Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 187 of 343
Found at i:62129457 original size:12 final size:12
Alignment explanation
Indices: 62129437--62129466 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
62129427 CCTAATGGGC
*
62129437 AAATTACTCGGT
1 AAATCACTCGGT
62129449 AAATCACTCGGT
1 AAATCACTCGGT
62129461 AAATCA
1 AAATCA
62129467 TAAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (12 bp):
AAATCACTCGGT
Found at i:62133094 original size:30 final size:30
Alignment explanation
Indices: 62133039--62133095 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
62133029 CTAATTCAAA
62133039 CTTTGGCAAAATTACAATTTTCCCCTAAAT
1 CTTTGGCAAAATTACAATTTTCCCCTAAAT
* *
62133069 CTTT-GCAGAATTATAATTTTGCCCCTA
1 CTTTGGCAAAATTACAATTTT-CCCCTA
62133096 GGCTCGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (30 bp):
CTTTGGCAAAATTACAATTTTCCCCTAAAT
Found at i:62138441 original size:55 final size:53
Alignment explanation
Indices: 62138329--62138513 Score: 219
Period size: 55 Copynumber: 3.4 Consensus size: 53
62138319 AACTTACCAT
* * * *
62138329 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCTTTAT-GAACTCAGCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* *
62138382 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
62138437 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
* *
62138491 TGCCATTCCTTGGCATGGTCTTA
1 TGCCATGCCTTGACATGGTCTTA
62138514 TATGATATCC
Statistics
Matches: 113, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.02
53 34 0.30
54 30 0.27
55 45 0.40
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:62138620 original size:47 final size:47
Alignment explanation
Indices: 62138504--62138622 Score: 166
Period size: 47 Copynumber: 2.5 Consensus size: 47
62138494 CATTCCTTGG
* * * * *
62138504 CATGGTCTTATATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTAACAAATGCCAGGTTCCAAA
* * *
62138551 GATGGTCTTACATGGTATCCTTGTCTTAACAAATTCTAGGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTAACAAATGCCAGGTTCCAAA
62138598 CATGGTCTTACATGGTATCCTTGTC
1 CATGGTCTTACATGGTATCCTTGTC
62138623 CTAATGCCAA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 63 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTAACAAATGCCAGGTTCCAAA
Found at i:62138940 original size:12 final size:12
Alignment explanation
Indices: 62138923--62138947 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62138913 CATAACTCAG
62138923 TAATAACAATAA
1 TAATAACAATAA
62138935 TAATAACAATAA
1 TAATAACAATAA
62138947 T
1 T
62138948 TGCGTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TAATAACAATAA
Found at i:62145944 original size:40 final size:40
Alignment explanation
Indices: 62145898--62146120 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
62145888 CTTGCACAAG
* * *
62145898 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
62145938 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
62145978 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
62146018 GCCTTCGGGTCTTAGCCCGGATATAG-CAACT--CACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
62146056 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
62146097 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
62146121 CATTCGAATA
Statistics
Matches: 157, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
38 30 0.19
39 4 0.03
40 98 0.62
41 25 0.16
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:62146111 original size:79 final size:77
Alignment explanation
Indices: 62145862--62146120 Score: 297
Period size: 80 Copynumber: 3.3 Consensus size: 77
62145852 CTCAAGTAAT
* * * * *
62145862 CTTCGGGATTTAG-CCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCGGATGTGGTC
1 CTTCGGGACTTAGCCCGGATATAGC-AC-TGCACAATGCCTTCGGGTCTTAGCCCGGATATAGTC
*
62145926 ACTAGCATAAATGC
64 ACTAGCACAAATGC
* * *
62145940 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAG-CACT-GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGT
*
62146005 CGCTAGCACAAATGC
63 CACTAGCACAAATGC
* * * *
62146020 CTTCGGGTCTTAGCCCGGATATAGCAACT-CACGAATGCCTTCGGATCTTAGTCCGGTTATAGTC
1 CTTCGGGACTTAGCCCGGATATAGC-ACTGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGTC
*
62146084 ACCTAGCACAAAAGC
64 A-CTAGCACAAATGC
62146099 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
62146121 CATTCGAATA
Statistics
Matches: 154, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
78 42 0.27
79 48 0.31
80 64 0.42
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (77 bp):
CTTCGGGACTTAGCCCGGATATAGCACTGCACAATGCCTTCGGGTCTTAGCCCGGATATAGTCAC
TAGCACAAATGC
Found at i:62149533 original size:40 final size:39
Alignment explanation
Indices: 62149421--62149561 Score: 124
Period size: 39 Copynumber: 3.6 Consensus size: 39
62149411 AAGCCTTCGA
* * *
62149421 GACTTTAAACCCGGATATATTTCCAGCATATAGCCCATG
1 GACTTTAAACCCGGATATAATTCCAGCATATAGCCTAGG
* ** * *
62149460 GACCTTAAGTCCAGAAATAATTCCAGCATATAGCCTACGG
1 GACTTTAAACCCGGATATAATTCCAGCATATAGCCTA-GG
*
62149500 GTA-TTTAAACCCGGATATAATTCCAGCACATAGCCT-GCG
1 G-ACTTTAAACCCGGATATAATTCCAGCATATAGCCTAG-G
* ** *
62149539 GACCTTAAGTCCGAATATAATTC
1 GACTTTAAACCCGGATATAATTC
62149562 TAGATATCAT
Statistics
Matches: 80, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
38 2 0.03
39 48 0.60
40 29 0.36
41 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (39 bp):
GACTTTAAACCCGGATATAATTCCAGCATATAGCCTAGG
Found at i:62153623 original size:23 final size:25
Alignment explanation
Indices: 62153597--62153646 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
62153587 TAAAATTCTA
62153597 AAGTCT-AAGAAAAA-TAAAAAAAT
1 AAGTCTGAAGAAAAATTAAAAAAAT
* * *
62153620 AAGTTTGAATAAAAATTAAAAACAT
1 AAGTCTGAAGAAAAATTAAAAAAAT
62153645 AA
1 AA
62153647 AATAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 5 0.23
24 7 0.32
25 10 0.45
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.22
Consensus pattern (25 bp):
AAGTCTGAAGAAAAATTAAAAAAAT
Found at i:62162256 original size:28 final size:28
Alignment explanation
Indices: 62162189--62162314 Score: 200
Period size: 28 Copynumber: 4.5 Consensus size: 28
62162179 ATATTAAGTC
* *
62162189 CGCACACTCAGTGCTATATAATCAA-CT
1 CGCACACTTAGTGCTACATAATCAAGCT
62162216 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
*
62162244 CGCACACTCAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
* *
62162272 TGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAGCT
62162300 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62162315 GTACAATTTA
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
27 23 0.25
28 68 0.75
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAGCT
Found at i:62162337 original size:29 final size:28
Alignment explanation
Indices: 62162188--62162339 Score: 164
Period size: 28 Copynumber: 5.4 Consensus size: 28
62162178 TATATTAAGT
* *
62162188 CCGCACACTCAGTGCTATATAATC-AAC
1 CCGCACACTTAGTGCTACATAATCAAAC
* *
62162215 TCGCACACTTAGTGCTACATAATCAAGC
1 CCGCACACTTAGTGCTACATAATCAAAC
* * *
62162243 TCGCACACTCAGTGCTACATAATCAAGC
1 CCGCACACTTAGTGCTACATAATCAAAC
**
62162271 TTGCACACTTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAATCAAAC
* * *
62162299 TCGCACACTTAGTGCTGTACA-ATTTAAAC
1 CCGCACACTTAGTGC--TACATAATCAAAC
62162328 CCGCACACTTAG
1 CCGCACACTTAG
62162340 CGCCAATCTC
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.19
28 68 0.62
29 17 0.15
30 4 0.04
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (28 bp):
CCGCACACTTAGTGCTACATAATCAAAC
Found at i:62170558 original size:28 final size:28
Alignment explanation
Indices: 62170493--62170618 Score: 218
Period size: 28 Copynumber: 4.5 Consensus size: 28
62170483 ATATTAAGTC
* *
62170493 CGCACACTCAGTGCTATATAATCAA-CT
1 CGCACACTTAGTGCTACATAATCAAGCT
62170520 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
62170548 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
*
62170576 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAGCT
62170604 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62170619 GTACAATTTA
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 23 0.24
28 72 0.76
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAGCT
Found at i:62189947 original size:12 final size:12
Alignment explanation
Indices: 62189930--62190024 Score: 50
Period size: 12 Copynumber: 7.9 Consensus size: 12
62189920 GCCAACTCAT
*
62189930 GCTCCTTGATCA
1 GCTCCTTAATCA
* *
62189942 GCTCCTAAATCT
1 GCTCCTTAATCA
* *
62189954 TCTCCTTTATCA
1 GCTCCTTAATCA
* *
62189966 GCTCCTAAATCC
1 GCTCCTTAATCA
*
62189978 TCTCCCTT-ATCA
1 GCT-CCTTAATCA
* *
62189990 GCTCCTAAATCC
1 GCTCCTTAATCA
*
62190002 TCTCCCTT-ATCA
1 GCT-CCTTAATCA
*
62190014 GCTCCTAAATC
1 GCTCCTTAATC
62190025 TTCTCTTGAC
Statistics
Matches: 57, Mismatches: 22, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
11 6 0.11
12 45 0.79
13 6 0.11
ACGTcount: A:0.21, C:0.38, G:0.06, T:0.35
Consensus pattern (12 bp):
GCTCCTTAATCA
Found at i:62189959 original size:24 final size:23
Alignment explanation
Indices: 62189931--62190029 Score: 144
Period size: 24 Copynumber: 4.1 Consensus size: 23
62189921 CCAACTCATG
*
62189931 CTCCTTGATCAGCTCCTAAATCTT
1 CTCCTT-ATCAGCTCCTAAATCCT
62189955 CTCCTTTATCAGCTCCTAAATCCT
1 CTCC-TTATCAGCTCCTAAATCCT
62189979 CTCCCTTATCAGCTCCTAAATCCT
1 CT-CCTTATCAGCTCCTAAATCCT
*
62190003 CTCCCTTATCAGCTCCTAAATCTT
1 CT-CCTTATCAGCTCCTAAATCCT
62190027 CTC
1 CTC
62190030 TTGACAGCCT
Statistics
Matches: 71, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
23 1 0.01
24 66 0.93
25 4 0.06
ACGTcount: A:0.20, C:0.38, G:0.05, T:0.36
Consensus pattern (23 bp):
CTCCTTATCAGCTCCTAAATCCT
Found at i:62189994 original size:48 final size:49
Alignment explanation
Indices: 62189933--62190029 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 49
62189923 AACTCATGCT
* *
62189933 CCTTGATCAGCTCCTAAATCTTCTCCTTTATCAGCTCCTAAATCCTCTC
1 CCTTGATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCTAAATCCTCTC
*
62189982 CCTT-ATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCTAAATCTTCTC
1 CCTTGATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCTAAATCCTCTC
62190030 TTGACAGCCT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 41 0.91
49 4 0.09
ACGTcount: A:0.21, C:0.38, G:0.05, T:0.36
Consensus pattern (49 bp):
CCTTGATCAGCTCCTAAATCCTCTCCCTTATCAGCTCCTAAATCCTCTC
Found at i:62195758 original size:43 final size:42
Alignment explanation
Indices: 62195500--62196026 Score: 358
Period size: 43 Copynumber: 12.2 Consensus size: 42
62195490 AACGGAAAAT
* * *
62195500 GCCGCTAAAAGTAGATACCTTTAGCGGCGCTTTA-CCATAAAC
1 GCCGCTAAAAGTACAGACCTTTAGCGGCG-TTTACCCACAAAC
* * * **
62195542 GCCGCTAATAGTATAGACCTTTAGCGGCGCTTAGCAAACAAAC
1 GCCGCTAAAAGTACAGACCTTTAGCGGCGTTTA-CCCACAAAC
* * *
62195585 GCCGCTAAAA-TCACATACCTTTAGCGGCGCTTACCCAAAAAAAC
1 GCCGCTAAAAGT-ACAGACCTTTAGCGGCGTTTACCC--ACAAAC
* * * * * **
62195629 GTCGCTAAAGGTGCAGACCTTTAGCGACGCTTAGCAAACAAAC
1 GCCGCTAAAAGTACAGACCTTTAGCGGCGTTTA-CCCACAAAC
* * *
62195672 GCCGCTAAAA-TCACATACCTTTAGCGGCGCTTACCCAAAAAAC
