Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 194 of 276
Found at i:64197034 original size:20 final size:20
Alignment explanation
Indices: 64197009--64197053 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
64196999 CGAAAAATAA
*
64197009 TTTCTGAAAAATTACTTACT
1 TTTCTGAAAAATGACTTACT
*
64197029 TTTCTGGAAAATGACTTACT
1 TTTCTGAAAAATGACTTACT
64197049 TTTCT
1 TTTCT
64197054 AGTGTTTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.47
Consensus pattern (20 bp):
TTTCTGAAAAATGACTTACT
Found at i:64200513 original size:16 final size:16
Alignment explanation
Indices: 64200494--64200524 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64200484 CTTCTTCACT
64200494 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
64200510 TACTTACTTACTTAA
1 TACTCACTTACTTAA
64200525 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:64200530 original size:20 final size:20
Alignment explanation
Indices: 64200491--64200530 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
64200481 AAACTTCTTC
* *
64200491 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
64200511 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
64200531 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:64202352 original size:5 final size:5
Alignment explanation
Indices: 64202342--64202371 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
64202332 TCATTATGTG
*
64202342 ATTTT ATTTT ATCTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
64202372 TTGTTCAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:64202353 original size:15 final size:15
Alignment explanation
Indices: 64202335--64202368 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
64202325 GAATTTATCA
*
64202335 TTATGTGATTTTATT
1 TTATCTGATTTTATT
*
64202350 TTATCTTATTTTATT
1 TTATCTGATTTTATT
64202365 TTAT
1 TTAT
64202369 TTTTTGTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.71
Consensus pattern (15 bp):
TTATCTGATTTTATT
Found at i:64202809 original size:11 final size:11
Alignment explanation
Indices: 64202795--64202820 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
64202785 TCATTTATAA
64202795 TAATAGATGAC
1 TAATAGATGAC
64202806 TAATAGATGAC
1 TAATAGATGAC
64202817 TAAT
1 TAAT
64202821 GGTATTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (11 bp):
TAATAGATGAC
Found at i:64203472 original size:14 final size:15
Alignment explanation
Indices: 64203453--64203487 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
64203443 TTTAGCATAT
*
64203453 ATTTTAG-AATTTTC
1 ATTTTAGTAAATTTC
64203467 ATTTTAGTAAATTTC
1 ATTTTAGTAAATTTC
64203482 ATTTTA
1 ATTTTA
64203488 TAACTCAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (15 bp):
ATTTTAGTAAATTTC
Found at i:64207228 original size:21 final size:19
Alignment explanation
Indices: 64207164--64207218 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 19
64207154 TAATGAGAGA
*
64207164 AAATGAGCGAAAAATAAAAG
1 AAATGAGAGAAAAA-AAAAG
64207184 AAATTGAGAGAAGAAAAAAAG
1 AAA-TGAGAGAA-AAAAAAAG
64207205 AAATGAGAGAAAAA
1 AAATGAGAGAAAAA
64207219 GAAATTGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.09
20 11 0.34
21 15 0.47
22 3 0.09
ACGTcount: A:0.67, C:0.02, G:0.22, T:0.09
Consensus pattern (19 bp):
AAATGAGAGAAAAAAAAAG
Found at i:64207231 original size:16 final size:16
Alignment explanation
Indices: 64207199--64207257 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
64207189 GAGAGAAGAA
*
64207199 AAAAAGAAA-TGAGAG
1 AAAAAGAAATTGAAAG
64207214 AAAAAGAAATTGAAAG
1 AAAAAGAAATTGAAAG
*
64207230 AAAAAGAGAGCTTGAAAG
1 AAAAAGA-A-ATTGAAAG
64207248 AAAAGAGAAA
1 AAAA-AGAAA
64207258 GAAAAAGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 9 0.24
16 12 0.32
17 1 0.03
18 12 0.32
19 3 0.08
ACGTcount: A:0.66, C:0.02, G:0.24, T:0.08
Consensus pattern (16 bp):
AAAAAGAAATTGAAAG
Found at i:64209260 original size:50 final size:52
Alignment explanation
Indices: 64209195--64209293 Score: 157
Period size: 50 Copynumber: 1.9 Consensus size: 52
64209185 TGAATAAAGT
* *
64209195 CATGCATTATTTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCTCATGTTAGTTAAAGTTTGCATAATTAAATTATGA
*
64209245 CATGCTTTATGTAACTCTCATGTTAGTTAAAGTTTGCATAATTAAATTA
1 CATGCATTATGTAACTCTCATGTTAGTTAAAGTTTGCATAATTAAATTA
64209294 AGTCATGAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 26 0.59
51 11 0.25
52 7 0.16
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.42
Consensus pattern (52 bp):
CATGCATTATGTAACTCTCATGTTAGTTAAAGTTTGCATAATTAAATTATGA
Found at i:64235115 original size:24 final size:23
Alignment explanation
Indices: 64235082--64235139 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
64235072 AGTTGAAAAG
64235082 TATAA-AATAAAATAAATAATGATA
1 TATAATAATAAAAT-AAT-ATGATA
*
64235106 -ATAATAATAAAATGATATGATA
1 TATAATAATAAAATAATATGATA
64235128 TATATATAATAA
1 TATA-ATAATAA
64235140 TGTTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 9 0.30
24 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAATAAAATAATATGATA
Found at i:64236631 original size:43 final size:43
Alignment explanation
Indices: 64236583--64236716 Score: 205
Period size: 43 Copynumber: 3.1 Consensus size: 43
64236573 ATGAAACTCA
*
64236583 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
1 GTGATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTTCGTGCCG
* *
64236626 GTGATGTGTATTCTGGTCTTCGTGCCTAGCAGGCTTCGTACCG
1 GTGATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTTCGTGCCG
* * **
64236669 GTGATGTGTATTAGGGTCTTCGTGCCTAGCAAGCTTAATGCCG
1 GTGATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTTCGTGCCG
64236712 GTGAT
1 GTGAT
64236717 TCGAGCAAGG
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 82 1.00
ACGTcount: A:0.13, C:0.22, G:0.32, T:0.33
Consensus pattern (43 bp):
GTGATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTTCGTGCCG
Found at i:64236886 original size:29 final size:29
Alignment explanation
Indices: 64236854--64236946 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
64236844 ATGGGCATTA
64236854 TGTGTGCAAGATCGGTAATTGAGGCACTG
1 TGTGTGCAAGATCGGTAATTGAGGCACTG
* ** ** *
64236883 TGTGTACAA-ATTCCTTTAACCGA-GCACTA
1 TGTGTGCAAGA-T-CGGTAATTGAGGCACTG
*
64236912 TGTGTGCGAGATCGG-AATTGAGGCACTG
1 TGTGTGCAAGATCGGTAATTGAGGCACTG
64236940 TGTGTGC
1 TGTGTGC
64236947 GAGTTCTTCA
Statistics
Matches: 47, Mismatches: 13, Indels: 9
0.68 0.19 0.13
Matches are distributed among these distances:
27 4 0.09
28 14 0.30
29 22 0.47
30 7 0.15
