--73560190 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 51
73560081 TGGATGCGAG
* * * *
73560091 CATCTGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCGATACATGTAA
1 CATCCGAGCTCGTTAAGAGGTCCGAGTTCATAATGGACGCGATACATGTAA
* * * *
73560142 CATCCGAGCTCGTTAAGAGGTCTGAGTTCATTATGGACGTGTTACATGT
1 CATCCGAGCTCGTTAAGAGGTCCGAGTTCATAATGGACGCGATACATGT
73560191 TATAAGGTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (51 bp):
CATCCGAGCTCGTTAAGAGGTCCGAGTTCATAATGGACGCGATACATGTAA
Found at i:73565197 original size:25 final size:25
Alignment explanation
Indices: 73565169--73565245 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
73565159 TGATGAATGG
73565169 GAATGTGCATATATGTGATAAGGCC
1 GAATGTGCATATATGTGATAAGGCC
* * * *
73565194 GAAT-AGC-CA-ATGTGATGAATG-T
1 GAATGTGCATATATGTGAT-AAGGCC
**
73565216 GAACATGCATATATGTGATAAGGCC
1 GAATGTGCATATATGTGATAAGGCC
73565241 GAATG
1 GAATG
73565246 GCCAATGTGA
Statistics
Matches: 36, Mismatches: 11, Indels: 10
0.63 0.19 0.18
Matches are distributed among these distances:
22 10 0.28
23 6 0.17
24 6 0.17
25 14 0.39
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (25 bp):
GAATGTGCATATATGTGATAAGGCC
Found at i:73565209 original size:22 final size:22
Alignment explanation
Indices: 73565181--73565256 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
73565171 ATGTGCATAT
73565181 ATGTGATAAGGCCGAATAGCCA
1 ATGTGATAAGGCCGAATAGCCA
* * * *
73565203 ATGTGATGAATG-TGAACATGCATA
1 ATGTGAT-AAGGCCGAATA-GC-CA
*
73565227 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATAGCCA
73565250 ATGTGAT
1 ATGTGAT
73565257 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 18 0.45
23 6 0.15
24 6 0.15
25 10 0.25
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATAGCCA
Found at i:73565210 original size:47 final size:47
Alignment explanation
Indices: 73565156--73565269 Score: 183
Period size: 47 Copynumber: 2.4 Consensus size: 47
73565146 TTAGGATTTT
**
73565156 ATGTGATGAATGGGAATGTGCATATATGTGATAAGGCCGAATAGCCA
1 ATGTGATGAATGGGAACATGCATATATGTGATAAGGCCGAATAGCCA
* *
73565203 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGGGAACATGCATATATGTGATAAGGCCGAATAGCCA
*
73565250 ATGTGATGAATGTGAACATG
1 ATGTGATGAATGGGAACATG
73565270 TGATGAATGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 63 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGGGAACATGCATATATGTGATAAGGCCGAATAGCCA
Found at i:73565245 original size:31 final size:31
Alignment explanation
Indices: 73565210--73565309 Score: 82
Period size: 31 Copynumber: 3.2 Consensus size: 31
73565200 CCAATGTGAT
73565210 GAATGTGAACATGCATATATGTGATAAGGCC
1 GAATGTGAACATGCATATATGTGATAAGGCC
* * **
73565241 GAATG-G-CCAATGTGATGA-ATGTGA-ACATGTGAT
1 GAATGTGAAC-ATG-CAT-ATATGTGATA-A-G-GCC
73565274 GAATGTGAACATGCATATATGTGATAAGGCC
1 GAATGTGAACATGCATATATGTGATAAGGCC
73565305 GAATG
1 GAATG
73565310 GCCAATGTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 20
0.65 0.10 0.25
Matches are distributed among these distances:
29 1 0.02
30 5 0.10
31 20 0.39
32 4 0.08
33 15 0.29
34 5 0.10
35 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (31 bp):
GAATGTGAACATGCATATATGTGATAAGGCC
Found at i:73565272 original size:17 final size:17
Alignment explanation
Indices: 73565250--73565286 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
73565240 CGAATGGCCA
73565250 ATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAAC
73565267 ATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAAC
73565284 ATG
1 ATG
73565287 CATATATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.30, T:0.30
Consensus pattern (17 bp):
ATGTGATGAATGTGAAC
Found at i:73565287 original size:64 final size:64
Alignment explanation
Indices: 73565203--73565333 Score: 262
Period size: 64 Copynumber: 2.0 Consensus size: 64
73565193 CGAATAGCCA
73565203 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
73565267 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
73565331 ATG
1 ATG
73565334 CATATGTGTG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (64 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAC
Found at i:73565298 original size:25 final size:25
Alignment explanation
Indices: 73565267--73565346 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
73565257 GAATGTGAAC
73565267 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
73565292 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