1 GCCGCTAAAAGT-ACAGACCTTTAGCGGCGTTTACCC-ACAAAC
* * *
62195715 GCCGCTAAAGGTGCAGACCTTTAGCGGCGTTTTATCCACAAAC
1 GCCGCTAAAAGTACAGACCTTTAGCGGCG-TTTACCCACAAAC
* * ** * **** *
62195758 GCCACTAAAGGTGTAGACCTTTAGCGGCGTTTTCGGGGAAAGT
1 GCCGCTAAAAGTACAGACCTTTAGCGGCGTTTACCCACAAA-C
* * *****
62195801 GCCGCTAAAAGTGCGGACCTTTAGCGGCGTTTGTTTGCAAAGC
1 GCCGCTAAAAGTACAGACCTTTAGCGGCGTTTACCCACAAA-C
* * *
62195844 GCCGCTAAAAGTACAGACCTTTAGCGGAGCTTTAGCCCAAAAAA
1 GCCGCTAAAAGTACAGACCTTTAGCGGCG-TTTA-CCCACAAAC
* ** * * *
62195888 ACCGCTAAATTTACAGACCTATAGCGGCGCTTACACCAAAAAC
1 GCCGCTAAAAGTACAGACCTTTAGCGGCGTTTAC-CCACAAAC
* * * *
62195931 GCCGCCAAAAGTACAGACCTTTTAGCGGTGCTTTATCCACAAAT
1 GCCGCTAAAAGTACAGACC-TTTAGCGGCG-TTTACCCACAAAC
* * * *
62195975 GCCGCCAAAAGTAGAGTCCTTTAGCGGCGCTTTCCCCACAAAC
1 GCCGCTAAAAGTACAGACCTTTAGCGGCG-TTTACCCACAAAC
62196018 GCCGCTAAA
1 GCCGCTAAA
62196027 TTTACAGATT
Statistics
Matches: 380, Mismatches: 88, Indels: 33
0.76 0.18 0.07
Matches are distributed among these distances:
41 3 0.01
42 37 0.10
43 237 0.62
44 95 0.25
45 8 0.02
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (42 bp):
GCCGCTAAAAGTACAGACCTTTAGCGGCGTTTACCCACAAAC
Found at i:62195903 original size:44 final size:44
Alignment explanation
Indices: 62195845--62196007 Score: 143
Period size: 44 Copynumber: 3.7 Consensus size: 44
62195835 TTGCAAAGCG
62195845 CCGCTAAAAGTACAGACCTTTAGCGGAGCTTTAGC-CCAAAAAAA
1 CCGCTAAAAGTACAGACCTTTAGCGGAGCTTTA-CACCAAAAAAA
** * * **
62195889 CCGCTAAATTTACAGACCTATAGCGGCGC-TTACACCAAAAACG
1 CCGCTAAAAGTACAGACCTTTAGCGGAGCTTTACACCAAAAAAA
* * * * **
62195932 CCGCCAAAAGTACAGACCTTTTAGCGGTGCTTTA-TCCACAAATG
1 CCGCTAAAAGTACAGACC-TTTAGCGGAGCTTTACACCAAAAAAA
* * * *
62195976 CCGCCAAAAGTAGAGTCCTTTAGCGGCGCTTT
1 CCGCTAAAAGTACAGACCTTTAGCGGAGCTTT
62196008 CCCCACAAAC
Statistics
Matches: 99, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 1 0.01
43 38 0.38
44 57 0.58
45 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (44 bp):
CCGCTAAAAGTACAGACCTTTAGCGGAGCTTTACACCAAAAAAA
Found at i:62195934 original size:87 final size:85
Alignment explanation
Indices: 62195495--62196026 Score: 377
Period size: 87 Copynumber: 6.2 Consensus size: 85
62195485 GTTTGAACGG
* * * * * **
62195495 AAAATGCCGCTAAAAGTAGATACCTTTAGCGGCGCTTTA-CCATAAACGCCGCTAATA-GTATAG
1 AAAACGCCGCTAAAAGTACAGACCTTTAGCGGCGCTTTACCCAAAAAAGCCGCTAA-AGGTGCAG
62195558 ACCTTTAGCGGCGCTTAGCA-A
65 ACCTTTAGCGGCGCTTA-CACA
* *
62195579 ACAAACGCCGCTAAAA-TCACATACCTTTAGCGGCGC-TTACCCAAAAAAACGTCGCTAAAGGTG
1 A-AAACGCCGCTAAAAGT-ACAGACCTTTAGCGGCGCTTTACCC-AAAAAA-GCCGCTAAAGGTG
*
62195642 CAGACCTTTAGCGACGCTTAGCA-A
62 CAGACCTTTAGCGGCGCTTA-CACA
*
62195666 ACAAACGCCGCTAAAA-TCACATACCTTTAGCGGCGC-TTACCCAAAAAACGCCGCTAAAGGTGC
1 A-AAACGCCGCTAAAAGT-ACAGACCTTTAGCGGCGCTTTACCCAAAAAA-GCCGCTAAAGGTGC
*
62195729 AGACCTTTAGCGGCGTTTTATC-CA
63 AGACCTTTAGCGGCG-CTTA-CACA
* * * ** * *** ** * *
62195753 CAAACGCCACTAAAGGTGTAGACCTTTAGCGGCG-TTTTCGGGGAAAGTGCCGCTAAAAGTGCGG
1 AAAACGCCGCTAAAAGTACAGACCTTTAGCGGCGCTTTAC-CCAAAAAAGCCGCTAAAGGTGCAG
* ***
62195817 ACCTTTAGCGGCGTTTGTTTGC-
65 ACCTTTAGCGGCG-CT-TACACA
* * * ** *
62195839 AAAGCGCCGCTAAAAGTACAGACCTTTAGCGGAGCTTTAGCCCAAAAAAACCGCTAAATTTACAG
1 AAAACGCCGCTAAAAGTACAGACCTTTAGCGGCGCTTTA-CCCAAAAAAGCCGCTAAAGGTGCAG
*
62195904 ACCTATAGCGGCGCTTACACCA
65 ACCTTTAGCGGCGCTTACA-CA
* * * * * * *
62195926 AAAACGCCGCCAAAAGTACAGACCTTTTAGCGGTGCTTTATCCACAAATGCCGCCAAAAGTAG-A
1 AAAACGCCGCTAAAAGTACAGACC-TTTAGCGGCGCTTTACCCAAAAAAGCCGCTAAAGGT-GCA
* * *
62195990 GTCCTTTAGCGGCGCTTTCCCCA
64 GACCTTTAGCGGCGC-TTACACA
*
62196013 CAAACGCCGCTAAA
1 AAAACGCCGCTAAA
62196027 TTTACAGATT
Statistics
Matches: 360, Mismatches: 68, Indels: 37
0.77 0.15 0.08
Matches are distributed among these distances:
84 5 0.01
85 33 0.09
86 127 0.35
87 177 0.49
88 18 0.05
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (85 bp):
AAAACGCCGCTAAAAGTACAGACCTTTAGCGGCGCTTTACCCAAAAAAGCCGCTAAAGGTGCAGA
CCTTTAGCGGCGCTTACACA
Found at i:62196371 original size:21 final size:21
Alignment explanation
Indices: 62196319--62196371 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
62196309 CTGCTCTGCT
*
62196319 CTGCCTCTCC-CGCTGCTGTCG
1 CTGCCT-TCCTCGCTGCTGCCG
* *
62196340 CTGCGTCCCTCGCTGCTGCCG
1 CTGCCTTCCTCGCTGCTGCCG
62196361 CTGCCTTCCTC
1 CTGCCTTCCTC
62196372 TCAGCTGCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.00, C:0.49, G:0.23, T:0.28
Consensus pattern (21 bp):
CTGCCTTCCTCGCTGCTGCCG
Found at i:62210218 original size:22 final size:21
Alignment explanation
Indices: 62210167--62210226 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
62210157 AATCAGACCC
*
62210167 TAAACCCTAAACTCTAAACCA
1 TAAACCCTAAACTCTAAAACA
*
62210188 TAAACCCCTAACCT-TATAAACA
1 TAAA-CCCTAAACTCTA-AAACA
*
62210210 TTAAACCCTAAATTCTA
1 -TAAACCCTAAACTCTA
62210227 GATACTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 6 0.19
22 19 0.61
23 6 0.19
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAACTCTAAAACA
Found at i:62210596 original size:14 final size:14
Alignment explanation
Indices: 62210579--62210622 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
62210569 TTAACTTATC
*
62210579 CCCTATCCCTTAAA
1 CCCTAACCCTTAAA
*
62210593 CCCTAACCCCT-AA
1 CCCTAACCCTTAAA
62210606 CCACTAACCCTTAAA
1 CC-CTAACCCTTAAA
62210621 CC
1 CC
62210623 TTAATACCGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 4 0.16
14 17 0.68
15 4 0.16
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.20
Consensus pattern (14 bp):
CCCTAACCCTTAAA
Found at i:62211462 original size:35 final size:35
Alignment explanation
Indices: 62211397--62211478 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 35
62211387 CAAAATAACA
** *
62211397 AAACCCTAAACCATAAAATTAACATTTTAAATCTT
1 AAACCCTAAACCATAAAATTAACACCTTAAATATT
**
62211432 AAACCCTAAACCATAGACCTTAA-ACCTTAAATATT
1 AAACCCTAAACCATA-AAATTAACACCTTAAATATT
*
62211467 AAACCGTAAACC
1 AAACCCTAAACC
62211479 CAAAAAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
35 35 0.88
36 5 0.12
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (35 bp):
AAACCCTAAACCATAAAATTAACACCTTAAATATT
Found at i:62211611 original size:41 final size:41
Alignment explanation
Indices: 62211532--62211977 Score: 484
Period size: 41 Copynumber: 10.9 Consensus size: 41
62211522 AATTCAAAAA
* * * * *
62211532 AGACGTTTAGCGGCGTTTCTCCAAAAACGCCACTAATGCTC
1 AGACTTTTGGCGGCGTTTTTCGAAAAACGCCGCTAATGCTC
** * *
62211573 AGACTTTTTACGGTGTTTTTGGAAAAACGCCGCTAATGCTC
1 AGACTTTTGGCGGCGTTTTTCGAAAAACGCCGCTAATGCTC
* * * *
62211614 AGACTTTTGGCGACGTTTTCCCAAAAACGCCGCTAATACTC
1 AGACTTTTGGCGGCGTTTTTCGAAAAACGCCGCTAATGCTC
* * * *
62211655 AGACTTTTGGCGACGTTTTCCCAAAAACGCCGCTAATACTC
1 AGACTTTTGGCGGCGTTTTTCGAAAAACGCCGCTAATGCTC
** *
62211696 AGACTTTTGGCGGCGTTTTTATAAAAACGTCGCTAATGCTC
1 AGACTTTTGGCGGCGTTTTTCGAAAAACGCCGCTAATGCTC
* * * * *
62211737 AGACCTTTGGTGGCGTTTTGGT-AAAAAATGCCGCTAACGCTC
1 AGACTTTTGGCGGCGTTTT--TCGAAAAACGCCGCTAATGCTC
* *
62211779 AGACCTTTGGCGGCGTTTTTCTAAAAACGCCGCTAATGCTC
1 AGACTTTTGGCGGCGTTTTTCGAAAAACGCCGCTAATGCTC
* * *
62211820 AGACTTTTGGCGGCGTTTTTCTAAAAATGCCACTAATGCTC
1 AGACTTTTGGCGGCGTTTTTCGAAAAACGCCGCTAATGCTC
* * *
62211861 AGACTTTTGGCGGCGTTTTTGGAAAAACGCCGCGAATTCTC
1 AGACTTTTGGCGGCGTTTTTCGAAAAACGCCGCTAATGCTC
** *
62211902 AGACTTTTTACGGCGTTTCTT-GAAAAACGCCGCTAATTCTC
1 AGACTTTTGGCGGCGTTT-TTCGAAAAACGCCGCTAATGCTC
* * *
62211943 GGACTTTTGGCGGCATTTTTCTG-AAAATGCCGCTA
1 AGACTTTTGGCGGCGTTTTTC-GAAAAACGCCGCTA
62211978 TTTCTCGACT
Statistics
Matches: 350, Mismatches: 49, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
40 3 0.01
41 309 0.88
42 37 0.11
43 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (41 bp):
AGACTTTTGGCGGCGTTTTTCGAAAAACGCCGCTAATGCTC
Found at i:62211812 original size:165 final size:164
Alignment explanation
Indices: 62211554--62211977 Score: 501
Period size: 165 Copynumber: 2.6 Consensus size: 164
62211544 GCGTTTCTCC
* * * * * *
62211554 AAAAACGCCACTAATGCTCAGACTTTTTACGGTGTTT-TTGGAAAAACGCCGCTAATGCTCAGAC
1 AAAAACGCCGCGAATGCTCAGACCTTTGACGGCGTTTCTT-AAAAAACGCCGCTAATGCTCAGAC
* * *
62211618 TTTTGGCGACGTTTTCCCAAAAACGCCGCTAATACTCAGACTTTTGGCGACGTTTTCCCAAAAAC
65 TTTTGGCGGCGTTTTTCTAAAAACGCCGCTAATACTCAGACTTTTGGCGACGTTTTCCCAAAAAC
* *
62211683 GCCGCTAATACTCAGACTTTTGGCGGCGTTTTTAT
130 GCCACTAATACTCAGACTTTTGGCGGCGTTTTTAG
* * ** * *
62211718 AAAAACGTCGCTAATGCTCAGACCTTTGGTGGCGTTT-TGGTAAAAAATGCCGCTAACGCTCAGA
1 AAAAACGCCGCGAATGCTCAGACCTTTGACGGCGTTTCT--TAAAAAACGCCGCTAATGCTCAGA
* * * * *
62211782 CCTTTGGCGGCGTTTTTCTAAAAACGCCGCTAATGCTCAGACTTTTGGCGGCGTTTTTCTAAAAA
64 CTTTTGGCGGCGTTTTTCTAAAAACGCCGCTAATACTCAGACTTTTGGCGACGTTTTCCCAAAAA
* * *
62211847 TGCCACTAATGCTCAGACTTTTGGCGGCGTTTTTGG
129 CGCCACTAATACTCAGACTTTTGGCGGCGTTTTTAG
* * * * * *
62211883 AAAAACGCCGCGAATTCTCAGACTTTTTACGGCGTTTCTTGAAAAACGCCGCTAATTCTCGGACT
1 AAAAACGCCGCGAATGCTCAGACCTTTGACGGCGTTTCTTAAAAAACGCCGCTAATGCTCAGACT
* * *
62211948 TTTGGCGGCATTTTTCTGAAAATGCCGCTA
66 TTTGGCGGCGTTTTTCTAAAAACGCCGCTA
62211978 TTTCTCGACT
Statistics
Matches: 218, Mismatches: 39, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
164 78 0.36
165 138 0.63
166 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (164 bp):
AAAAACGCCGCGAATGCTCAGACCTTTGACGGCGTTTCTTAAAAAACGCCGCTAATGCTCAGACT
TTTGGCGGCGTTTTTCTAAAAACGCCGCTAATACTCAGACTTTTGGCGACGTTTTCCCAAAAACG
CCACTAATACTCAGACTTTTGGCGGCGTTTTTAG
Found at i:62211930 original size:206 final size:206
Alignment explanation
Indices: 62211554--62211961 Score: 530
Period size: 206 Copynumber: 2.0 Consensus size: 206
62211544 GCGTTTCTCC
* * * * *
62211554 AAAAACGCCACTAATGCTCAGACTTTTTACGGTGTTTTTGGAAAAACGCCGCTAATGCTCAGACT
1 AAAAACGCCACTAACGCTCAGACCTTTGACGGCGTTTTTCGAAAAACGCCGCTAATGCTCAGACT
*
62211619 TTTGGCGACGTTTTCCCAAAAACGCCGCTAATACTCAGACTTTTGGCGACGTTTTCCCAAAAACG
66 TTTGGCGACGTTTTCCCAAAAACGCCACTAATACTCAGACTTTTGGCGACGTTTTCCCAAAAACG
* * * * *
62211684 CCGCTAATACTCAGACTTTTGGCGGCGTTTTTATAAAAACGTCGCTAATGCTCAGACCTTTGGTG
131 CCGCGAATACTCAGACTTTTGACGGCGTTTTTAGAAAAACGCCGCTAATGCTCAGACCTTTGGCG
*
62211749 GCGTTTTGGTA
196 GCATTTTGGTA
* * * *
62211760 AAAAATGCCGCTAACGCTCAGACCTTTGGCGGCGTTTTTCTAAAAACGCCGCTAATGCTCAGACT
1 AAAAACGCCACTAACGCTCAGACCTTTGACGGCGTTTTTCGAAAAACGCCGCTAATGCTCAGACT
* * * * * * ***
62211825 TTTGGCGGCGTTTTTCTAAAAATGCCACTAATGCTCAGACTTTTGGCGGCGTTTTTGGAAAAACG
66 TTTGGCGACGTTTTCCCAAAAACGCCACTAATACTCAGACTTTTGGCGACGTTTTCCCAAAAACG
* * * * *
62211890 CCGCGAATTCTCAGACTTTTTACGGCGTTTCTT-GAAAAACGCCGCTAATTCTCGGACTTTTGGC
131 CCGCGAATACTCAGACTTTTGACGGCGTTT-TTAGAAAAACGCCGCTAATGCTCAGACCTTTGGC
62211954 GGCATTTT
195 GGCATTTT
62211962 TCTGAAAATG
Statistics
Matches: 171, Mismatches: 30, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
206 169 0.99
207 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (206 bp):
AAAAACGCCACTAACGCTCAGACCTTTGACGGCGTTTTTCGAAAAACGCCGCTAATGCTCAGACT
TTTGGCGACGTTTTCCCAAAAACGCCACTAATACTCAGACTTTTGGCGACGTTTTCCCAAAAACG
CCGCGAATACTCAGACTTTTGACGGCGTTTTTAGAAAAACGCCGCTAATGCTCAGACCTTTGGCG
GCATTTTGGTA
Found at i:62211999 original size:40 final size:41