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (29 bp):
TGTGTGCAAGATCGGTAATTGAGGCACTG
Found at i:64236993 original size:28 final size:28
Alignment explanation
Indices: 64236906--64237001 Score: 79
Period size: 28 Copynumber: 3.4 Consensus size: 28
64236896 CTTTAACCGA
* *
64236906 GCACTATGTGTGCGAGATCGG-AATTGAG
1 GCACTATGTGTGCGAGATCGGTCACTG-G
* * * * *
64236934 GCACTGTGTGTGCGAGTTC-TTCAACCGA
1 GCACTATGTGTGCGAGATCGGTC-ACTGG
*
64236962 GCACTATGTGTGCGAGATCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCACTGG
*
64236990 GCACTAAGTGTG
1 GCACTATGTGTG
64237002 TGAAATGAGA
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
28 47 0.92
29 4 0.08
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGTCACTGG
Found at i:64236994 original size:56 final size:58
Alignment explanation
Indices: 64236852--64236983 Score: 205
Period size: 56 Copynumber: 2.3 Consensus size: 58
64236842 ATATGGGCAT
* * *
64236852 TATGTGTGCAAGATCGGTAATTGAGGCACTGTGTGTACAAATTCCTTTAACCGAGCAC
1 TATGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCAAATTCCTTCAACCGAGCAC
* *
64236910 TATGTGTGCGAGATCGG-AATTGAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGCAC
1 TATGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCAAATTCCTTCAACCGAGCAC
64236966 TATGTGTGCGAGATCGGT
1 TATGTGTGCGAGATCGGT
64236984 CAGTGGGCAC
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
56 30 0.44
57 22 0.32
58 16 0.24
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (58 bp):
TATGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCAAATTCCTTCAACCGAGCAC
Found at i:64243803 original size:93 final size:93
Alignment explanation
Indices: 64243690--64243861 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
64243680 CGCCCATAAG
* *
64243690 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
64243755 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
64243783 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
64243848 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
64243862 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:64243858 original size:46 final size:46
Alignment explanation
Indices: 64243683--64243858 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
64243673 TGTAACCCGC
* * *
64243683 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
64243729 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
64243779 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
64243822 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
64243859 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:64248769 original size:48 final size:48
Alignment explanation
Indices: 64248619--64248834 Score: 244
Period size: 46 Copynumber: 4.6 Consensus size: 48
64248609 AAGCTGACAC
*
64248619 CATGTCCCAGACATGGTCTTACACTAGCTTGTATATCTCGAGGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* ** * *
64248668 CATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * *
64248714 CATGTCCCAGCCATGTCTTAAACTGGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* * * * * *
64248762 CATGTCCCAGACATGTCTTGCACTGGCTCT-CATA-AT-GTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TGTATATCTCGAGGCCGATG
64248808 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
64248835 ACACATATCA
Statistics
Matches: 141, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
46 68 0.48
47 5 0.04
48 53 0.38
49 15 0.11
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:64248843 original size:94 final size:93
Alignment explanation
Indices: 64248619--64248834 Score: 301
Period size: 94 Copynumber: 2.3 Consensus size: 93
64248609 AAGCTGACAC
*
64248619 CATGTCCCAGACATGGTCTTACACTAGCTTGTATATCTCGAGGCTGATGCATGTCCCAGACATGT
1 CATGTCCCAGACAT-GTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGT
*
64248684 CTTACACTAGCTCTCGTCTCAATGCCGATG
65 CTTACACTAGCTCTCG-ATCAATGCCGATG
* * *
64248714 CATGTCCCAGCCATGTCTTAAACTGGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
* * *
64248779 TTGCACTGGCTCTC-AT-AATGTGGCTGATG
66 TTACACTAGCTCTCGATCAA--T-GCCGATG
64248808 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
64248835 ACACATATCA
Statistics
Matches: 107, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
91 2 0.02
92 1 0.01
93 1 0.01
94 90 0.84
95 13 0.12
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCGATCAATGCCGATG
Found at i:64250435 original size:27 final size:27
Alignment explanation
Indices: 64250387--64250491 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
64250377 GCGAGGCTGC
* *
64250387 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
64250414 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
64250440 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
64250467 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
64250492 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 8 0.11
27 60 0.85
28 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:64261555 original size:23 final size:24
Alignment explanation
Indices: 64261503--64261560 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
64261493 AAAGGATGGA
*
64261503 CACATTTT-TTTTTCTTTTGTTTT
1 CACATTTTCTTTCTCTTTTGTTTT
*
64261526 CATCATTTTCTTTCTCTTTTTTTTT
1 CA-CATTTTCTTTCTCTTTTGTTTT
64261551 C-CA-TTTCTTT
1 CACATTTTCTTT
64261561 ATTACTAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 7 0.23
23 4 0.13
24 6 0.19
25 14 0.45
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.71
Consensus pattern (24 bp):
CACATTTTCTTTCTCTTTTGTTTT
Found at i:64264708 original size:27 final size:26
Alignment explanation
Indices: 64264678--64264773 Score: 113
Period size: 27 Copynumber: 3.6 Consensus size: 26
64264668 TAGAATAAAT
*
64264678 TGGCAGAACCACCAGATCAGATAATTG
1 TGGCAGAGCCACCAGA-CAGATAATTG
*
64264705 TGGCATAGCCACCAGGACAGAT-ATATG
1 TGGCAGAGCCACCA-GACAGATAAT-TG
*
64264732 TGGCAGATCCACCAGACAGATAAATTG
1 TGGCAGAGCCACCAGACAGAT-AATTG
*
64264759 TGGCATAGCCACCAG
1 TGGCAGAGCCACCAG
64264774 GACGCTTCCT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
26 9 0.15
27 46 0.78
28 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (26 bp):
TGGCAGAGCCACCAGACAGATAATTG
Found at i:64267772 original size:19 final size:19
Alignment explanation
Indices: 64267738--64267776 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
64267728 GATTTCGTAC
*
64267738 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCAGTTTCT-CGTT
64267758 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
64267776 T
1 T