73565314 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
*
73565339 GTGTGATG
1 ATGTGATG
73565347 TAACACCCCG
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
24 9 0.22
25 15 0.37
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:73566787 original size:40 final size:40
Alignment explanation
Indices: 73566742--73566969 Score: 341
Period size: 40 Copynumber: 5.7 Consensus size: 40
73566732 ATAACCACAA
* * * *
73566742 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* * *
73566782 GCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
73566822 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
73566862 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
73566902 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* *
73566942 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
73566970 GTATCATTCA
Statistics
Matches: 178, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 177 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:73568843 original size:47 final size:47
Alignment explanation
Indices: 73568774--73569060 Score: 524
Period size: 47 Copynumber: 6.1 Consensus size: 47
73568764 AGGCTGTCAC
73568774 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
73568821 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
*
73568868 ATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGCATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
73568915 ATGTGATAAGGCCGAATGGCCAATGTGAT--ATGTGAACATGCATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
* *
73568960 GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATGT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
*
73569007 GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
73569054 ATGTGAT
1 ATGTGAT
73569061 GTAACACCCC
Statistics
Matches: 232, Mismatches: 6, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
45 44 0.19
47 188 0.81
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
Found at i:73569026 original size:139 final size:140
Alignment explanation
Indices: 73568774--73569060 Score: 522
Period size: 139 Copynumber: 2.0 Consensus size: 140
73568764 AGGCTGTCAC
73568774 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATG
1 ATGTGATAAGGCCGAATGGCCAATGTGAT-AATGTGAACATGCATATATGTGATAAGGCCGAATG
*
73568839 GCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTG
65 GCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
73568904 AACATGCATAT
130 AACATGCATAT
*
73568915 ATGTGATAAGGCCGAATGGCCAATGTGAT-ATGTGAACATGCATATGTGTGATAAGGCCGAATGG
1 ATGTGATAAGGCCGAATGGCCAATGTGATAATGTGAACATGCATATATGTGATAAGGCCGAATGG
* *
73568979 CCAATGTGATGAATGTGAACATGCATGTGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
66 CCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
73569044 ACATGCATAT
131 ACATGCATAT
73569054 ATGTGAT
1 ATGTGAT
73569061 GTAACACCCC
Statistics
Matches: 142, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
139 113 0.80
141 29 0.20
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (140 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATAATGTGAACATGCATATATGTGATAAGGCCGAATGG
CCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
ACATGCATAT
Found at i:73570463 original size:40 final size:39
Alignment explanation
Indices: 73570418--73570547 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
73570408 CGGAATATAA
73570418 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
73570458 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
73570498 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
73570538 CCGGATATAA
1 CCGGATATAA
73570548 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:73570562 original size:40 final size:40
Alignment explanation
Indices: 73570434--73570585 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
73570424 ATAACCATGT
* * *
73570434 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
73570474 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
73570514 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
73570554 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
73570586 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:73570568 original size:80 final size:80
Alignment explanation
Indices: 73570434--73570583 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
73570424 ATAACCATGT
*
73570434 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