Alignment explanation
Indices: 62211788--62212019 Score: 139
Period size: 41 Copynumber: 5.7 Consensus size: 41
62211778 CAGACCTTTG
* * * * * *
62211788 GCGGCGTTTTTCTAAAAACGCCGCTAATGCTCAGACTTTTG
1 GCGGCATTTTTCTGAAAACGCCGCTAATTCTCGGACTTATA
* * * * * * * *
62211829 GCGGCGTTTTTCTAAAAATGCCACTAATGCTCAGACTTTTG
1 GCGGCATTTTTCTGAAAACGCCGCTAATTCTCGGACTTATA
* * * * *
62211870 GCGGCGTTTTT-GGAAAAACGCCGCGAATTCTCAGACTTTTTA
1 GCGGCATTTTTCTG-AAAACGCCGCTAATTCTCGGAC-TTATA
* * * *
62211912 -CGGCGTTTCT-TGAAAAACGCCGCTAATTCTCGGACTTTTG
1 GCGGCATTTTTCTG-AAAACGCCGCTAATTCTCGGACTTATA
* *
62211952 GCGGCATTTTTCTGAAAATGCCGCTATTTCTC-GACTTATA
1 GCGGCATTTTTCTGAAAACGCCGCTAATTCTCGGACTTATA
* ** **
62211992 GTGGCATTTTGGTTCAAACGCCGCTAAT
1 GCGGCATTTTTCTGAAAACGCCGCTAAT
62212020 GTATAATATT
Statistics
Matches: 160, Mismatches: 27, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
40 31 0.19
41 123 0.77
42 6 0.04
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (41 bp):
GCGGCATTTTTCTGAAAACGCCGCTAATTCTCGGACTTATA
Found at i:62216096 original size:49 final size:48
Alignment explanation
Indices: 62216024--62216199 Score: 201
Period size: 51 Copynumber: 3.5 Consensus size: 48
62216014 CTGATACGCA
*
62216024 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAAT-TGGTACACG
* * * * *
62216073 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-ATTGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA--CAATTG-GTACACG
* * *
62216124 TAGTAGCCTGCACTTAGTACTACACATGCAACTTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAAT-TGGTACACG
62216174 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
62216200 CGTGTACTCA
Statistics
Matches: 107, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
49 30 0.28
50 37 0.35
51 39 0.36
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATTGGTACACG
Found at i:62216234 original size:101 final size:98
Alignment explanation
Indices: 62216018--62216203 Score: 291
Period size: 101 Copynumber: 1.9 Consensus size: 98
62216008 AGCTATCTGA
* *
62216018 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAGCCTG
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAACAATACGGTACACGTAGTAGCCTG
*
62216083 CACTTAGTACTACACACGTGATCGAAGTCATTGAG
66 CACTTAGTACTACACACGTGATC-AAG-CAATGAG
* * *
62216118 TACGCATAGTAGCCTGCACTTAGTACTACACATGCAACTTAACAGTATGGTACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCAAC-CAACAATACGGTACACGTAGTAGCCT
62216183 GCACTTAGTACTACACACGTG
65 GCACTTAGTACTACACACGTG
62216204 TACTCACAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
100 37 0.46
101 43 0.54
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (98 bp):
TACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAACAATACGGTACACGTAGTAGCCTG
CACTTAGTACTACACACGTGATCAAGCAATGAG
Found at i:62219551 original size:101 final size:98
Alignment explanation
Indices: 62219335--62219520 Score: 264
Period size: 101 Copynumber: 1.9 Consensus size: 98
62219325 AGCTATCTGA
* *
62219335 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACATAGTAGCCTG
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAACAATACGGTACACATAGTAGCCTG
*
62219400 CACTTAGTACTACACACGTGATCGAAGTCATTGAG
66 CACTTAGTACTACACACGTGATC-AAG-CAATGAG
* * * * * *
62219435 TACGCATAGTAGCCTGCACTTAGTACTACGCATGCAACTTAATAGTATGGTACACGTAGTAGCCT
1 TACGCATAGTAGCCTGCACTTAGTACTACACATGCAAC-CAACAATACGGTACACATAGTAGCCT
62219500 GCACTTAGTACTACACACGTG
65 GCACTTAGTACTACACACGTG
62219521 TACTCACAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
100 36 0.47
101 41 0.53
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (98 bp):
TACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAACAATACGGTACACATAGTAGCCTG
CACTTAGTACTACACACGTGATCAAGCAATGAG
Found at i:62225527 original size:56 final size:56
Alignment explanation
Indices: 62225438--62225762 Score: 375
Period size: 56 Copynumber: 5.8 Consensus size: 56
62225428 ACATTTTTTA
* * *
62225438 GTTGGCATCGATATGTGATTCCGAAATATGTGTACGAGTAAGACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTCTGATATGTGTGTACGAGTAAGACCACGTTTAATAC
* * * * *
62225494 GTTGGCATTGATATGTGATTCTGATATGCGTGTACAAGTAAGATCACGTTTAATGC
1 GTTGGCATCGATATGTGATTCTGATATGTGTGTACGAGTAAGACCACGTTTAATAC
* ** * * * * *
62225550 ATTGGCATTTATATGAGATT-TCGAAATATGTTTGCGAGTAAGACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTCT-GATATGTGTGTACGAGTAAGACCACGTTTAATAC
* * * **
62225606 GTTGGCATCGATATGTGATT-TCAATATGTGTATGCTTGTAAGACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTCT-GATATGTGTGTACGAGTAAGACCACGTTTAATAC
* * **
62225662 ATTGGCATCGATATGTGATTCTGATATGTATGTGTGAGTAAGACCACGTTTAATAC
1 GTTGGCATCGATATGTGATTCTGATATGTGTGTACGAGTAAGACCACGTTTAATAC
* *
62225718 GTTGGCATTGATATGTGATTCTGATATGTGTTTACGAGTAAGACC
1 GTTGGCATCGATATGTGATTCTGATATGTGTGTACGAGTAAGACC
62225763 CTATCTGGGA
Statistics
Matches: 225, Mismatches: 42, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
55 1 0.00
56 223 0.99
57 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.35
Consensus pattern (56 bp):
GTTGGCATCGATATGTGATTCTGATATGTGTGTACGAGTAAGACCACGTTTAATAC
Found at i:62225725 original size:168 final size:167
Alignment explanation
Indices: 62225438--62225762 Score: 438
Period size: 168 Copynumber: 1.9 Consensus size: 167
62225428 ACATTTTTTA
* *
62225438 GTTGGCATCGATATGTGATTCCGAAATATGTGTACGAGTAAGACCACGTTTAATACGTTGGCATT
1 GTTGGCATCGATATGTGATTCC-AAATATGTGTACGAGTAAGACCACGTTTAATACATTGGCATC
* * * *
62225503 GATATGTGATTCTGATATGCGTGTACAAGTAAGATCACGTTTAATGCATTGGCATTTATATGAGA
65 GATATGTGATTCTGATATGCATGTACAAGTAAGACCACGTTTAATACATTGGCATTGATATGAGA
*
62225568 TT-TCGAAATATGTTTGCGAGTAAGACCACGTTTAATAC
130 TTCT-GAAATATGTTTACGAGTAAGACCACGTTTAATAC
* **
62225606 GTTGGCATCGATATGTGATTTC-AATATGTGTATGCTTGTAAGACCACGTTTAATACATTGGCAT
1 GTTGGCATCGATATGTGATTCCAAATATGTGTA--CGAGTAAGACCACGTTTAATACATTGGCAT
* *** * *
62225670 CGATATGTGATTCTGATATGTATGTGTGAGTAAGACCACGTTTAATACGTTGGCATTGATATGTG
64 CGATATGTGATTCTGATATGCATGTACAAGTAAGACCACGTTTAATACATTGGCATTGATATGAG
* *
62225735 ATTCTGATATGTGTTTACGAGTAAGACC
129 ATTCTGAAATATGTTTACGAGTAAGACC
62225763 CTATCTGGGA
Statistics
Matches: 136, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
166 10 0.07
168 125 0.92
169 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.35
Consensus pattern (167 bp):
GTTGGCATCGATATGTGATTCCAAATATGTGTACGAGTAAGACCACGTTTAATACATTGGCATCG
ATATGTGATTCTGATATGCATGTACAAGTAAGACCACGTTTAATACATTGGCATTGATATGAGAT
TCTGAAATATGTTTACGAGTAAGACCACGTTTAATAC
Found at i:62229853 original size:22 final size:22
Alignment explanation
Indices: 62229825--62229872 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
62229815 TGTATAATGA
*
62229825 TCTGAAACAACATTATTTCTGG
1 TCTGAAACAACATTATTGCTGG
*
62229847 TCTGAAACAACATTATTGGTGG
1 TCTGAAACAACATTATTGCTGG
62229869 TCTG
1 TCTG
62229873 GGATAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (22 bp):
TCTGAAACAACATTATTGCTGG
Found at i:62231580 original size:56 final size:56
Alignment explanation
Indices: 62231492--62231759 Score: 340
Period size: 56 Copynumber: 4.8 Consensus size: 56
62231482 ACATTTTTGA
* * * *
62231492 GTTGGCATCAATATGTGATTCCGAAATATGTGTGCGAGTAAGACCATGTTTAATAC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
** * *
62231548 GTTGGCATCGATATGTGATTTTGATATGTGTGTGCGAGTAAGACAACGTTTAATGC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * * * ** *
62231604 GTTGGCATCGATATGTGATTCCGATATTTATATGCGAGGAAGACCACACTTAATAT
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* * *
62231660 GTTGGCATCGATATGTGATTCTGATATGTGTGTGTGAGTAAGACCACGTTTAATTC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
* *
62231716 GTTGGCATCGATATGTGATTCCAATATGTGTTTAG-GAGTAAGAC
1 GTTGGCATCGATATGTGATTCCGATATGTGTGT-GCGAGTAAGAC
62231760 ACTCTCTAGG
Statistics
Matches: 179, Mismatches: 32, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
56 178 0.99
57 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.34
Consensus pattern (56 bp):
GTTGGCATCGATATGTGATTCCGATATGTGTGTGCGAGTAAGACCACGTTTAATAC
Found at i:62238637 original size:42 final size:41
Alignment explanation
Indices: 62238516--62238637 Score: 118
Period size: 43 Copynumber: 2.9 Consensus size: 41
62238506 TACCATACCA
*** * *
62238516 ATGCCATATCCCAGATATGGTCTTACATGGGATTTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACA-CAAATCTCATATCG
* * *
62238558 ATGCCAATAGCCCAGCTATGGTCTTATACAAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACAAA-TCTCATATCG
* *
62238601 ATGTCATATCCCAGATATTGTCTTACACATAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACA-AATCTCA
62238638 ACTAACCCTA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 31 0.48
43 33 0.52
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACAAATCTCATATCG
Found at i:62244789 original size:49 final size:47
Alignment explanation
Indices: 62244675--62244844 Score: 250
Period size: 47 Copynumber: 3.6 Consensus size: 47
62244665 TATTTGAATA
62244675 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
62244724 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
62244771 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
62244818 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
62244845 TCCCGAAGGG
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 99 0.89
49 12 0.11
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:62246241 original size:43 final size:43
Alignment explanation
Indices: 62246193--62246295 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
62246183 TTGGTTTTCA
62246193 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
62246236 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
62246279 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
62246296 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:62246312 original size:29 final size:29
Alignment explanation
Indices: 62246277--62246350 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
62246267 GTTGTGAGAT
* *
62246277 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
62246306 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
62246335 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
62246351 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:62246782 original size:40 final size:40
Alignment explanation
Indices: 62246738--62246935 Score: 229
Period size: 40 Copynumber: 5.0 Consensus size: 40
62246728 GAGTTACTAA
*
62246738 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
62246778 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
62246818 ATCC-GGCTAAGT-TCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* ** * * * *
62246856 ATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * * * *
62246896 GTCTGGGCTAGGTCTCGAAGAGCAATCATGCTGGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
62246936 GTATTCGGGC
Statistics
Matches: 135, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
38 27 0.20
39 13 0.10
40 95 0.70
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:62246860 original size:78 final size:80
Alignment explanation
Indices: 62246738--62246927 Score: 222