64267777 CTTTCGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.03, C:0.28, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:64285898 original size:29 final size:28
Alignment explanation
Indices: 64285862--64285939 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
64285852 TCATGAGATT
64285862 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
64285892 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
64285919 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
64285940 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:64286157 original size:174 final size:174
Alignment explanation
Indices: 64285892--64286219 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
64285882 AAATTGTACA
64285892 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
64285957 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
64286022 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
64286066 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
64286131 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
64286196 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
64286220 ACCTTGAGTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:64287757 original size:49 final size:49
Alignment explanation
Indices: 64287649--64287761 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 49
64287639 CATCCCAGAT
* * * *
64287649 AGGTCTTACACTGACTTTCATATATCGATGTCGATGTCATGTTCTAGAC
1 AGGTCTTACACTGACTTTCATATATCGATGTCGATGCCATGTCCCAAAC
* * * *
64287698 AGGTCATACACTGGCTCTT-ATCTATCGGTGTCGATGCCATGTCCCAAAC
1 AGGTCTTACACTGACT-TTCATATATCGATGTCGATGCCATGTCCCAAAC
*
64287747 AGTTCTTACACTGAC
1 AGGTCTTACACTGAC
64287762 AAATAACAAG
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
49 50 0.96
50 2 0.04
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (49 bp):
AGGTCTTACACTGACTTTCATATATCGATGTCGATGCCATGTCCCAAAC
Found at i:64287878 original size:46 final size:48
Alignment explanation
Indices: 64287779--64287900 Score: 167
Period size: 46 Copynumber: 2.6 Consensus size: 48
64287769 AAGCTGACGC
* * * * *
64287779 CATGTCCCAGACGTGGTCTTACACTAGCTTGTATATCTCCAGGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTTCTACATCTCAAGGCCGATG
*
64287828 CATGTCCCAGACATGTCTTACACTAGC-TCT-CATCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCTACATCTCAAGGCCGATG
64287874 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
64287901 ACACATATCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
46 39 0.58
47 2 0.03
48 13 0.19
49 13 0.19
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCTACATCTCAAGGCCGATG
Found at i:64290766 original size:46 final size:46
Alignment explanation
Indices: 64290699--64290873 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
64290689 AACCCGCCCC
*
64290699 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTTGCATCCA
*
64290745 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG--T--TTGCATCCA
* * * ** *
64290793 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTTGCATCCA
* *
64290838 TAAGTGAACTCGGACACAACTCAACGAGTTCGGATG
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
64290874 CTCAACCATC
Statistics
Matches: 108, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 3 0.03
46 63 0.58
47 28 0.26
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTTGCATCCA
Found at i:64290811 original size:93 final size:93
Alignment explanation
Indices: 64290704--64290874 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
64290694 GCCCCTAAGT
*** * *
64290704 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACACAACTCAA
64290769 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
64290797 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACACAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACACAACTCAA
*
64290862 CGAGTTCGGATGC
66 CGAGCTCGGATGC
64290875 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACACAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:64299696 original size:27 final size:27
Alignment explanation
Indices: 64299666--64299843 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
64299656 ATATTGAGTC
* * * *
64299666 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
64299693 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
64299720 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
64299748 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
64299775 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
64299802 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
64299829 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
64299844 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:64299805 original size:82 final size:81
Alignment explanation
Indices: 64299687--64299842 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
64299677 TGCTATATAA
* *
64299687 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
64299752 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
64299769 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
64299833 CACTTAGTGC
65 CACTTAGTGC
64299843 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:64308252 original size:40 final size:40
Alignment explanation
Indices: 64308197--64308299 Score: 152
Period size: 40 Copynumber: 2.6 Consensus size: 40
64308187 ATTTGAATAC
*
64308197 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATAT
** *
64308237 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGGGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATAT
* *
64308277 ACCCGGGTTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCA
64308300 ATTGAGCTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.25, C:0.24, G:0.30, T:0.20
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGATAT
Found at i:64311537 original size:23 final size:23
Alignment explanation
Indices: 64311507--64311561 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
64311497 GATCTTACTA
64311507 TTTCAGCTCATTGGAGCATACCG
1 TTTCAGCTCATTGGAGCATACCG
*
64311530 TTTCAGCTCATTGGAGCTTACCG
1 TTTCAGCTCATTGGAGCATACCG
*
64311553 TTTTAGCTC
1 TTTCAGCTC
64311562 GTATGAGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (23 bp):
TTTCAGCTCATTGGAGCATACCG
Found at i:64311569 original size:23 final size:23
Alignment explanation
Indices: 64311511--64311584 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 23
64311501 TTACTATTTC
* *
64311511 AGCTCATTGGAGCATACCGTTTC
1 AGCTCATTGGAGCTTACCGTTTT
64311534 AGCTCATTGGAGCTTACCGTTTT
1 AGCTCATTGGAGCTTACCGTTTT