73570498 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
73570514 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
73570577 CCCGGAT
64 CCCGGAT
73570584 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:73578429 original size:40 final size:39
Alignment explanation
Indices: 73578384--73578510 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
73578374 CGGAATATAA
73578384 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
73578424 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
73578464 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
73578504 CCGGATA
1 CCGGATA
73578511 AATTTCCAGC
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:73580326 original size:45 final size:46
Alignment explanation
Indices: 73580259--73580369 Score: 179
Period size: 45 Copynumber: 2.4 Consensus size: 46
73580249 TTATATATGT
*
73580259 GTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAG
1 GTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAG
* *
73580305 GTAAAGTCGAATGGC-AATGCGAAACGTGTATGAGATGGATATGTG
1 GTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAG
*
73580350 GTAAAGCCAAATGGCTAATG
1 GTAAAGCCGAATGGCTAATG
73580370 TAAAGATGTA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 41 0.69
46 18 0.31
ACGTcount: A:0.35, C:0.10, G:0.32, T:0.23
Consensus pattern (46 bp):
GTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAG
Found at i:73582887 original size:27 final size:26
Alignment explanation
Indices: 73582857--73582911 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
73582847 TTTACTAGAA
*
73582857 TACCCCTATGTATGCAAAATTACCATT
1 TACCCCTATGTATGCAAAATGACC-TT
*
73582884 TACCCCTATGTATGCTAAATGACCTT
1 TACCCCTATGTATGCAAAATGACCTT
73582910 TA
1 TA
73582912 TACCCTAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.31, C:0.25, G:0.09, T:0.35
Consensus pattern (26 bp):
TACCCCTATGTATGCAAAATGACCTT
Found at i:73582917 original size:27 final size:27
Alignment explanation
Indices: 73582860--73582918 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
73582850 ACTAGAATAC
* *
73582860 CCCTATGTATGCAAAATTACCATTTAC
1 CCCTATGTATGCAAAATGACCATTTAA
*
73582887 CCCTATGTATGCTAAATGACC-TTTATA
1 CCCTATGTATGCAAAATGACCATTTA-A
73582914 CCCTA
1 CCCTA
73582919 GGGTTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (27 bp):
CCCTATGTATGCAAAATGACCATTTAA
Found at i:73583082 original size:27 final size:28
Alignment explanation
Indices: 73583024--73583113 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
73583014 AGGAAGCGTC
*
73583024 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
73583052 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
73583079 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
73583108 CTGGTG
1 CTGGTG
73583114 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:73583124 original size:29 final size:28
Alignment explanation
Indices: 73583034--73583124 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
73583024 CTGGTGGCTA
* * *
73583034 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
73583062 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
73583089 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
73583118 TGTCACA
1 TGCCACA
73583125 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:73583132 original size:55 final size:56
Alignment explanation
Indices: 73583024--73583138 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
73583014 AGGAAGCGTC
* * *
73583024 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
73583079 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
73583135 CTGG
1 CTGG
73583139 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:73583598 original size:19 final size:19
Alignment explanation
Indices: 73583574--73583612 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
73583564 TTTTAATTAT
* *
73583574 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
73583593 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
73583612 T
1 T
73583613 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:73590659 original size:27 final size:27
Alignment explanation
Indices: 73590628--73590690 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
73590618 ATTTACTAGA
*
73590628 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGC-AAATGACCATT
*
73590656 -TACCCCTATGTATGCAAATGACCTTT
1 ATACCCCTATGTATGCAAATGACCATT
73590682 ATACCCCTA
1 ATACCCCTA