Period size: 78 Copynumber: 2.4 Consensus size: 80
62246728 GAGTTACTAA
* **
62246738 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTATCCGGGCTAAGTCCCGAAGAGCAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATATATCCGGGCTAAACCCCGAAGAGCAT
62246803 TCATGCTAGTGATGT
66 TCATGCTAGTGATGT
* * * *
62246818 ATCC-GGCTAAGT-TCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATATATCCGGGCTAAACCCCGAAGAGCAT
* * * *
62246881 TCGTGCTGGTGTTAT
66 TCATGCTAGTGATGT
* * * * *
62246896 GTCTGGGCTAGGTCTCGAAGAGCAATCATGCT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
62246928 GGTGATGTGT
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 57 0.62
79 15 0.16
80 20 0.22
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATATATCCGGGCTAAACCCCGAAGAGCAT
TCATGCTAGTGATGT
Found at i:62246874 original size:118 final size:120
Alignment explanation
Indices: 62246659--62246935 Score: 285
Period size: 118 Copynumber: 2.3 Consensus size: 120
62246649 TCGAATGATG
** **
62246659 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTATCCGGACTAAGATCCGAAGGCAT
* * ** *
62246722 TGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
64 TCGTGCGAGTGACTAAATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGCGATATA
*
62246779 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGG-CTAAG-TTCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGACTAAGATCCGAAG-GCATT
* * * * * * * *
62246842 CGTGCTAGTGA-TATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
65 CGTGCGAGTGACTAAATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGCGATATA
* * * * *
62246897 TCTGGGCTAGGTCTCGAAGAGCAATCATGCTGGTGATGT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
62246936 GTATTCGGGC
Statistics
Matches: 131, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
118 74 0.56
119 18 0.14
120 26 0.20
121 7 0.05
122 6 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTGACTAAATCCGGGCTAAACCCCGAAGAGCATTCATGCTAGCGATATA
Found at i:62249981 original size:49 final size:47
Alignment explanation
Indices: 62249867--62250036 Score: 250
Period size: 47 Copynumber: 3.6 Consensus size: 47
62249857 TATTTGAATA
62249867 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
62249916 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
62249963 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
62250010 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
62250037 TCCCGAAAGG
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 99 0.89
49 12 0.11
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:62256841 original size:28 final size:28
Alignment explanation
Indices: 62256809--62256892 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
62256799 TCGGTATTTG
* *
62256809 GCCCATTAAGCCCAATCATATTCATATA
1 GCCCATTAGGCCCAATCACATTCATATA
* * *
62256837 GCCCATTAGGCCCAAACCACATTTATATG
1 GCCCATTAGGCCC-AATCACATTCATATA
* *
62256866 GCCCTTTAGGCCCAGTCACATTCATAT
1 GCCCATTAGGCCCAATCACATTCATAT
62256893 TCATGCTCAC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
28 23 0.50
29 23 0.50
ACGTcount: A:0.30, C:0.31, G:0.12, T:0.27
Consensus pattern (28 bp):
GCCCATTAGGCCCAATCACATTCATATA
Found at i:62268507 original size:44 final size:42
Alignment explanation
Indices: 62268366--62268525 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
62268356 AGCTAGTACA
* * * * * * *
62268366 ATGCCAATGTCCAAGACGTGGTCTTAAATGTAATCAAATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATTAAATA-CG
* * *
62268409 ATGCCACTATCCCAGACAAGGTCTTACACGAAATTAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATTAAATACG
* *
62268451 ATGCCGATGTCCCAGGCATGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAAT-T-AAATACG
**
62268495 ATGCCAATGTCCCAGATGTGGTCTTACACGA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA
62268526 TAACACTTAT
Statistics
Matches: 95, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 26 0.27
43 36 0.38
44 29 0.31
45 4 0.04
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATTAAATACG
Found at i:62275887 original size:43 final size:43
Alignment explanation
Indices: 62275805--62275964 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
62275795 ACCTAGTACA
* * * * *
62275805 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATTAAATATCG
*
62275848 ATGCC-ACTGTCCCAGACAAGGTCTTACACGAAATTAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATTAAATATCG
*** * * *
62275890 ATGTTGATGTCCCAGACATGGTTTTACACGTAAATCTCAA-ATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAAT-TAAATATCG
*
62275934 ATGCCAACGTCCCAGACGTGGTCTTACACGA
1 ATGCCAACGTCCCAGACATGGTCTTACACGA
62275965 TAACACATAT
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 26 0.28
43 39 0.41
44 29 0.31
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATTAAATATCG
Found at i:62281678 original size:46 final size:46
Alignment explanation
Indices: 62281528--62281701 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
62281518 TGTAACCCGC
* * *
62281528 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
* * *
62281573 CCATGAGTGAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACAT
* *
62281622 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
*
62281665 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
62281702 TGCTCAACAT
Statistics
Matches: 108, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 22 0.20
45 14 0.13
46 35 0.32
47 24 0.22
48 2 0.02
49 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTACAT
Found at i:62284108 original size:15 final size:15
Alignment explanation
Indices: 62284079--62284128 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
62284069 CAAAGATAAC
*
62284079 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
62284093 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
62284108 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
62284123 AAGAAA
1 AAGAAA
62284129 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:62284137 original size:15 final size:15
Alignment explanation
Indices: 62284090--62284137 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
62284080 AGAAAACCGA
62284090 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
62284104 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
62284120 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
62284135 ATA
1 ATA
62284138 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:62287111 original size:46 final size:46
Alignment explanation
Indices: 62287036--62287164 Score: 177
Period size: 46 Copynumber: 2.8 Consensus size: 46
62287026 TGTAACCCGC
* * * * *
62287036 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * * *
62287082 CCATGAGTGAACTCGAACGCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
62287128 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62287165 TGCTCAACCA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:62289300 original size:19 final size:19
Alignment explanation
Indices: 62289276--62289313 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
62289266 AAAAAAAAGG
62289276 TAAAATAATAATAAGTTAA
1 TAAAATAATAATAAGTTAA
62289295 TAAAATAATAATAAGTTAA
1 TAAAATAATAATAAGTTAA
62289314 CGTATGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
TAAAATAATAATAAGTTAA
Found at i:62298685 original size:31 final size:31
Alignment explanation
Indices: 62298618--62298725 Score: 132
Period size: 31 Copynumber: 3.5 Consensus size: 31
62298608 CTCGACATAT
* * *
62298618 ACTGGGCCGAAGCC-TTTCGTTTAA-C-AATT
1 ACTGGGCCGAAGCCTTTTC-ATAAATCAAATC
62298647 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
*
62298678 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
* *
62298709 ATTGGGCCAAAGCCTTT
1 ACTGGGCCGAAGCCTTT
62298726 ATTATAAACG
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
29 17 0.24
30 5 0.07
31 48 0.69
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCAAATC
Found at i:62298809 original size:42 final size:42
Alignment explanation
Indices: 62298749--62298840 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
62298739 TGGCCCATAG
*
62298749 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
*
62298791 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
62298833 GCCCATTT
1 GCCCATTT
62298841 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:62299022 original size:25 final size:25
Alignment explanation
Indices: 62298988--62299082 Score: 120
Period size: 25 Copynumber: 3.8 Consensus size: 25
62298978 CTCTTTTAAT
* *
62298988 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
62299013 AACTAGGGCAAAGCCCTTTTCGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
* * * *
62299038 AATTGGGGAAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATA
62299063 AACTAGGGCATAA-CCCTTTT
1 AACTAGGGCA-AAGCCCTTTT
62299083 AGCACTTCCT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
25 58 0.97
26 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:62300040 original size:27 final size:27
Alignment explanation
Indices: 62299988--62300226 Score: 185
Period size: 27 Copynumber: 8.8 Consensus size: 27
62299978 TTCATCCTAC
* * * *
62299988 AAGGGTGTTTTGGTAAATCTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
* ** *
62300015 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTCGGTAATTTTACAAACT
* ** * *
62300042 AATGGTATTTCTATAATTTTTAGAAAGT
1 AAGGGTATTTCGGTAA-TTTTACAAACT
* ** *
62300070 CAAGGGTATTTCTGTAATTTTGTACA-T
1 -AAGGGTATTTCGGTAATTTTACAAACT
* * *
62300097 CAGGAGTATTTTGGTAATTTTACAAATT
1 AAGG-GTATTTCGGTAATTTTACAAACT
* * *
62300125 GAGGGTATTTCGATAATTTCACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
62300152 -AGTGGTATTTCGGTAATTTTACAAACT
1 AAG-GGTATTTCGGTAATTTTACAAACT
* *
62300179 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
* *
62300206 AGGGGTATTTTGGTAATTTTA
1 AAGGGTATTTCGGTAATTTTA
62300227 TCCTACAGGG
Statistics
Matches: 171, Mismatches: 35, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 5 0.03
27 134 0.78
28 18 0.11
29 14 0.08
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTTTACAAACT
Found at i:62300236 original size:27 final size:27
Alignment explanation
Indices: 62300007--62300256 Score: 184
Period size: 27 Copynumber: 9.2 Consensus size: 27
62299997 TTGGTAAATC
* *
62300007 TACAAACTAAGGGTATTTCAGTAATTT
1 TACAAACTAGGGGTATTTCGGTAATTT
** * ** **
62300034 TGTAAACCAATGGTATTTCTATAATTTT
1 TACAAACTAGGGGTATTTCGGTAA-TTT
* * * *
62300062 TAGAAAGTCAAGGGTATTTCTGTAATTTT
1 TACAAACT-AGGGGTATTTCGGTAA-TTT
* * *
62300091 GTAC-ATC-AGGAGTATTTTGGTAATTT
1 -TACAAACTAGGGGTATTTCGGTAATTT
* *
62300117 TACAAA-TTGAGGGTATTTCGATAATTT
1 TACAAACTAG-GGGTATTTCGGTAATTT
* *
62300144 CACAAACTAGTGGTATTTCGGTAATTT
1 TACAAACTAGGGGTATTTCGGTAATTT
*
62300171 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACTAGGGGTATTTCGGTAATTT
*
62300198 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACTAGGGGTATTTCGGTAATTT
** *
62300225 TATCCTAC-AGGGGTATTTCAGTAATTT
1 TA-CAAACTAGGGGTATTTCGGTAATTT
*
62300252 CACAA
1 TACAA
62300257 TCGAAGGTAA
Statistics
Matches: 177, Mismatches: 38, Indels: 17