* *
64311557 AGCTCGTAT-GAGCTTACTG-TTT
1 AGCTCAT-TGGAGCTTACCGTTTT
64311579 AGCTCA
1 AGCTCA
64311585 ATACAGCTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
22 8 0.18
23 36 0.80
24 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (23 bp):
AGCTCATTGGAGCTTACCGTTTT
Found at i:64320530 original size:40 final size:40
Alignment explanation
Indices: 64320382--64320532 Score: 178
Period size: 40 Copynumber: 3.8 Consensus size: 40
64320372 GGATATAGCT
* * ** **
64320382 ACTCGCTC-AATGCCTTCGGGACATAGCCTAGATATCGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA
* * * * *
64320421 ACTCGCACCAATGCCTTCGGGACTTAACTCGAATATATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA
* *
64320461 ACTCGCACAAATGCCTTCGGGACTAAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA
64320501 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
64320533 TTATCATCCA
Statistics
Matches: 94, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 7 0.07
40 87 0.93
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA
Found at i:64331304 original size:29 final size:29
Alignment explanation
Indices: 64331261--64331335 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 29
64331251 TGAATGTGAC
*
64331261 TGGGCC-AACGGGCCATATA-AATGTAATT
1 TGGGCCTAATGGGCCATATACAA-GTAATT
*
64331289 TGGGCCTAATGGGCCATATACAAGTGATT
1 TGGGCCTAATGGGCCATATACAAGTAATT
64331318 TGGGCCTAATGGGCCATA
1 TGGGCCTAATGGGCCATA
64331336 CGGATATGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 6 0.14
29 35 0.81
30 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACAAGTAATT
Found at i:64331345 original size:29 final size:29
Alignment explanation
Indices: 64331261--64331361 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 29
64331251 TGAATGTGAC
* * *
64331261 TGGGCC-AACGGGCCATATA-AATGTAATT
1 TGGGCCTAATGGGCCATACACAA-GTGATT
*
64331289 TGGGCCTAATGGGCCATATACAAGTGATT
1 TGGGCCTAATGGGCCATACACAAGTGATT
**
64331318 TGGGCCTAATGGGCCATACGGATA-TGA-T
1 TGGGCCTAATGGGCCATACACA-AGTGATT
*
64331346 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
64331362 GATACAGGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
28 22 0.34
29 39 0.61
30 3 0.05
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATACACAAGTGATT
Found at i:64339028 original size:29 final size:28
Alignment explanation
Indices: 64338988--64339057 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 28
64338978 ATGTGACTGA
* *
64338988 GCCTAACGGGCCATATAAATGTGATTTGG
1 GCCTAATGGGCCATATAAATATGA-TTGG
*
64339017 GCCTAATGGGCCATATGAATATGATTGG
1 GCCTAATGGGCCATATAAATATGATTGG
*
64339045 GCTTAATGGGCCA
1 GCCTAATGGGCCA
64339058 AATACAGGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 16 0.43
29 21 0.57
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (28 bp):
GCCTAATGGGCCATATAAATATGATTGG
Found at i:64339053 original size:28 final size:28
Alignment explanation
Indices: 64338972--64339057 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
64338962 GTGAGCATGA
* * *
64338972 ATATGAATGTGACTGAGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
64339000 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
64339029 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
64339057 A
1 A
64339058 AATACAGGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 27 0.54
29 23 0.46
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:64347214 original size:40 final size:40
Alignment explanation
Indices: 64347159--64347299 Score: 198
Period size: 40 Copynumber: 3.6 Consensus size: 40
64347149 TACTCGGATG
64347159 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
64347199 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGTGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
64347239 ATATCCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
64347278 ATATCC-GGTTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
64347300 TACTTGGCTT
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
38 15 0.16
39 14 0.15
40 62 0.68
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:64354077 original size:37 final size:39
Alignment explanation
Indices: 64353995--64354079 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 39
64353985 GAAAATGACC
*
64353995 AAAGAACAAAGAAAAGTTCACTCAAATTCTGGAAAAAAT
1 AAAGAGCAAAGAAAAGTTCACTCAAATTCTGGAAAAAAT
* *
64354034 -AAGAGCAAAGAAAAGATT-GCTCAAATT-T-TAAAAAAT
1 AAAGAGCAAAGAAAAG-TTCACTCAAATTCTGGAAAAAAT
64354070 AAAGAGCAAA
1 AAAGAGCAAA
64354080 CTTTGCTCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 7 0.17
37 10 0.24
38 22 0.54
39 2 0.05
ACGTcount: A:0.58, C:0.11, G:0.14, T:0.18
Consensus pattern (39 bp):
AAAGAGCAAAGAAAAGTTCACTCAAATTCTGGAAAAAAT
Found at i:64356238 original size:42 final size:42
Alignment explanation
Indices: 64356174--64356327 Score: 184
Period size: 42 Copynumber: 3.6 Consensus size: 42
64356164 GAAGATTACG
*
64356174 TGTAAGACCATATCTGGGATATGGCATCGATGTGAGACTTCA
1 TGTAAGACCATATCTGGAATATGGCATCGATGTGAGACTTCA
*
64356216 TGTAAGACCATATCTGGAATATGGCATCGATGTGAGACTTCG
1 TGTAAGACCATATCTGGAATATGGCATCGATGTGAGACTTCA
* ** * ** *
64356258 TGTAAGACCATAGCTGGGCTATTGGCATTGAAATGAGA-TCCCA
1 TGTAAGACCATATCTGGAATA-TGGCATCGATGTGAGACT-TCA
* *
64356301 TGGAAGACCATATCTAGAATATGGCAT
1 TGTAAGACCATATCTGGAATATGGCAT
64356328 TGGTATGATA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 65 0.68
43 30 0.32
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATATCTGGAATATGGCATCGATGTGAGACTTCA
Found at i:64356314 original size:85 final size:84
Alignment explanation
Indices: 64356172--64356327 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 84
64356162 GTGAAGATTA
* ** * * *
64356172 CGTGTAAGACCATATCTGGGATATGGCATCGATGTGAGACTTCATGTAAGACCATATCTGGAATA
1 CGTGTAAGACCATAGCTGGGATATGGCATCGAAATGAGACTCCATGGAAGACCATATCTAGAATA
64356237 TGGCATCGATGTGAGACTT
66 TGGCATCGATGTGAGACTT
* *
64356256 CGTGTAAGACCATAGCTGGGCTATTGGCATTGAAATGAGA-TCCCATGGAAGACCATATCTAGAA
1 CGTGTAAGACCATAGCTGGGATA-TGGCATCGAAATGAGACT-CCATGGAAGACCATATCTAGAA
64356320 TATGGCAT
64 TATGGCAT
64356328 TGGTATGATA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 22 0.35
85 40 0.65
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (84 bp):
CGTGTAAGACCATAGCTGGGATATGGCATCGAAATGAGACTCCATGGAAGACCATATCTAGAATA
TGGCATCGATGTGAGACTT
Found at i:64361332 original size:43 final size:43
Alignment explanation
Indices: 64361247--64361362 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
64361237 TATTTTGAAC
* * * *