73590691 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 9 0.28
27 23 0.72
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.32
Consensus pattern (27 bp):
ATACCCCTATGTATGCAAATGACCATT
Found at i:73590872 original size:27 final size:28
Alignment explanation
Indices: 73590796--73590884 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
73590786 AGGAAGCGTC
*
73590796 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
73590824 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
73590851 C-GGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
73590879 CTGGTG
1 CTGGTG
73590885 ACTCTGTCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
26 13 0.26
27 17 0.34
28 16 0.32
29 4 0.08
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:73590895 original size:29 final size:27
Alignment explanation
Indices: 73590806--73590895 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
73590796 CTGGTGGCTA
* * *
73590806 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTC-GGTGACAC
** *
73590834 TGCCAC-GTATATCTGTTCGGTGGCAC
1 TGCCACAAAATATCTGTTCGGTGACAC
*
73590860 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TC-GGTGACAC
*
73590889 TGTCACA
1 TGCCACA
73590896 TTTTTGTATC
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
26 13 0.26
27 17 0.34
28 8 0.16
29 12 0.24
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (27 bp):
TGCCACAAAATATCTGTTCGGTGACAC
Found at i:73591367 original size:19 final size:19
Alignment explanation
Indices: 73591343--73591381 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
73591333 TTTTAATTAT
* *
73591343 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
73591362 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
73591381 T
1 T
73591382 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:73592508 original size:40 final size:40
Alignment explanation
Indices: 73592464--73592842 Score: 659
Period size: 40 Copynumber: 9.5 Consensus size: 40
73592454 GAGAATTGAG
* *
73592464 AGTGATGTATCTGGGCTAAGTCCCGGAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
73592504 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
73592544 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
73592584 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
73592624 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
73592664 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
73592704 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
73592744 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
73592784 AGTGATATATCCGGGCTAAGTTCCAAAGAGCAATCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
73592824 AGTGATATATTCGGGCTAA
1 AGTGATGTATCCGGGCTAA
73592843 ACCTCGAAGG
Statistics
Matches: 330, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 330 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:73592965 original size:57 final size:57
Alignment explanation
Indices: 73592870--73593037 Score: 219
Period size: 57 Copynumber: 2.9 Consensus size: 57
73592860 GCTGGAATTA
* * * * * *
73592870 TGAGGCACTGTGTGTACAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
* * **
73592927 TGAGGCGCTATGTGTGCGAGTTCTTCAATCGAGTACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
* * *
73592984 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCGCTATGTGTGCGAAATCAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGT
73593038 CAGTCGCACT
Statistics
Matches: 94, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 94 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
Found at i:73592971 original size:28 final size:27
Alignment explanation
Indices: 73592874--73593030 Score: 116
Period size: 28 Copynumber: 5.6 Consensus size: 27
73592864 GAATTATGAG
* * * *
73592874 GCACTGTGTGTACAAGTTCTTCAACCGA
1 GCACTATGTGTGCGAGTTCTT-AATCGA
* * * * *
73592902 GCACTATGTGTGCCAGATCAGTAGTTGA
1 GCACTATGTGTGCGAGTTC-TTAATCGA
*
73592930 GGCGCTATGTGTGCGAGTTCTTCAATCGA
1 -GCACTATGTGTGCGAGTTCTT-AATCGA
* ** *
73592959 GTACTATGTGTGCGAGATTGGTAATTGA
1 GCACTATGTGTGCGAG-TTCTTAATCGA
73592987 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCGAGTTC-TTAATCGA
*
73593016 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
73593031 AATCAGTCAG
Statistics
Matches: 99, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
28 54 0.55
29 45 0.45
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (27 bp):
GCACTATGTGTGCGAGTTCTTAATCGA
Found at i:73593003 original size:29 final size:29