0.76 0.16 0.07
Matches are distributed among these distances:
25 3 0.02
26 6 0.03
27 135 0.76
28 12 0.07
29 19 0.11
30 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
TACAAACTAGGGGTATTTCGGTAATTT
Found at i:62300372 original size:81 final size:81
Alignment explanation
Indices: 62300255--62300446 Score: 285
Period size: 81 Copynumber: 2.4 Consensus size: 81
62300245 GTAATTTCAC
* * * *
62300255 AATCGAAGGTAAAATGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
* *
62300320 AAATAGTAATTCTGTA
66 AAACAGTAATTCTATA
* * *
62300336 AATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
*
62300401 AAACGGTAATTCTATA
66 AAACAGTAATTCTATA
*
62300417 AATCGAGGGTAAAATGGTAATTCTACAAAT
1 AATCGAGGGTAAAATGGTAATTCTATAAAT
62300447 CAAGGGCATT
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 99 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAATGGTAATTTTGTAAATCAAGGGTA
AAACAGTAATTCTATA
Found at i:62300447 original size:27 final size:27
Alignment explanation
Indices: 62300255--62300440 Score: 248
Period size: 27 Copynumber: 6.9 Consensus size: 27
62300245 GTAATTTCAC
* *
62300255 AATCGAAGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
62300282 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
* *
62300309 AATCAAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
62300336 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
62300363 AATTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
62300390 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
62300417 AATCGAGGGTAAAATGGTAATTCT
1 AATCGAGGGTAAAATGGTAATTCT
62300441 ACAAATCAAG
Statistics
Matches: 138, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 136 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:62301177 original size:5 final size:5
Alignment explanation
Indices: 62301167--62301195 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
62301157 TGAAAAAATT
62301167 TCGAG TCGAG TCGAG TCGAG TCGAG TCGA
1 TCGAG TCGAG TCGAG TCGAG TCGAG TCGA
62301196 CTTAACGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.21
Consensus pattern (5 bp):
TCGAG
Found at i:62301308 original size:21 final size:22
Alignment explanation
Indices: 62301266--62301308 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
62301256 TAAACGAATT
* *
62301266 ACAATATTATTTAACTACATAA
1 ACAATATAATTTAACTAAATAA
62301288 ACAATATAATTT-ACTAAATAA
1 ACAATATAATTTAACTAAATAA
62301309 TTACATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
ACAATATAATTTAACTAAATAA
Found at i:62301336 original size:21 final size:21
Alignment explanation
Indices: 62301312--62301352 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
62301302 TAAATAATTA
62301312 CATGTAAAGAACTATTTTAGG
1 CATGTAAAGAACTATTTTAGG
62301333 CATGTAAAGAACTATTTTAG
1 CATGTAAAGAACTATTTTAG
62301353 TTATGCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (21 bp):
CATGTAAAGAACTATTTTAGG
Found at i:62304430 original size:20 final size:21
Alignment explanation
Indices: 62304405--62304443 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
62304395 CACATAAATA
62304405 ATAATAAA-AAAATAAAGTCT
1 ATAATAAATAAAATAAAGTCT
*
62304425 ATAATAAATAATATAAAGT
1 ATAATAAATAAAATAAAGT
62304444 AAATCAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (21 bp):
ATAATAAATAAAATAAAGTCT
Found at i:62304762 original size:5 final size:5
Alignment explanation
Indices: 62304744--62304783 Score: 71
Period size: 5 Copynumber: 7.8 Consensus size: 5
62304734 AATTGGCTTT
62304744 TATAA TATATA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATA-A TATAA TATAA TATAA TATAA TATAA TATA
62304784 TGCATGACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:62306048 original size:47 final size:47
Alignment explanation
Indices: 62305982--62306220 Score: 379
Period size: 47 Copynumber: 5.1 Consensus size: 47
62305972 GAAATGATAG
62305982 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
62306029 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
62306076 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
62306123 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
62306170 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
62306217 TAAG
1 TAAG
62306221 TCCCGAAGGG
Statistics
Matches: 177, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 177 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:62306395 original size:37 final size:37
Alignment explanation
Indices: 62306339--62306417 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
62306329 CCGAGCTCTA
* *
62306339 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
62306376 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
62306413 AAGAC
1 AAGAC
62306418 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:62308329 original size:43 final size:43
Alignment explanation
Indices: 62308281--62308383 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
62308271 TTGGTTTTCA
62308281 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
62308324 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
62308367 GCACTAAGTGTGTGGGC
1 GCACTAAGTGTGCGGGC
62308384 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.22, C:0.15, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:62312365 original size:28 final size:28
Alignment explanation
Indices: 62312302--62312424 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
62312292 ATATTAAGTC
*
62312302 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62312329 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62312357 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
62312385 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
62312414 CGCACACTTAG
1 CGCACACTTAG
62312425 CGCCAATCTC
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 21 0.25
28 48 0.56
29 16 0.19
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:62314323 original size:36 final size:36
Alignment explanation
Indices: 62314271--62314343 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
62314261 GTCACATGAC
* *
62314271 TTAAATGAAGCAAAACATTATATATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
*
62314307 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
62314343 T
1 T
62314344 ATATATGCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (36 bp):
TTAAATGAAGCAAAACAGTATACATATGCATTAATA
Found at i:62314476 original size:43 final size:42
Alignment explanation
Indices: 62314386--62314518 Score: 118
Period size: 43 Copynumber: 3.3 Consensus size: 42
62314376 CTAATTATGA
** **
62314386 TATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGG
1 TATATATATGCAATTATGCATGACTTAAATGAAGCAAAACAG
* *
62314428 AATATATATGC-ATTATGCGCATGACTTAAATGAAGCAAAACAT
1 TATATATATGCAATTAT--GCATGACTTAAATGAAGCAAAACAG
* *
62314471 TATATATATGC-CTTA---AT-A-TTAAATGAAGCTAAACAG
1 TATATATATGCAATTATGCATGACTTAAATGAAGCAAAACAG
*
62314507 TATACATATGCA
1 TATATATATGCA
62314519 TTAATATATA
Statistics
Matches: 77, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
36 26 0.34
37 1 0.01
38 2 0.03
41 5 0.06
42 10 0.13
43 33 0.43
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (42 bp):
TATATATATGCAATTATGCATGACTTAAATGAAGCAAAACAG
Found at i:62314493 original size:36 final size:36
Alignment explanation
Indices: 62314453--62314525 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
62314443 TGCGCATGAC
* * *
62314453 TTAAATGAAGCAAAACATTATATATATGCCTTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
*
62314489 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
62314525 T
1 T
62314526 ATATATGCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.33
Consensus pattern (36 bp):
TTAAATGAAGCAAAACAGTATACATATGCATTAATA
Found at i:62314658 original size:43 final size:42
Alignment explanation
Indices: 62314568--62314700 Score: 118
Period size: 43 Copynumber: 3.3 Consensus size: 42
62314558 CTAATTATGA
** **
62314568 TATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGG
1 TATATATATGCAATTATGCATGACTTAAATGAAGCAAAACAG
* *
62314610 AATATATATGC-ATTATGCGCATGACTTAAATGAAGCAAAACAT
1 TATATATATGCAATTAT--GCATGACTTAAATGAAGCAAAACAG
* *
62314653 TATATATATGC-CTTA---AT-A-TTAAATGAAGCTAAACAG
1 TATATATATGCAATTATGCATGACTTAAATGAAGCAAAACAG
*
62314689 TATACATATGCA
1 TATATATATGCA
62314701 TTAATATATA
Statistics
Matches: 77, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
36 26 0.34
37 1 0.01
38 2 0.03
41 5 0.06
42 10 0.13
43 33 0.43
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (42 bp):
TATATATATGCAATTATGCATGACTTAAATGAAGCAAAACAG
Found at i:62314675 original size:36 final size:36
Alignment explanation
Indices: 62314635--62314707 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
62314625 TGCGCATGAC
* * *
62314635 TTAAATGAAGCAAAACATTATATATATGCCTTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
*
62314671 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
62314707 T
1 T
62314708 ATATATGCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.33
Consensus pattern (36 bp):
TTAAATGAAGCAAAACAGTATACATATGCATTAATA
Found at i:62314840 original size:43 final size:42
Alignment explanation
Indices: 62314750--62315062 Score: 125
Period size: 43 Copynumber: 7.3 Consensus size: 42
62314740 CTAATTATGA
** **
62314750 TATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGG
1 TATATATATGCAATTATGCATGACTTAAATGAAGCAAAACAG
* *
62314792 AATATATATGC-ATTATGCGCATGACTTAAATGAAGCAAAACAT
1 TATATATATGCAATTAT--GCATGACTTAAATGAAGCAAAACAG
* *
62314835 TATATATATGC-CTTA---AT-A-TTAAATGAAGCTAAACAG
1 TATATATATGCAATTATGCATGACTTAAATGAAGCAAAACAG
* * * **
62314871 TATACATATGCATTAATATATATGCTTGGA-TTAACTCAAGCTAAACCTGCAAATTATGG
1 TATATATATGC----A-AT-TATGCAT-GACTT-A---AA--TGAA---GCAAA--ACAG
** **
62314930 TATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGG
1 TATATATATGCAATTATGCATGACTTAAATGAAGCAAAACAG
* * *
62314972 AATATATATGC-ATTATGTGCATGACTTAAACGAAGCAAAACAT
1 TATATATATGCAATTA--TGCATGACTTAAATGAAGCAAAACAG
*
62315015 TATATATATGC-ATTA---AT-A-TTAAATGAAGCTAAACAG
1 TATATATATGCAATTATGCATGACTTAAATGAAGCAAAACAG
*
62315051 TATACATATGCA
1 TATATATATGCA
62315063 TTAATATACA
Statistics
Matches: 208, Mismatches: 34, Indels: 63
0.68 0.11 0.21
Matches are distributed among these distances:
36 51 0.25
37 2 0.01
38 4 0.02
41 9 0.04
42 25 0.12
43 69 0.33
44 3 0.01
46 1 0.00
47 3 0.01
48 3 0.01
49 3 0.01
52 5 0.02
53 8 0.04
54 5 0.02
55 1 0.00
57 4 0.02
59 12 0.06
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (42 bp):
TATATATATGCAATTATGCATGACTTAAATGAAGCAAAACAG
Found at i:62314857 original size:36 final size:36
Alignment explanation
Indices: 62314817--62314889 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
62314807 TGCGCATGAC
* * *
62314817 TTAAATGAAGCAAAACATTATATATATGCCTTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
*
62314853 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
62314889 T
1 T
62314890 ATATGCTTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.33
Consensus pattern (36 bp):
TTAAATGAAGCAAAACAGTATACATATGCATTAATA