64361247 ACGTGTAAGACCATGTCT-GAGACATTGGCATCGTTATTTGATT
1 ACGTGTAAGACCATATCTAG-GACAGTGGCATCGATATGTGATT
* * *
64361290 TCGTGTAAGACCCTATCTAGGACAGTGGGATCGATATGTGATT
1 ACGTGTAAGACCATATCTAGGACAGTGGCATCGATATGTGATT
** *
64361333 ACACGTAAGACCATATCTAGGATA-TGGCAT
1 ACGTGTAAGACCATATCTAGGACAGTGGCAT
64361363 TGTACAAACT
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 5 0.08
43 53 0.90
44 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
ACGTGTAAGACCATATCTAGGACAGTGGCATCGATATGTGATT
Found at i:64366708 original size:32 final size:32
Alignment explanation
Indices: 64366662--64366726 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
64366652 TTTGGGTCAC
*
64366662 AACCCATAACAGAACCAATTGGACCT-AGCCCA
1 AACCCATAACAGAA-CAAGTGGACCTAAGCCCA
* *
64366694 AACCGATAACAGAACAAGTGGGCCTAAGCCCA
1 AACCCATAACAGAACAAGTGGACCTAAGCCCA
64366726 A
1 A
64366727 TACAGTGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 9 0.31
32 20 0.69
ACGTcount: A:0.42, C:0.31, G:0.17, T:0.11
Consensus pattern (32 bp):
AACCCATAACAGAACAAGTGGACCTAAGCCCA
Found at i:64367569 original size:27 final size:27
Alignment explanation
Indices: 64367501--64367667 Score: 173
Period size: 27 Copynumber: 6.2 Consensus size: 27
64367491 TTTACCCTAT
*
64367501 AGGGGTATTTTGGTAATTTTGC-ACTAC
1 AGGGGTATTTTGGTAATTTTACAACT-C
** * *
64367528 AAAGGTGTTTCGGTAATTTTACAAGCT-
1 AGGGGTATTTTGGTAATTTTACAA-CTC
64367555 AGGGGTATTTTGGTAATTTTACAATCTAC
1 AGGGGTATTTTGGTAATTTTACAA-CT-C
*
64367584 A--GGTATTTTGGTAATTTTACAAATC
1 AGGGGTATTTTGGTAATTTTACAACTC
* *
64367609 AGGAGTATTTTGGTAATTTTACAAATC
1 AGGGGTATTTTGGTAATTTTACAACTC
* *
64367636 AGGGGTATTTCGGTAATTTTACAAATC
1 AGGGGTATTTTGGTAATTTTACAACTC
64367663 -GGGGT
1 AGGGGT
64367668 CTTAACGACC
Statistics
Matches: 120, Mismatches: 14, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
25 2 0.02
26 6 0.05
27 108 0.90
28 1 0.01
29 3 0.03
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAACTC
Found at i:64367836 original size:35 final size:36
Alignment explanation
Indices: 64367785--64367859 Score: 134
Period size: 35 Copynumber: 2.1 Consensus size: 36
64367775 CCACACGCTC
64367785 GTGTGGCCCACTTAGCCCAAATTTAGATACAGTTAT
1 GTGTGGCCCACTTAGCCCAAATTTAGATACAGTTAT
*
64367821 GTGT-GCCCACTTAGCCCAAATTTAGATACGGTTAT
1 GTGTGGCCCACTTAGCCCAAATTTAGATACAGTTAT
64367856 GTGT
1 GTGT
64367860 ACACCATAGC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 34 0.89
36 4 0.11
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (36 bp):
GTGTGGCCCACTTAGCCCAAATTTAGATACAGTTAT
Found at i:64369206 original size:31 final size:31
Alignment explanation
Indices: 64369166--64369238 Score: 137
Period size: 31 Copynumber: 2.4 Consensus size: 31
64369156 GGTTAGGAAT
*
64369166 ACGGACGTGTGTGACCACACGGCCTACCCAC
1 ACGGGCGTGTGTGACCACACGGCCTACCCAC
64369197 ACGGGCGTGTGTGACCACACGGCCTACCCAC
1 ACGGGCGTGTGTGACCACACGGCCTACCCAC
64369228 ACGGGCGTGTG
1 ACGGGCGTGTG
64369239 GCTCTTAAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.19, C:0.36, G:0.32, T:0.14
Consensus pattern (31 bp):
ACGGGCGTGTGTGACCACACGGCCTACCCAC
Found at i:64373595 original size:49 final size:51
Alignment explanation
Indices: 64373479--64373605 Score: 204
Period size: 49 Copynumber: 2.5 Consensus size: 51
64373469 CAGATACCCG
*
64373479 GTGGCCTACACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAA
*
64373531 GTGGCCTTCACATAGTACCACACTTGTGACC-AAGCTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
*
64373580 GTGGCCTTCATATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
64373606 AGTCACTAGT
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
49 34 0.47
51 8 0.11
52 30 0.42
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
Found at i:64375302 original size:24 final size:24
Alignment explanation
Indices: 64375273--64375320 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
64375263 ACTTTTGAGA
64375273 TGTACTCTTATTTTATTATGAACT
1 TGTACTCTTATTTTATTATGAACT
64375297 TGTACTCTTATTTTATTATGAACT
1 TGTACTCTTATTTTATTATGAACT
64375321 AAACCCCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.54
Consensus pattern (24 bp):
TGTACTCTTATTTTATTATGAACT
Found at i:64375330 original size:24 final size:24
Alignment explanation
Indices: 64375279--64375326 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
64375269 GAGATGTACT
** *
64375279 CTTATTTTATTATGAACTTGTACT
1 CTTATTTTATTATGAACTTAAACC
64375303 CTTATTTTATTATGAAC-TAAACC
1 CTTATTTTATTATGAACTTAAACC
64375326 C
1 C
64375327 CTTAGATACC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (24 bp):
CTTATTTTATTATGAACTTAAACC
Found at i:64380548 original size:39 final size:40
Alignment explanation
Indices: 64380453--64380714 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
64380443 TTGAATGATG
*
64380453 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
64380491 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
64380532 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
64380571 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
64380610 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
64380649 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
64380688 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
64380715 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:64395301 original size:28 final size:28
Alignment explanation
Indices: 64395261--64395317 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
64395251 CTCGTTCAAC
64395261 AAGTACAACAAACTCTTTTATCTCTAGA
1 AAGTACAACAAACTCTTTTATCTCTAGA
64395289 AAGTACAACAAACTCTTTTATCTCTAGA
1 AAGTACAACAAACTCTTTTATCTCTAGA
64395317 A
1 A
64395318 TCCCAACTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (28 bp):
AAGTACAACAAACTCTTTTATCTCTAGA
Found at i:64397750 original size:42 final size:42
Alignment explanation
Indices: 64397662--64397811 Score: 185
Period size: 43 Copynumber: 3.5 Consensus size: 42
64397652 GCCAACATCT
* * * *
64397662 CAGACGTGGTCTTACATGTAATCAAATATCGATGCCGCTGTCC
1 CAGACATGGTCTTACACGAAATCAAATA-CGATGCCGATGTCC
*
64397705 CAGACAAGGTCTTACACGAAATCAAATACGATGCCGATGTCC
1 CAGACATGGTCTTACACGAAATCAAATACGATGCCGATGTCC
* * *
64397747 CAGACATGGTCGTACACATAAATCATAAGT-CGATGCCAATGTCC
1 CAGACATGGTCTTACAC-GAAATCA-AA-TACGATGCCGATGTCC
64397791 CAGACATGGTCTTACACGAAA
1 CAGACATGGTCTTACACGAAA
64397812 ACACATATTG
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
42 28 0.30
43 33 0.35
44 31 0.33
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (42 bp):
CAGACATGGTCTTACACGAAATCAAATACGATGCCGATGTCC