Alignment explanation
Indices: 73592902--73593003 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
73592892 CTTCAACCGA
* * *
73592902 GCACTATGTGTGCCAGATCAGTAGTTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
* ** *
73592931 GCGCTATGTGTGCGAG-TTCTTCAATCGA-
1 GCACTATGTGTGCGAGATTAGT-AATTGAG
* *
73592959 GTACTATGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
73592988 GCACTATGTGTGCGAG
1 GCACTATGTGTGCGAG
73593004 TTCTTTAATC
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
28 21 0.37
29 36 0.63
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATTAGTAATTGAG
Found at i:73596436 original size:47 final size:47
Alignment explanation
Indices: 73596382--73596990 Score: 970
Period size: 47 Copynumber: 13.0 Consensus size: 47
73596372 TTAGGATTTT
** *
73596382 ATGTGATGAATGTGAATGTGCATATATGTGATAAGGCCGAATAGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
73596429 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
73596476 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
73596523 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
73596570 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCGGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
73596617 ATCG-GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCTA
1 AT-GTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
73596664 GTGCGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
73596711 ATGTTATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
73596758 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
73596805 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
73596852 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGGCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* **
73596899 ATGTGATGAATGAGAACATGCATATATGTGATAAGGCAAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
73596946 ATGTGACGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGC
73596991 TAATACGAAA
Statistics
Matches: 524, Mismatches: 35, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 519 0.99
48 4 0.01
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:73596764 original size:22 final size:22
Alignment explanation
Indices: 73596736--73596858 Score: 60
Period size: 22 Copynumber: 5.3 Consensus size: 22
73596726 ACATGCATAT
73596736 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
73596758 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
73596780 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
* *
73596805 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
73596827 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
73596852 ATGTGAT
1 ATGTGAT
73596859 GAATGTGAAC
Statistics
Matches: 75, Mismatches: 8, Indels: 36
0.63 0.07 0.30
Matches are distributed among these distances:
22 25 0.33
23 16 0.21
24 16 0.21
25 18 0.24
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:73597087 original size:46 final size:46
Alignment explanation
Indices: 73596969--73597087 Score: 202
Period size: 46 Copynumber: 2.6 Consensus size: 46
73596959 GGAAGTGTAT
* *
73596969 ATATGTGGTAAAGCCGAATGGCTAATACGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
73597015 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
73597061 ATATGTGGTAAAGCCAAATGGCTAATG
1 ATATGTGGTAAAGCCGAATGGCTAATG
73597088 TGAGAGATGT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.24
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:73599863 original size:32 final size:32
Alignment explanation
Indices: 73599822--73599888 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
73599812 TACTTAATTG
* *
73599822 AATTTCCGTACATACCTGTACCATCTCGTACC
1 AATTTCCGTACATACCTATACCATATCGTACC
73599854 AATTTCCGTACATACCTATACCATATCGTACC
1 AATTTCCGTACATACCTATACCATATCGTACC
73599886 AAT
1 AAT
73599889 CTCATACTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.31
Consensus pattern (32 bp):
AATTTCCGTACATACCTATACCATATCGTACC
Found at i:73600024 original size:42 final size:42
Alignment explanation
Indices: 73599952--73600121 Score: 223
Period size: 42 Copynumber: 4.0 Consensus size: 42
73599942 GGTTACTTGG
* * * *
73599952 AATCTCGCACACTAAGTGTCAATACGTAGCCGAAGCTAACTC
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
* * *
73599994 AATCACGCACACAAAGTGCCAATGCATAGCCGAAGCTATCTT
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
* * *
73600036 GATCTCGTACACTAAGTGCCAATGCATAGCCGAAGCTATCCC