Found at i:62314928 original size:180 final size:182
Alignment explanation
Indices: 62314265--62315125 Score: 1573
Period size: 182 Copynumber: 4.7 Consensus size: 182
62314255 TGGGCTGTCA
*
62314265 CATGACTTAAATGAAGCAAAACATTATATATATGCATTAATATTAAATGAAGCTAAACAGTATAC
1 CATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACAGTATAC
62314330 ATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATGATATATATAT
66 ATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATGATATATATAT
62314395 GCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCATTATGCG
131 GCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCATTATGCG
62314447 CATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACAGTATAC
1 CATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACAGTATAC
62314512 ATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATGATATATATAT
66 ATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATGATATATATAT
62314577 GCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCATTATGCG
131 GCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCATTATGCG
62314629 CATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACAGTATAC
1 CATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACAGTATAC
62314694 ATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATGATATATATAT
66 ATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATGATATATATAT
62314759 GCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCATTATGCG
131 GCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCATTATGCG
62314811 CATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACAGTATAC
1 CATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACAGTATAC
* * *
62314876 ATATGCATT-A-ATATATATGCTTGGATTAACTCAAGCTAAACCTGCAAATTATGGTATATATAT
66 ATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATGATATATATAT
*
62314939 GCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCATTATGTG
131 GCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCATTATGCG
* *
62314991 CATGACTTAAACGAAGCAAAACATTATATATATGCATTAATATTAAATGAAGCTAAACAGTATAC
1 CATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACAGTATAC
* * * * * *
62315056 ATATGCATTAATATACATATATGCTTGACTTAAATGAAGTTAAACCTGCTAATAATGGTATATAT
66 ATATGCATTAATAT--ATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATGATATATAT
62315121 ATGCA
129 ATGCA
62315126 TGACTTAAAT
Statistics
Matches: 661, Mismatches: 14, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
180 173 0.26
181 2 0.00
182 439 0.66
184 47 0.07
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (182 bp):
CATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACAGTATAC
ATATGCATTAATATATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATGATATATATAT
GCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATATGCATTATGCG
Found at i:62315037 original size:36 final size:36
Alignment explanation
Indices: 62314997--62315069 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
62314987 TGTGCATGAC
* *
62314997 TTAAACGAAGCAAAACATTATATATATGCATTAATA
1 TTAAACGAAGCAAAACAGTATACATATGCATTAATA
* *
62315033 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAACGAAGCAAAACAGTATACATATGCATTAATA
62315069 T
1 T
62315070 ACATATATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.32
Consensus pattern (36 bp):
TTAAACGAAGCAAAACAGTATACATATGCATTAATA
Found at i:62315130 original size:45 final size:45
Alignment explanation
Indices: 62315072--62315159 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
62315062 ATTAATATAC
* **
62315072 ATATATGCTTGACTTAAATGAAGTTAAACCTGCTAATAATGGTAT
1 ATATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGGTAT
62315117 ATATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGGT
1 ATATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGGT
62315160 TAATTTAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (45 bp):
ATATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGGTAT
Found at i:62315258 original size:16 final size:16
Alignment explanation
Indices: 62315237--62315268 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
62315227 ACAAGACAGG
*
62315237 CAGAAACATGGAAACT
1 CAGAAACATAGAAACT
62315253 CAGAAACATAGAAACT
1 CAGAAACATAGAAACT
62315269 TTGATTAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.19, G:0.16, T:0.12
Consensus pattern (16 bp):
CAGAAACATAGAAACT
Found at i:62315612 original size:21 final size:21
Alignment explanation
Indices: 62315563--62315615 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
62315553 ACAACTGACG
62315563 TTGGTTGTGGCTTGTGGAACC
1 TTGGTTGTGGCTTGTGGAACC
*
62315584 TTGTTTGTGGCTTGTGGAA-C
1 TTGGTTGTGGCTTGTGGAACC
62315604 TGTGGTTGTGGC
1 T-TGGTTGTGGC
62315616 CTCGTGGGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.08, C:0.11, G:0.40, T:0.42
Consensus pattern (21 bp):
TTGGTTGTGGCTTGTGGAACC
Found at i:62315771 original size:36 final size:36
Alignment explanation
Indices: 62315720--62315791 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
62315710 TAAAGAAGAA
*
62315720 AGGAAAAATTTGGGGAGGGGGTGGGAATTTGGAACG
1 AGGAAAAATTGGGGGAGGGGGTGGGAATTTGGAACG
62315756 AGGAAAAATTGGGGGAGGGGGTGGGAATTTGGAACG
1 AGGAAAAATTGGGGGAGGGGGTGGGAATTTGGAACG
62315792 GTAGAAAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.31, C:0.03, G:0.49, T:0.18
Consensus pattern (36 bp):
AGGAAAAATTGGGGGAGGGGGTGGGAATTTGGAACG
Found at i:62318872 original size:41 final size:41
Alignment explanation
Indices: 62318711--62318872 Score: 163
Period size: 41 Copynumber: 3.9 Consensus size: 41
62318701 GCTAATCGGG
*
62318711 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCTAAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* * *
62318752 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAA-ATCCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* * *
62318795 GT-TAAAACC-AGACTTAGT-TCCGAAGGGCATTCGAGCCAGT
1 GTCTAAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
*
62318835 GGTCT-AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCC
1 -GTCTAAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCC
62318873 GATGCTAAGA
Statistics
Matches: 100, Mismatches: 11, Indels: 20
0.76 0.08 0.15
Matches are distributed among these distances:
40 12 0.12
41 50 0.50
42 26 0.26
43 12 0.12
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (41 bp):
GTCTAAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:62342077 original size:18 final size:18
Alignment explanation
Indices: 62342050--62342092 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
62342040 TCCACTGCTT
*
62342050 ATAATTATAATGAAAATA
1 ATAATAATAATGAAAATA
** *
62342068 ATAATAATAATTCAAGTA
1 ATAATAATAATGAAAATA
62342086 ATAATAA
1 ATAATAA
62342093 CATAATGAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (18 bp):
ATAATAATAATGAAAATA
Found at i:62343013 original size:29 final size:29
Alignment explanation
Indices: 62342950--62343064 Score: 151
Period size: 29 Copynumber: 4.0 Consensus size: 29
62342940 AACATACCTG
* * *
62342950 TATATGGCCCACTAGACCC-AATCACGTT
1 TATATGGCCCATTAGGCCCAAATCACATT
* * *
62342978 TATATGGCCCATTTGGCCCAATTCACATA
1 TATATGGCCCATTAGGCCCAAATCACATT
*
62343007 TATATGGCCCATCAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
62343036 TATATGGCCCATGAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
62343065 CACAGTCATG
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 16 0.21
29 59 0.79
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:62357700 original size:14 final size:14
Alignment explanation
Indices: 62357683--62357711 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
62357673 TAATTAAGTT
62357683 TAGTTTAGAAAACA
1 TAGTTTAGAAAACA
62357697 TAGTTTAGAAAACA
1 TAGTTTAGAAAACA
62357711 T
1 T
62357712 CCCTTCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (14 bp):
TAGTTTAGAAAACA
Found at i:62365205 original size:24 final size:24
Alignment explanation
Indices: 62365173--62365233 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
62365163 AACCGTATTT
* **
62365173 GCACACATAGTGCTA-ATTACAGTC
1 GCACACATAGTGCTATAGTA-AACC
62365197 GCACACATAGTGCTATAGTAAACC
1 GCACACATAGTGCTATAGTAAACC
62365221 GCACACATAGTGC
1 GCACACATAGTGC
62365234 ATTGGATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 30 0.91
25 3 0.09
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.21
Consensus pattern (24 bp):
GCACACATAGTGCTATAGTAAACC
Found at i:62374736 original size:27 final size:27
Alignment explanation
Indices: 62374696--62374807 Score: 86
Period size: 27 Copynumber: 4.1 Consensus size: 27
62374686 AGGAAGCGTC
* *
62374696 CTGGTGGCTATGCCACA-ATTTTCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
62374723 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
* * *
62374750 CTAGTGGCTCTGCCAGGAT-TATCTGTTT
1 CTGGTGGCTCTGCCA-CATATATCTG-AT
* ** *
62374778 CTGGTGACTCTATCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
62374804 CTGG
1 CTGG
62374808 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.69
28 16 0.22
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:62376805 original size:27 final size:26
Alignment explanation
Indices: 62376726--62376836 Score: 107
Period size: 27 Copynumber: 4.1 Consensus size: 26
62376716 AGCATGGATG
* *
62376726 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* * *
62376752 CCAGATACAGATAATATTGGTAAAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
62376780 CTAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
62376807 CCA-AATCAGATAATTGTGGCATAGCCA
1 CCAGAA-CAGATAA-TGTGGCAGAGCCA
62376834 CCA
1 CCA
62376837 CGACGCTTCC
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
26 8 0.12
27 48 0.70
28 13 0.19
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:62376833 original size:54 final size:54
Alignment explanation
Indices: 62376728--62376834 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
62376718 CATGGATGCC
* * *
62376728 AGAACAGATAATGTGACAGAGTCACCAGATACAGATAATATTGGTAAAGCCACT
1 AGAACAGATAATGTGACAGAGCCACCAAATACAGATAATATTGGCAAAGCCACT
* *
62376782 AGAACAGATATATGTGGCAGAGCCACCAAAT-CAGATAAT-TGTGGCATAGCCAC
1 AGAACAGATA-ATGTGACAGAGCCACCAAATACAGATAATAT-TGGCAAAGCCAC
62376835 CACGACGCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 1 0.02
54 28 0.61
55 17 0.37
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (54 bp):
AGAACAGATAATGTGACAGAGCCACCAAATACAGATAATATTGGCAAAGCCACT
Found at i:62379580 original size:27 final size:28
Alignment explanation
Indices: 62379533--62379598 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
62379523 ATAATGTGAT
* *
62379533 AGAGTCACCAGATACAGATAATCT-TGGC
1 AGAGCCACCAGATACAAATAAT-TGTGGC
62379561 AGAGCCACCAGAT-CAAATAATTGTGGC
1 AGAGCCACCAGATACAAATAATTGTGGC
*
62379588 ATAGCCACCAG
1 AGAGCCACCAG
62379599 GACACTTCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.03
27 21 0.62
28 12 0.35
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.18
Consensus pattern (28 bp):
AGAGCCACCAGATACAAATAATTGTGGC
Found at i:62387304 original size:15 final size:16
Alignment explanation