Found at i:64397793 original size:44 final size:41
Alignment explanation
Indices: 64397662--64397811 Score: 174
Period size: 44 Copynumber: 3.5 Consensus size: 41
64397652 GCCAACATCT
* * * *
64397662 CAGACGTGGTCTTACATGTAATCAAATATCGATGCCGCTGTCC
1 CAGACATGGTCTTACACGAAATC-AA-ATCGATGCCGATGTCC
*
64397705 CAGACAAGGTCTTACACGAAATCAAATACGATGCCGATGTCC
1 CAGACATGGTCTTACACGAAATCAAAT-CGATGCCGATGTCC
* * *
64397747 CAGACATGGTCGTACACATAAATCATAAGTCGATGCCAATGTCC
1 CAGACATGGTCTTACAC-GAAATCA-AA-TCGATGCCGATGTCC
64397791 CAGACATGGTCTTACACGAAA
1 CAGACATGGTCTTACACGAAA
64397812 ACACATATTG
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
41 2 0.02
42 30 0.33
43 28 0.30
44 31 0.34
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (41 bp):
CAGACATGGTCTTACACGAAATCAAATCGATGCCGATGTCC
Found at i:64400209 original size:63 final size:63
Alignment explanation
Indices: 64400136--64400262 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 63
64400126 TAAAAATATG
* *
64400136 TATAATTTATGGTTTATCGAGTACCCCGACACTTAAGCATTTGCTTGTCTTCAAGCAAAATTC
1 TATAATTTATGGTTTATCGAATACCCCCACACTTAAGCATTTGCTTGTCTTCAAGCAAAATTC
64400199 TATAATTTATGGTTTATCGAATACCCCCACACTTAAGCATTTGCTTGTCTTCAAGCAAAATTC
1 TATAATTTATGGTTTATCGAATACCCCCACACTTAAGCATTTGCTTGTCTTCAAGCAAAATTC
64400262 T
1 T
64400263 CAACTCATAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (63 bp):
TATAATTTATGGTTTATCGAATACCCCCACACTTAAGCATTTGCTTGTCTTCAAGCAAAATTC
Found at i:64401894 original size:12 final size:12
Alignment explanation
Indices: 64401873--64401904 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
64401863 TAAAATCTGC
*
64401873 TAAAAATAAAAA
1 TAAAAGTAAAAA
64401885 TAAAAGTAAAAA
1 TAAAAGTAAAAA
64401897 TAAAAGTA
1 TAAAAGTA
64401905 GTTTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (12 bp):
TAAAAGTAAAAA
Found at i:64412658 original size:26 final size:26
Alignment explanation
Indices: 64412622--64412673 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
64412612 ATTCTATTGC
*
64412622 TTACAACATTTCCTTTATATGAAAAT
1 TTACAACATTTCATTTATATGAAAAT
*
64412648 TTACACCATTTCATTTATATGAAAAT
1 TTACAACATTTCATTTATATGAAAAT
64412674 AGACTCAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.42
Consensus pattern (26 bp):
TTACAACATTTCATTTATATGAAAAT
Found at i:64412877 original size:12 final size:12
Alignment explanation
Indices: 64412860--64412884 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64412850 CTTACCAAAG
64412860 TTTGATCACATA
1 TTTGATCACATA
64412872 TTTGATCACATA
1 TTTGATCACATA
64412884 T
1 T
64412885 CGAGCACATT
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:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTGATCACATA
Found at i:64413115 original size:52 final size:51
Alignment explanation
Indices: 64413009--64413178 Score: 238
Period size: 52 Copynumber: 3.4 Consensus size: 51
64412999 CGGTAGTCTG
* * * *
64413009 CACATAGTACCACCCTTGT-AGTCAAAGTTACCTTCTTCACAAAGTGGCCTT
1 CACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAAAGTGGCCTT
64413060 CACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAGTGGCCTT
1 CACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAAGTGGCCTT
* * *
64413112 CACATAGTACCACACTTGTGACC-AAGCTATC-TCTTCTCATAGTGGCATT
1 CACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAAGTGGCCTT
64413161 CACATAGTACCACACTTG
1 CACATAGTACCACACTTG
64413179 AGTCACTAGT
Statistics
Matches: 110, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
49 33 0.30
51 34 0.31
52 43 0.39
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (51 bp):
CACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAAGTGGCCTT
Found at i:64416795 original size:17 final size:18
Alignment explanation
Indices: 64416762--64416809 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
64416752 GTTTTTAATC
64416762 CGTTTTTGATAATTTTTA
1 CGTTTTTGATAATTTTTA
64416780 CGTTTTTGATAATTTTTA
1 CGTTTTTGATAATTTTTA
*
64416798 CTTTTTTG-TAAT
1 CGTTTTTGATAAT
64416810 CGTTCTTTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.21, C:0.06, G:0.10, T:0.62
Consensus pattern (18 bp):
CGTTTTTGATAATTTTTA
Found at i:64430335 original size:38 final size:38
Alignment explanation
Indices: 64430293--64430416 Score: 99
Period size: 38 Copynumber: 3.1 Consensus size: 38
64430283 AATATGCAAC
64430293 AACTTTAAGTAACCCAGAAGAAAACAATTGAAGGCACG
1 AACTTTAAGTAACCCAGAAGAAAACAATTGAAGGCACG
* ** * * * * *
64430331 AACTTGATAACTAAGAGATCATAAGACAAGAA-TAATATGCAAC-
1 AACTT--TAAGT-A-A-CCCAGAAGAAAACAATTGA-AGGC-ACG
64430374 AACTTTAAGTAACCCAGAAGAAAACAATTGAAGGCACG
1 AACTTTAAGTAACCCAGAAGAAAACAATTGAAGGCACG
64430412 AACTT
1 AACTT
64430417 GATAACTAGG
Statistics
Matches: 61, Mismatches: 16, Indels: 18
0.64 0.17 0.19
Matches are distributed among these distances:
37 2 0.03
38 23 0.38
39 3 0.05
40 5 0.08
41 5 0.08
42 3 0.05
43 18 0.30
44 2 0.03
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (38 bp):
AACTTTAAGTAACCCAGAAGAAAACAATTGAAGGCACG
Found at i:64430418 original size:81 final size:81
Alignment explanation
Indices: 64430283--64430443 Score: 313
Period size: 81 Copynumber: 2.0 Consensus size: 81
64430273 CAGCCTCCAC
64430283 AATATGCAACAACTTTAAGTAACCCAGAAGAAAACAATTGAAGGCACGAACTTGATAACTAAGAG
1 AATATGCAACAACTTTAAGTAACCCAGAAGAAAACAATTGAAGGCACGAACTTGATAACTAAGAG
64430348 ATCATAAGACAAGAAT
66 ATCATAAGACAAGAAT
*
64430364 AATATGCAACAACTTTAAGTAACCCAGAAGAAAACAATTGAAGGCACGAACTTGATAACTAGGAG
1 AATATGCAACAACTTTAAGTAACCCAGAAGAAAACAATTGAAGGCACGAACTTGATAACTAAGAG
64430429 ATCATAAGACAAGAA
66 ATCATAAGACAAGAA
64430444 AGAGTTGCTG
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (81 bp):
AATATGCAACAACTTTAAGTAACCCAGAAGAAAACAATTGAAGGCACGAACTTGATAACTAAGAG
ATCATAAGACAAGAAT
Found at i:64444951 original size:29 final size:28
Alignment explanation
Indices: 64444904--64445001 Score: 90
Period size: 27 Copynumber: 3.5 Consensus size: 28
64444894 CATGAGATTG
* * **
64444904 GCACTAAGTGTACGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-AATTACACA
* *
64444933 GCACTAAGTGTGCGAGTTTGATTACATA
1 GCACTAAGTGTGCGAGTTTAATTACACA
* * *
64444961 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTACACA
*
64444988 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
64445002 GACTTAATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 23 0.38
28 21 0.34
29 17 0.28
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTACACA
Found at i:64444988 original size:27 final size:28
Alignment explanation