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
* **
73600078 TATCTCGCACACTAAGTGCCAATGCATAGCTAAAGCTATCTC
1 AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
73600120 AA
1 AA
73600122 ATATTTTTGT
Statistics
Matches: 109, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 109 1.00
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (42 bp):
AATCTCGCACACTAAGTGCCAATGCATAGCCGAAGCTATCTC
Found at i:73605439 original size:13 final size:13
Alignment explanation
Indices: 73605421--73605448 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
73605411 ACAAAATTGG
73605421 AAAGATGATAAAT
1 AAAGATGATAAAT
73605434 AAAGATGATAAAT
1 AAAGATGATAAAT
73605447 AA
1 AA
73605449 TAAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:73610884 original size:21 final size:21
Alignment explanation
Indices: 73610860--73610913 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
73610850 ACCTGATATG
*
73610860 CACATGATATGTTATGACATA
1 CACATGATATGCTATGACATA
*
73610881 CACATGATATGCTATGATATA
1 CACATGATATGCTATGACATA
* *
73610902 CTCATTATATGC
1 CACATGATATGC
73610914 ATGGGTTGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
CACATGATATGCTATGACATA
Found at i:73610986 original size:25 final size:25
Alignment explanation
Indices: 73610946--73611017 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
73610936 GGAGGAAGTG
*
73610946 CAAAAAGGGCTCTGCCCCAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTTAC
* * *
73610971 CGAAAAGGGCTTTGCCTCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAGTTTAC
73610996 CAAAAAGGGCTTTGCCCCAGTT
1 CAAAAAGGGCTTTGCCCCAGTT
73611018 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:73611030 original size:24 final size:25
Alignment explanation
Indices: 73610948--73611030 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
73610938 AGGAAGTGCA
* *
73610948 AAAAG-GGCTCTGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTATC
*
73610972 GAAAAG-GGCTTTGCCTCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAGTTTATC
*
73610997 AAAA-AGGGCTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTATC
73611021 AAAAGAGGCT
1 AAAAGAGGCT
73611031 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
24 16 0.32
25 34 0.68
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTATC
Found at i:73611042 original size:50 final size:50
Alignment explanation
Indices: 73610946--73611042 Score: 117
Period size: 50 Copynumber: 1.9 Consensus size: 50
73610936 GGAGGAAGTG
**
73610946 CAAAAAGGGCTCTGCCCCAGTTTACCGAAAAGGGCTTTGCCTCAGTTTAT
1 CAAAAAGGGCTCTGCCCCAGTTTACCGAAAAGGGCTAGGCCTCAGTTTAT
* **
73610996 CAAAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 CAAAAAGGGCTCTGCCCCAGTTTACCGAAAAG-GGCTAGGCCT-CAGTT
73611043 ACATGATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 5 0.12
49 11 0.28
50 24 0.60
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (50 bp):
CAAAAAGGGCTCTGCCCCAGTTTACCGAAAAGGGCTAGGCCTCAGTTTAT
Found at i:73616391 original size:21 final size:21
Alignment explanation
Indices: 73616367--73616407 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
73616357 ATGACCTAAT
*
73616367 ATGCACATGATATGTTATGAC
1 ATGCACATGATATGCTATGAC
73616388 ATGCACATGATATGCTATGA
1 ATGCACATGATATGCTATGA
73616408 TATACTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (21 bp):
ATGCACATGATATGCTATGAC
Found at i:73616516 original size:24 final size:25
Alignment explanation
Indices: 73616458--73616516 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
73616448 AGGAAGTGCA
* *
73616458 AAAAGGGGCTTTGCCCGAGTTTATC
1 AAAAGAGGCTTTGCCCCAGTTTATC
*
73616483 AAAA-AGGGCTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTATC
73616507 AAAAGAGGCT
1 AAAAGAGGCT
73616517 AGGCCTCCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTATC
Found at i:73619544 original size:29 final size:29
Alignment explanation
Indices: 73619512--73619575 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
73619502 CTTCGAGCTC
*
73619512 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
73619541 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
73619570 GCACAC
1 GCACAC
73619576 TTAGTTCCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.25
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:73619576 original size:29 final size:29
Alignment explanation
Indices: 73619520--73619580 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
73619510 TCGCACACCC