Indices: 62387284--62387314 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
62387274 ATTCTTCATC
62387284 TTTCTT-TTTTTTTCT
1 TTTCTTCTTTTTTTCT
62387299 TTTCTTCTTTTTTTCT
1 TTTCTTCTTTTTTTCT
62387315 CTCTTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTCTTCTTTTTTTCT
Found at i:62388622 original size:27 final size:26
Alignment explanation
Indices: 62388570--62388664 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 26
62388560 CTATGTCAGA
* *
62388570 ATTATCTGATCTGGTGGCTCTACCAC
1 ATTATCTGTTCTGGTGGCTCTGCCAC
*
62388596 ATATATCTGTTCTGGTGGCTTTGCCAC
1 AT-TATCTGTTCTGGTGGCTCTGCCAC
* * *
62388623 GATTAGCTGTATCTGGTGACTCTGTCAC
1 -ATTATCTGT-TCTGGTGGCTCTGCCAC
*
62388651 ATTATCTATTCTGG
1 ATTATCTGTTCTGG
62388665 CAGCCATGTT
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
26 7 0.12
27 34 0.60
28 16 0.28
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (26 bp):
ATTATCTGTTCTGGTGGCTCTGCCAC
Found at i:62391643 original size:24 final size:25
Alignment explanation
Indices: 62391610--62391671 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
62391600 TGAAAAACAT
*
62391610 TACATGAATATATATTGAAAA-TAGA
1 TACAT-AATATATATTGAAAAGCAGA
* * *
62391635 TATATAATA-ATATTTAAAAGCATA
1 TACATAATATATATTGAAAAGCAGA
62391659 TACATAATATATA
1 TACATAATATATA
62391672 CATAATATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
23 9 0.30
24 14 0.47
25 7 0.23
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.35
Consensus pattern (25 bp):
TACATAATATATATTGAAAAGCAGA
Found at i:62391681 original size:9 final size:11
Alignment explanation
Indices: 62391656--62391680 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
62391646 ATTTAAAAGC
62391656 ATATACATAAT
1 ATATACATAAT
62391667 ATATACATAAT
1 ATATACATAAT
62391678 ATA
1 ATA
62391681 CGAAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATACATAAT
Found at i:62393750 original size:43 final size:42
Alignment explanation
Indices: 62393699--62394022 Score: 208
Period size: 43 Copynumber: 7.4 Consensus size: 42
62393689 ATCTGCTCCA
*
62393699 CTACTGCTTAGGTGGATAAGATCTGTAAATTCGATCTGTTACC
1 CTACTGCTTAGG-GGTTAAGATCTGTAAATTCGATCTGTTACC
* * * *** * *
62393742 CTACTGCTTAGGGGTTTATGACCTTTCGTCTTTGATCTGTTTCC
1 CTACTGCTTAGGGG-TTAAGATCTGT-AAATTCGATCTGTTACC
* * *
62393786 CTACTGCTTAGGGGGTTAAGATTTGGAAATCTTC-AGCCTGTTACC
1 CTACTGCTTA-GGGGTTAAGATCTGTAAA--TTCGA-TCTGTTACC
* * *
62393831 CTACTGCTTAGGGGTTTAAGGTCTGTAAGTTCG-GCTTGTTACC
1 CTACTGCTTAGGGG-TTAAGATCTGTAAATTCGATC-TGTTACC
* * * ** *
62393874 CTATTGCTTAGGGGGTTAAAGCTCAT-CACCTTCGATCTGTTTCC
1 CTACTGCTTA-GGGGTT-AAGATC-TGTAAATTCGATCTGTTACC
* * *
62393918 CTACTGTTTATGGGGTTAAGATCTGTAAATTC-AGCCTATTACC
1 CTACTGCTTA-GGGGTTAAGATCTGTAAATTCGA-TCTGTTACC
* * * *
62393961 TTACTGCTTAGAGGTTTAAGGTCTGTAAATTCG-GCTTGTTACC
1 CTACTGCTTAG-GGGTTAAGATCTGTAAATTCGATC-TGTTACC
62394004 CTACTGCTTAGGGGGTTAA
1 CTACTGCTTA-GGGGTTAA
62394023 AGCTCATCAC
Statistics
Matches: 212, Mismatches: 50, Indels: 38
0.71 0.17 0.13
Matches are distributed among these distances:
42 7 0.03
43 102 0.48
44 68 0.32
45 35 0.17
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (42 bp):
CTACTGCTTAGGGGTTAAGATCTGTAAATTCGATCTGTTACC
Found at i:62393998 original size:130 final size:130
Alignment explanation
Indices: 62393715--62394080 Score: 493
Period size: 130 Copynumber: 2.8 Consensus size: 130
62393705 CTTAGGTGGA
* * * * * * ** *
62393715 TAAGATCTGTAAATTC-GATCTGTTACCCTACTGCTTAGGGGTTTATGACCT-TTCGTCTTTGAT
1 TAAGGTCTGTAAATTCGGCT-TGTTACCCTACTGCTTAGGGGGTTA-AAGCTCATCACCTTCGAT
* * * * *
62393778 CTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGGAAATCTTCAGCCTGTTACCCTACTGCTTAGG
64 CTGTTTCCCTACTGTTTAGGGGGTTAAGATCTGTAAA--TTCAGCCTATTACCCTACTGCTTAGA
62393843 GGTT
127 GGTT
* *
62393847 TAAGGTCTGTAAGTTCGGCTTGTTACCCTATTGCTTAGGGGGTTAAAGCTCATCACCTTCGATCT
1 TAAGGTCTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCACCTTCGATCT
* *
62393912 GTTTCCCTACTGTTTATGGGGTTAAGATCTGTAAATTCAGCCTATTACCTTACTGCTTAGAGGTT
66 GTTTCCCTACTGTTTAGGGGGTTAAGATCTGTAAATTCAGCCTATTACCCTACTGCTTAGAGGTT
*
62393977 TAAGGTCTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCACCTTCGATAT
1 TAAGGTCTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCACCTTCGATCT
* *
62394042 GTTTCCCTACTATTTAGGGGGTTAATATCTGTAAATTCA
66 GTTTCCCTACTGTTTAGGGGGTTAAGATCTGTAAATTCA
62394081 CCGATCTAAG
Statistics
Matches: 208, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
130 125 0.60
131 3 0.01
132 78 0.38
133 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (130 bp):
TAAGGTCTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCTCATCACCTTCGATCT
GTTTCCCTACTGTTTAGGGGGTTAAGATCTGTAAATTCAGCCTATTACCCTACTGCTTAGAGGTT
Found at i:62395341 original size:14 final size:14
Alignment explanation
Indices: 62395322--62395361 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
62395312 TGGCCTCTCC
62395322 TCTTTTCTTTTCTT
1 TCTTTTCTTTTCTT
*
62395336 TCTTTTTTTTTCTT
1 TCTTTTCTTTTCTT
*
62395350 TTTTTTCCTTTT
1 TCTTTT-CTTTT
62395362 TTTAGGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (14 bp):
TCTTTTCTTTTCTT
Found at i:62395342 original size:10 final size:9
Alignment explanation
Indices: 62395324--62395364 Score: 55
Period size: 10 Copynumber: 4.3 Consensus size: 9
62395314 GCCTCTCCTC
62395324 TTTTCTTTT
1 TTTTCTTTT
*
62395333 CTTTCTTTTT
1 TTTTC-TTTT
62395343 TTTTCTTTT
1 TTTTCTTTT
62395352 TTTTCCTTTT
1 TTTT-CTTTT
62395362 TTT
1 TTT
62395365 AGGAAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 12 0.43
10 16 0.57
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:62395348 original size:19 final size:20
Alignment explanation
Indices: 62395324--62395364 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
62395314 GCCTCTCCTC
62395324 TTTTCTTTTCTTT-CTTTTT
1 TTTTCTTTTCTTTCCTTTTT
*
62395343 TTTTCTTTTTTTTCCTTTTT
1 TTTTCTTTTCTTTCCTTTTT
62395363 TT
1 TT
62395365 AGGAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTCTTTTCTTTCCTTTTT
Found at i:62401615 original size:16 final size:16
Alignment explanation
Indices: 62401594--62401625 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
62401584 TCATTGGGCG
62401594 TACTGCCTAAAGCTCT
1 TACTGCCTAAAGCTCT
62401610 TACTGCCTAAAGCTCT
1 TACTGCCTAAAGCTCT
62401626 ATGTTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.31
Consensus pattern (16 bp):
TACTGCCTAAAGCTCT
Found at i:62406676 original size:24 final size:25
Alignment explanation
Indices: 62406643--62406704 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
62406633 TGAAAAACAT
*
62406643 TACATGAATATATATTGAAAA-TAGA
1 TACAT-AATATATATTGAAAAGCAGA
* * *
62406668 TATATAATA-ATATTTAAAAGCATA
1 TACATAATATATATTGAAAAGCAGA
62406692 TACATAATATATA
1 TACATAATATATA
62406705 CATAATATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
23 9 0.30
24 14 0.47
25 7 0.23
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.35
Consensus pattern (25 bp):
TACATAATATATATTGAAAAGCAGA
Found at i:62406705 original size:11 final size:11
Alignment explanation
Indices: 62406689--62406713 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
62406679 ATTTAAAAGC
62406689 ATATACATAAT
1 ATATACATAAT
62406700 ATATACATAAT
1 ATATACATAAT
62406711 ATA
1 ATA
62406714 CAAAACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATACATAAT
Found at i:62406725 original size:25 final size:27
Alignment explanation
Indices: 62406695--62406770 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 27
62406685 AAGCATATAC
62406695 ATAATATATACATAATATACAAAACA-
1 ATAATATATACATAATATACAAAACAT
* *
62406721 A-AATATACACATAATATATTAAAACAT
1 ATAATATATACATAATATA-CAAAACAT
*
62406748 ATACATGACATACATAATATACA
1 ATA-AT-ATATACATAATATACA
62406771 TGATAAAACA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
25 16 0.40
26 7 0.17
27 1 0.03
28 1 0.03
29 3 0.08
30 12 0.30
ACGTcount: A:0.58, C:0.13, G:0.01, T:0.28
Consensus pattern (27 bp):
ATAATATATACATAATATACAAAACAT
Found at i:62406783 original size:19 final size:18
Alignment explanation
Indices: 62406746--62406786 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
62406736 ATATTAAAAC
* *
62406746 ATATACATGACATACATA
1 ATATACATGAAAAACATA
62406764 ATATACATGATAAAACATA
1 ATATACATGA-AAAACATA
62406783 ATAT
1 ATAT
62406787 GATATTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (18 bp):
ATATACATGAAAAACATA
Found at i:62407737 original size:16 final size:17
Alignment explanation
Indices: 62407716--62407747 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
62407706 GTGCTGGAAC
62407716 CTCTCTCTCT-CTTTCA
1 CTCTCTCTCTCCTTTCA
62407732 CTCTCTCTCTCCTTTC
1 CTCTCTCTCTCCTTTC
62407748 TCTGCAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.03, C:0.47, G:0.00, T:0.50
Consensus pattern (17 bp):
CTCTCTCTCTCCTTTCA
Found at i:62410441 original size:17 final size:18
Alignment explanation
Indices: 62410419--62410452 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62410409 CCGTCCCCCC
62410419 ATCTTC-TTTCTTCTTTG
1 ATCTTCATTTCTTCTTTG
*
62410436 ATCTTCATTTTTTCTTT
1 ATCTTCATTTCTTCTTT
62410453 CTTTCTCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.21, G:0.03, T:0.68
Consensus pattern (18 bp):
ATCTTCATTTCTTCTTTG
Found at i:62414118 original size:16 final size:16
Alignment explanation
Indices: 62414097--62414132 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
62414087 CATTTTTATA
*
62414097 TTTATTTTTTGGTTCT
1 TTTATTTTTTAGTTCT
*
62414113 TTTATTTTTTATTTCT
1 TTTATTTTTTAGTTCT
62414129 TTTA
1 TTTA
62414133 AAAATGTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.78
Consensus pattern (16 bp):
TTTATTTTTTAGTTCT
Found at i:62414566 original size:53 final size:53
Alignment explanation
Indices: 62414491--62414603 Score: 154
Period size: 53 Copynumber: 2.1 Consensus size: 53
62414481 AATACTAAAA
* * ** * *
62414491 AATTAAATGATTTTGTTGAAGACTGACAAAATTGTGTCTTACAAATAATACAT
1 AATTAAATGATTTTGCTCAAGACCAACAAAATTCTGTCTTACAAATAAAACAT
* *
62414544 AATTAAATGATTTTGCTCAAGACCAACAATATTCTTTCTTACAAATAAAACAT
1 AATTAAATGATTTTGCTCAAGACCAACAAAATTCTGTCTTACAAATAAAACAT
62414597 AATTAAA
1 AATTAAA
62414604 CTATCGAAAC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (53 bp):
AATTAAATGATTTTGCTCAAGACCAACAAAATTCTGTCTTACAAATAAAACAT
Found at i:62416877 original size:21 final size:21
Alignment explanation
Indices: 62416853--62416899 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
62416843 CGAGGAGACT
62416853 ACTCAACCC-ACCAACCATTAC
1 ACTCAACCCGACCAACC-TTAC
* *
62416874 ACTCCACCCGTACCAGCCTTAC
1 ACTCAACCCG-ACCAACCTTAC
62416896 ACTC
1 ACTC
62416900 CATGTGGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 8 0.36
22 8 0.36
23 6 0.27
ACGTcount: A:0.30, C:0.49, G:0.04, T:0.17
Consensus pattern (21 bp):
ACTCAACCCGACCAACCTTAC
Found at i:62418096 original size:26 final size:26
Alignment explanation
Indices: 62418067--62418174 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
62418057 TGAAATGCCC
* *
62418067 ATCATAGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
62418093 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