Indices: 64444932--64445001 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
64444922 TAAATTGTAC
64444932 AGCACTAAGTGTGCGAGTTTGATTACAT
1 AGCACTAAGTGTGCGAGTTTGATTACAT
*
64444960 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTACAT
*
64444987 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
64445002 GACTTAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTACAT
Found at i:64445012 original size:27 final size:27
Alignment explanation
Indices: 64444932--64445014 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
64444922 TAAATTGTAC
* * *
64444932 AGCACTAAGTGTGCGAGTTTGATTACAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
64444960 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
64444987 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
64445014 A
1 A
64445015 CTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:64453055 original size:27 final size:28
Alignment explanation
Indices: 64452971--64453068 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
64452961 CATGAGATTG
* * *
64452971 GCACTAAGTGTGC-AGGTTTAAATTGTACA
1 GCACTAAGTGTGCGA-GTTT-GATTATATA
64453000 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
64453028 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
64453055 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
64453069 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 17 0.27
30 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:64453079 original size:27 final size:27
Alignment explanation
Indices: 64452999--64453081 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
64452989 TAAATTGTAC
* *
64452999 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
64453027 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
64453054 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
64453081 A
1 A
64453082 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:64453082 original size:29 final size:27
Alignment explanation
Indices: 64452971--64453082 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
64452961 CATGAGATTG
** * *
64452971 GCACTAAGTGTGCAGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
64453000 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
64453028 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
64453055 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
64453083 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:64458270 original size:27 final size:25
Alignment explanation
Indices: 64458231--64458386 Score: 141
Period size: 27 Copynumber: 5.8 Consensus size: 25
64458221 ATACCCCCAG
64458231 TTGTAAAATTACCAAAGTACCCTCAGT
1 TTGTAAAATTACCAAA-TACCCTC-GT
*
64458258 TTATAAAATTACCCAAATACCCTCGAT
1 TTGTAAAATTA-CCAAATACCCTCG-T
* * * *
64458285 TTGTAAAAATATCGAAATACCGTCGA
1 TTGTAAAATTA-CCAAATACCCTCGT
* *
64458311 TTGTAAAATTACTAAAATACCTTCGAT
1 TTGTAAAATTAC-CAAATACCCTCG-T
64458338 TTGTAAAATTACCGAAATACCCTCAGT
1 TTGTAAAATTACC-AAATACCCTC-GT
* *
64458365 TTGCAAAATTACTGAAATACCC
1 TTGTAAAATTAC-CAAATACCC
64458387 CTGTAGGGTA
Statistics
Matches: 107, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
25 1 0.01
26 21 0.20
27 79 0.74
28 6 0.06
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (25 bp):
TTGTAAAATTACCAAATACCCTCGT
Found at i:64458318 original size:53 final size:54
Alignment explanation
Indices: 64458210--64458386 Score: 198
Period size: 53 Copynumber: 3.3 Consensus size: 54
64458200 TTAGTTTACC
* * * * *
64458210 AAATTACTAAAATACCC-CCAGTTGTAAAATTACC-AAAGTACCCTCAGTTTATA
1 AAATTACTAAAATACCCTCGATTTGTAAAAATACCGAAA-TACCCTCAGATTGTA
** * *
64458263 AAATTACCCAAATACCCTCGATTTGTAAAAATATCGAAATACCGTC-GATTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAAATACCGAAATACCCTCAGATTGTA
* * * *
64458316 AAATTACTAAAATACCTTCGATTTGTAAAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACTAAAATACCCTCGATTTGTAAAAATACCGAAATACCCTCAGATTGTA
*
64458370 AAATTACTGAAATACCC
1 AAATTACTAAAATACCC
64458387 CTGTAGGGTA
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
53 60 0.59
54 39 0.38
55 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (54 bp):
AAATTACTAAAATACCCTCGATTTGTAAAAATACCGAAATACCCTCAGATTGTA
Found at i:64458382 original size:80 final size:80
Alignment explanation
Indices: 64458231--64458385 Score: 199
Period size: 80 Copynumber: 1.9 Consensus size: 80
64458221 ATACCCCCAG
* *
64458231 TTGTAAAATTACCAAAGTACCCTCAGTTTATAAAATTACCCAAATACCCTCGATTTGTAAAAATA
1 TTGTAAAATTACCAAAATACCCTCAGTTTATAAAATTACCCAAATACCCTCGATTTGCAAAAATA
64458296 TCGAAATACCGTCGA
66 TCGAAATACCGTCGA
* * * * *
64458311 TTGTAAAATTACTAAAATACCTTC-GATTTGTAAAATTACCGAAATACCCTC-AGTTTGCAAAAT
1 TTGTAAAATTACCAAAATACCCTCAG-TTTATAAAATTACCCAAATACCCTCGA-TTTGCAAAAA
64458374 TA-CTGAAATACC
64 TATC-GAAATACC
64458386 CCTGTAGGGT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
79 3 0.05
80 62 0.95
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (80 bp):
TTGTAAAATTACCAAAATACCCTCAGTTTATAAAATTACCCAAATACCCTCGATTTGCAAAAATA
TCGAAATACCGTCGA
Found at i:64458401 original size:27 final size:27
Alignment explanation
Indices: 64458371--64458593 Score: 293
Period size: 27 Copynumber: 8.3 Consensus size: 27
64458361 CAGTTTGCAA
*
64458371 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
64458398 AATTACTGAAATAACCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
64458425 AATTACCAAAATAACCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
64458452 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
64458479 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
64458506 AATTACAGAAATACCCTTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
64458533 AAATACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
64458560 AATTACCGAGATACCCCTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
64458587 AATTACC
1 AATTACC
64458594 ATTTTGCCCC
Statistics
Matches: 173, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 173 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:64458402 original size:54 final size:54
Alignment explanation
Indices: 64458344--64458594 Score: 278
Period size: 54 Copynumber: 4.6 Consensus size: 54
64458334 CGATTTGTAA
** * **
64458344 AATTACCGAAATACCCTCAGT-TTGCAAAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCT-AGTAGGGTAAAATTACCAAAATACCCCTGTAGGGTAG
* * *
64458398 AATTACTGAAATAACCCT-GTAGGGTAGAATTACCAAAATAACCCTGTAGGGTAG
1 AATTACCGAAAT-ACCCTAGTAGGGTAAAATTACCAAAATACCCCTGTAGGGTAG
* *
64458452 AATTACCGAAATACCCCTA-TAGGGTAGAATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTAGTAGGGTAAAATTACCAAAATACCCCTGTAGGGTAG