*
73619520 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
73619549 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
73619578 AGT
1 AGT
73619581 TCCAATCTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:73626544 original size:13 final size:13
Alignment explanation
Indices: 73626523--73626555 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
73626513 TTAATTAACC
*
73626523 TTTGAGACTTATG
1 TTTGTGACTTATG
73626536 TTTGTGACTTATG
1 TTTGTGACTTATG
73626549 TTTGTGA
1 TTTGTGA
73626556 TTAATTATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.06, G:0.24, T:0.52
Consensus pattern (13 bp):
TTTGTGACTTATG
Found at i:73631438 original size:7 final size:6
Alignment explanation
Indices: 73631426--73631464 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
73631416 GTTTAATGAC
*
73631426 TTTTTA TTTTTTA TTTTTA TTTTTA -TTTTA TCTTTA TTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
73631465 ATCTTCTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 5 0.17
6 18 0.62
7 6 0.21
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:73631442 original size:13 final size:12
Alignment explanation
Indices: 73631426--73631464 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
73631416 GTTTAATGAC
73631426 TTTTTATTTTTTA
1 TTTTTA-TTTTTA
73631439 TTTTTATTTTTA
1 TTTTTATTTTTA
*
73631451 -TTTTATCTTTA
1 TTTTTATTTTTA
73631462 TTT
1 TTT
73631465 ATCTTCTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
11 10 0.42
12 8 0.33
13 6 0.25
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:73632646 original size:13 final size:13
Alignment explanation
Indices: 73632628--73632667 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
73632618 TTGTATGATA
73632628 AAAAAAATAAAAT
1 AAAAAAATAAAAT
73632641 -AAAAAATAAAAAT
1 AAAAAAAT-AAAAT
*
73632654 AAAAAAATACAAT
1 AAAAAAATAAAAT
73632667 A
1 A
73632668 CAATACAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 7 0.29
13 10 0.42
14 7 0.29
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:73632667 original size:5 final size:5
Alignment explanation
Indices: 73632659--73632688 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
73632649 AAAATAAAAA
73632659 AATAC AATAC AATAC AATAC AATAC -ATAC A
1 AATAC AATAC AATAC AATAC AATAC AATAC A
73632689 TATATATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAC
Found at i:73637443 original size:19 final size:19
Alignment explanation
Indices: 73637419--73637456 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
73637409 GTCACCTTCG
73637419 GTTTCTCATGAATTTTTCA
1 GTTTCTCATGAATTTTTCA
*
73637438 GTTTCTGATGAATTTTTCA
1 GTTTCTCATGAATTTTTCA
73637457 AAGTATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.53
Consensus pattern (19 bp):
GTTTCTCATGAATTTTTCA
Found at i:73640442 original size:2 final size:2
Alignment explanation
Indices: 73640435--73640462 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
73640425 CAGAAATCTC
73640435 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
73640463 TCAGAAATAG
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:73641001 original size:17 final size:18
Alignment explanation
Indices: 73640971--73641005 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
73640961 CTATATACCT
73640971 GTGTGGGCCCACACGCCC
1 GTGTGGGCCCACACGCCC
*
73640989 GTGT-GGCCTACACGCCC
1 GTGTGGGCCCACACGCCC
73641006 AGATTGGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.11, C:0.43, G:0.31, T:0.14
Consensus pattern (18 bp):
GTGTGGGCCCACACGCCC
Found at i:73642505 original size:14 final size:14
Alignment explanation
Indices: 73642485--73642540 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
73642475 AATTAAAAAT
73642485 AATTGAGGATTGAG
1 AATTGAGGATTGAG
* * *
73642499 GATTGAGAATTAAG
1 AATTGAGGATTGAG
* *
73642513 AATTGATGATTGAA
1 AATTGAGGATTGAG
*
73642527 AATTGAGTATTGAG
1 AATTGAGGATTGAG
73642541 TATTAAATTG
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (14 bp):
AATTGAGGATTGAG
Found at i:73642509 original size:21 final size:21
Alignment explanation
Indices: 73642485--73642540 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
73642475 AATTAAAAAT
* *
73642485 AATTGAGGATTGAGGATTGAG
1 AATTGAGAATTGAGGATTGAA
* *
73642506 AATTAAGAATTGATGATTGAA
1 AATTGAGAATTGAGGATTGAA
*
73642527 AATTGAGTATTGAG
1 AATTGAGAATTGAG
73642541 TATTAAATTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (21 bp):
AATTGAGAATTGAGGATTGAA
Done.