62418119 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
62418145 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
62418171 ATCA
1 ATCA
62418175 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:62419798 original size:15 final size:15
Alignment explanation
Indices: 62419778--62419855 Score: 56
Period size: 15 Copynumber: 5.1 Consensus size: 15
62419768 ATTAATTTTG
*
62419778 ATATTTTCTATTATT
1 ATATTATCTATTATT
62419793 ATATT-TACTATTATT
1 ATATTAT-CTATTATT
* *
62419808 -TATTGTCATCTCTATT
1 ATATTATC-TAT-TATT
62419824 ATTATTAT-TATTATT
1 A-TATTATCTATTATT
62419839 ATTATTAT-TATTATT
1 A-TATTATCTATTATT
62419854 AT
1 AT
62419856 TACATATTAG
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
14 7 0.13
15 36 0.67
16 6 0.11
18 5 0.09
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.63
Consensus pattern (15 bp):
ATATTATCTATTATT
Found at i:62419826 original size:3 final size:3
Alignment explanation
Indices: 62419820--62419857 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
62419810 TTGTCATCTC
62419820 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
62419858 CATATTAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:62420330 original size:22 final size:22
Alignment explanation
Indices: 62420305--62420347 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
62420295 ATATTTATAT
62420305 ATATTATCATGT-ATATATTTTG
1 ATATTATCA-GTAATATATTTTG
*
62420327 ATATTATTAGTAATATATTTT
1 ATATTATCAGTAATATATTTT
62420348 TTATACATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (22 bp):
ATATTATCAGTAATATATTTTG
Found at i:62420413 original size:45 final size:48
Alignment explanation
Indices: 62420298--62420418 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 48
62420288 TTTTCTAATA
* * *
62420298 TTTATATATATTATCATGTATATATTTTGATATTATTAGTAATATATTT
1 TTTATACATATT-TCATGTATATATTTAGATATCATTAGTAATATATTT
*
62420347 TTTATACATTATTTCATGTATATACTTTAG-TATCA-TAGTTATATA-TT
1 TTTATACA-TATTTCATGTATATA-TTTAGATATCATTAGTAATATATTT
62420394 TTTATA-ATATTTCATGTATATATTT
1 TTTATACATATTTCATGTATATATTT
62420419 TCATGCATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
44 3 0.05
45 15 0.23
46 1 0.02
47 8 0.12
48 9 0.14
49 22 0.33
50 8 0.12
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (48 bp):
TTTATACATATTTCATGTATATATTTAGATATCATTAGTAATATATTT
Found at i:62420420 original size:14 final size:14
Alignment explanation
Indices: 62420403--62420434 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
62420393 TTTTATAATA
*
62420403 TTTCATGTATATAT
1 TTTCATGCATATAT
62420417 TTTCATGCATATAT
1 TTTCATGCATATAT
62420431 TTTC
1 TTTC
62420435 TTTTACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTCATGCATATAT
Found at i:62432110 original size:6 final size:7
Alignment explanation
Indices: 62432085--62432119 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
62432075 GCATCTTAAA
62432085 AAAAAGAG
1 AAAAA-AG
62432093 AAAAAAG
1 AAAAAAG
62432100 AAAAAAG
1 AAAAAAG
62432107 AAAAAAG
1 AAAAAAG
62432114 AAAAAA
1 AAAAAA
62432120 AAGGTGATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 22 0.81
8 5 0.19
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:62435179 original size:22 final size:22
Alignment explanation
Indices: 62435151--62435320 Score: 73
Period size: 22 Copynumber: 7.3 Consensus size: 22
62435141 AAATGCATAT
62435151 ATGTGATAAGGCTGAATGGCCA
1 ATGTGATAAGGCTGAATGGCCA
* *
62435173 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCTG-A-ATGGC-CA
*
62435197 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCTGAATGGCCA
* *
62435220 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCTG-A-ATGGC-CA
* *
62435244 TATGTGATAAGGCCGAATGGCCT
1 -ATGTGATAAGGCTGAATGGCCA
* *
62435267 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCTG-A-ATGGC-CA
*
62435291 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCTGAATGGCCA
62435314 ATGTGAT
1 ATGTGAT
62435321 GAACGTGAGC
Statistics
Matches: 108, Mismatches: 19, Indels: 42
0.64 0.11 0.25
Matches are distributed among these distances:
22 32 0.30
23 26 0.24
24 26 0.24
25 24 0.22
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCTGAATGGCCA
Found at i:62435369 original size:25 final size:25
Alignment explanation
Indices: 62435294--62435369 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
62435284 ATGCATATAT
62435294 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
62435319 ATGA-ACGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
62435341 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
62435366 GTGA
1 GTGA
62435370 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.22
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:62435413 original size:47 final size:47
Alignment explanation
Indices: 62435126--62435405 Score: 461
Period size: 47 Copynumber: 6.0 Consensus size: 47
62435116 TTAGGATTTT
* *
62435126 ATGTGATGAATGTGAAAATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
62435173 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
62435220 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
62435267 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
62435314 ATGTGATGAACGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
62435361 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGGATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
62435406 TAGTGTGGAA
Statistics
Matches: 218, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 218 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:62435713 original size:37 final size:37
Alignment explanation
Indices: 62435568--62435712 Score: 220
Period size: 37 Copynumber: 3.9 Consensus size: 37
62435558 GGAAATATAT
* *
62435568 TCCGGGTGAGACCCGATGACTACGTGTGGAGATCATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
62435605 TCCGGGTAAGACCCGATGACTATGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
62435642 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
62435679 TCCGGGTAAGACCCGAT-AGCTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGA-CTACGTGTGGAGATT
62435713 TCGTCTGAGC
Statistics
Matches: 99, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
36 1 0.01
37 98 0.99
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:62437235 original size:88 final size:85
Alignment explanation
Indices: 62437050--62437698 Score: 630
Period size: 88 Copynumber: 7.4 Consensus size: 85
62437040 CTGTTCTCAG
* * * * **
62437050 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCCTCGGGTCACATGCCGAGGTGTTTTCAAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAG-CCTCAGG--ACACGCTGAGGTAATTTC-AATT
* * * *
62437115 CCATTTTTAATTTCTACTTTTC-C
62 TCTTTTTTAATTTATACTTTTCAA
* * *
62437138 AAATCAACTCATGTTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT-
62437203 TTTTTCCAATTTATACTTTTCAA
65 TTTTT--AATTTATACTTTTCAA
* *
62437226 AAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTT
* *
62437291 TTTT--TTCAT-GTTTTCAA
66 TTTTAATTTATACTTTTCAA
* *
62437308 AAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT-
* * **
62437373 TCTTTAATTTCTGTTTTTCAAAA
65 TTTTTAATTTATACTTTTC--AA
* * *
62437396 AAATCAACTCATATTACGAGAGGTAAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTT-TT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTT
* **
62437460 GTCTTTAATTTCTGTTTTTCCAAAA
66 -T-TTTAATTTATACTTTT-C--AA
* * *
62437485 AAATCAACTCATATTGCGAGAGGTGGGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTTTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA--TTTC
* *
62437550 TGTTTTTCAATTTTTACCTTTCAAAAAA
64 T-TTTTT-AATTTATACTTTTC----AA
* * *
62437578 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACATCTTGAGGT-ATTTCCAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC-GC-TGAGGTAATTT-CAATT
* * *
62437641 TCTGTTTTAATTCAT-GTTTTCAA
62 TCTTTTTTAATTTATACTTTTCAA
*
62437664 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
62437699 TTTAATTTCT
Statistics
Matches: 489, Mismatches: 48, Indels: 50
0.83 0.08 0.09
Matches are distributed among these distances:
82 68 0.14
83 7 0.01
84 5 0.01
85 23 0.05
86 42 0.09
87 24 0.05
88 168 0.34
89 59 0.12
90 4 0.01
91 12 0.02
92 17 0.03
93 46 0.09
94 5 0.01
95 9 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (85 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTT
TTTTAATTTATACTTTTCAA
Found at i:62437343 original size:170 final size:170
Alignment explanation
Indices: 62437050--62437698 Score: 673
Period size: 170 Copynumber: 3.7 Consensus size: 170
62437040 CTGTTCTCAG
* * * * **
62437050 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCCTCGGGTCACATGCCGAGGTGTTTTCAAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAG-CCTCAGG--ACACGCTGAGGTAATTTC-AATT
* * * * * *
62437115 CCATTTTTAATTTC-TACTTTTC-CAAATCAACTCATGTTGCGAGAAGTGAGTTGAGCCTCAGGA
62 TC-TGTTT--TTTCAT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
*
62437178 CACGCTGAGGTATTTTCAATTTCTATTTTTCCAATTTATACTTTTC-AA
123 CACGCTGAGGTAATTTCAATTTCTATTTTT-CAATTTATACTTTTCAAA
*
62437226 AAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
* *
62437291 TTTTTTCATGTTTTCAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGA
66 TTTTTTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* * * **
62437356 GGTAATTTCAATTTCTGTCTTT-AATTTCTGTTTTTCAAAA
131 GGTAATTTCAATTTCTATTTTTCAATTTATACTTTTC-AAA
* * * *
62437396 AAATCAACTCATATTACGAGAGGTAAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
* *
62437461 TCTTTAATTTC-TGTTTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAGCCTTAGGA
66 --TTT--TTTCATG-TTTT-C--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* * * *
62437525 CACGCTGAGGTAATTTCAATTTTTTTGTTTTTCAATTTTTACCTTTCAAAAAA
123 CACGCTGAGGTAATTTCAA--TTTCTATTTTTCAATTTATACTTTTC---AAA
* * *
62437578 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACATCTTGAGGT-ATTTCCAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC-GC-TGAGGTAATTT-CAATT
*
62437641 TCTGTTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
62 TCTGTTTT--TTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
62437699 TTTAATTTCT
Statistics
Matches: 404, Mismatches: 45, Indels: 45
0.82 0.09 0.09
Matches are distributed among these distances:
168 11 0.03
169 9 0.02
170 126 0.31
171 4 0.01
172 8 0.02
173 16 0.04
174 8 0.02
175 7 0.02
176 30 0.07
177 57 0.14
179 44 0.11
180 11 0.03
181 3 0.01
182 49 0.12
183 7 0.02
184 14 0.03
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (170 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
TTTTTTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTAATTTCAATTTCTATTTTTCAATTTATACTTTTCAAA
Found at i:62437809 original size:14 final size:13
Alignment explanation
Indices: 62437779--62437810 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
62437769 TGCTGAGCTA
*
62437779 TTTTTAATTTCAG
1 TTTTTAATGTCAG
62437792 TTTTTAATGTCAG
1 TTTTTAATGTCAG
62437805 TTTTTA
1 TTTTTA
62437811 TTTTTCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.09, T:0.62
Consensus pattern (13 bp):
TTTTTAATGTCAG
Done.