* * * *
64458506 AATTACAGAAATACCCTTGTATGGTAGAAA-TACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTAGTAGGGTA-AAATTACCAAAATACCCCTGTAGGGTAG
* *
64458560 AATTACCGAGATACCCCT-GTGGGGTAAAATTACCA
1 AATTACCGAAATA-CCCTAGTAGGGTAAAATTACCA
64458595 TTTTGCCCCT
Statistics
Matches: 168, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
53 10 0.06
54 147 0.88
55 11 0.07
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.25
Consensus pattern (54 bp):
AATTACCGAAATACCCTAGTAGGGTAAAATTACCAAAATACCCCTGTAGGGTAG
Found at i:64458430 original size:81 final size:80
Alignment explanation
Indices: 64458344--64458593 Score: 297
Period size: 81 Copynumber: 3.1 Consensus size: 80
64458334 CGATTTGTAA
* * *
64458344 AATTACCGAAATACCCTCAGT-TTGCAAAATTACTGAAATACCCCTGTAGGGTAGAATTACTGAA
1 AATTACCGAAATACCCT--GTATGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAA
*
64458408 ATAACCCTGTAGGGTAG
64 ATACCCCTGTAGGGTAG
* * * * *
64458425 AATTACCAAAATAACCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTAAAA
1 AATTACCGAAAT-ACCCTGTATGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
64458490 TACCCCTGTAGGGTAG
65 TACCCCTGTAGGGTAG
* * * * *
64458506 AATTACAGAAATACCCTTGTATGGTAGAAA-TACCAAAATACCCTTGTAGGGTAGAATTACCGAG
1 AATTACCGAAATACCC-TGTATGGTA-AAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAA
* *
64458570 ATACCCCTGTGGGGTAA
64 ATACCCCTGTAGGGTAG
64458587 AATTACC
1 AATTACC
64458594 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
80 6 0.04
81 130 0.91
82 7 0.05
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.25
Consensus pattern (80 bp):
AATTACCGAAATACCCTGTATGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAAT
ACCCCTGTAGGGTAG
Found at i:64458833 original size:24 final size:25
Alignment explanation
Indices: 64458806--64458864 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
64458796 AAAAGGGCTA
**
64458806 TGCCCCAGTTTA-CCGAAAGGACCT
1 TGCCCCAGTTTATCAAAAAGGACCT
* *
64458830 TGCCCCAGTTTATCAAAAAGGGCTT
1 TGCCCCAGTTTATCAAAAAGGACCT
64458855 TGCCCCAGTT
1 TGCCCCAGTT
64458865 ATTAAAAGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 12 0.40
25 18 0.60
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (25 bp):
TGCCCCAGTTTATCAAAAAGGACCT
Found at i:64458877 original size:24 final size:25
Alignment explanation
Indices: 64458796--64458864 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 25
64458786 AGGAAGTGCT
* *
64458796 AAAAGGGCTATGCCCCAGTTTA-CC
1 AAAAGGGCTTTGCCCCAGTTTATCA
* * *
64458820 GAAAGGACCTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
64458845 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
64458865 ATTAAAAGAG
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 18 0.50
25 18 0.50
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:64459162 original size:31 final size:31
Alignment explanation
Indices: 64459085--64459197 Score: 135
Period size: 31 Copynumber: 3.7 Consensus size: 31
64459075 CGTTTACAGT
*
64459085 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
64459116 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
** * * *
64459147 AAAGGCTTCAACCCAGTAACA-G-TTAAATG-
1 AAAGGCTTCGGCCCAGTGATATGATT-TATGA
64459176 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
64459198 TCAAGACTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.03
29 18 0.25
30 4 0.06
31 47 0.66
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:64461092 original size:141 final size:141
Alignment explanation
Indices: 64460838--64461106 Score: 511
Period size: 141 Copynumber: 1.9 Consensus size: 141
64460828 GGCAAGTAGC
64460838 GTGTGGAGCATCTGAGGGGAGGCATGGCTTCGAATCCCATGGCAAGCAAGGAGCATTTATTTTGC
1 GTGTGGAGCATCTGAGGGGAGGCATGGCTTCGAATCCCATGGCAAGCAAGGAGCATTTATTTTGC
64460903 TAACAGGGGGCAGCAAGAGTTGGTGTTGAATTTAAACTCTGATGTTGGAGGGATCCCACATCGGG
66 TAACAGGGGGCAGCAAGAGTTGGTGTTGAATTTAAACTCTGATGTTGGAGGGATCCCACATCGGG
64460968 AAGCTAACATA
131 AAGCTAACATA
* *
64460979 GTGTGGAGCATTTGAGGGGAGGCATGGCTTCGAATCCCATGGCAAGTAAGGAGCATTTATTTTGC
1 GTGTGGAGCATCTGAGGGGAGGCATGGCTTCGAATCCCATGGCAAGCAAGGAGCATTTATTTTGC
*
64461044 TAACAGGGGGCGGCAAGAGTTGGTGTTGAATTTAAACTCTGATGTTGGAGGGATCCCACATCG
66 TAACAGGGGGCAGCAAGAGTTGGTGTTGAATTTAAACTCTGATGTTGGAGGGATCCCACATCG
64461107 NNNNNNNNNN
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
141 125 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (141 bp):
GTGTGGAGCATCTGAGGGGAGGCATGGCTTCGAATCCCATGGCAAGCAAGGAGCATTTATTTTGC
TAACAGGGGGCAGCAAGAGTTGGTGTTGAATTTAAACTCTGATGTTGGAGGGATCCCACATCGGG
AAGCTAACATA
Found at i:64470660 original size:27 final size:26
Alignment explanation
Indices: 64470600--64470750 Score: 155
Period size: 27 Copynumber: 5.6 Consensus size: 26
64470590 TTAGTTTACC
* *
64470600 AAATTACTAAAATACCCCCAG-TTGTA
1 AAATTAC-CAAATACCCTCAGTTTGTA
*
64470626 AAATTACCAAAGTACCCTCAGTTTATA
1 AAATTACCAAA-TACCCTCAGTTTGTA
64470653 AAATTACCCAAATACCCTC-GATTTGTA
1 AAATTA-CCAAATACCCTCAG-TTTGTA
*
64470680 AAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACC-AAATACCCTCAGTTTGTA
*
64470707 AAATTACTGAAATACCCTC-GATTTGTA
1 AAATTAC-CAAATACCCTCAG-TTTGTA
*
64470734 AAATTACTGAAATACCC
1 AAATTAC-CAAATACCC
64470751 CTGTAGGGTA
Statistics
Matches: 110, Mismatches: 7, Indels: 15
0.83 0.05 0.11
Matches are distributed among these distances:
25 3 0.03
26 19 0.17
27 82 0.75
28 6 0.05
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (26 bp):
AAATTACCAAATACCCTCAGTTTGTA
Found at i:64470699 original size:54 final size:54
Alignment explanation
Indices: 64470592--64470750 Score: 205
Period size: 54 Copynumber: 3.0 Consensus size: 54
64470582 AGAATACTTT
* ** * *
64470592 AGTTTACCAAATTACTAAAATACCC-CCAGTTGTAAAATTACC-AAAGTACCCTC
1 AGTTTACAAAATTACCCAAATACCCTCGATTTGTAAAATTACCGAAA-TACCCTC
*
64470645 AGTTTATAAAATTACCCAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC
1 AGTTTACAAAATTACCCAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC
* ** *
64470699 AGTTTGCAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGAAATACCC
1 AGTTTACAAAATTACCCAAATACCCTCGATTTGTAAAATTACCGAAATACCC
64470751 CTGTAGGGTA
Statistics
Matches: 93, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 21 0.23
54 69 0.74
55 3 0.03
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (54 bp):
AGTTTACAAAATTACCCAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC
Found at i:64470736 original size:81 final size:80
Alignment explanation
Indices: 64470600--64470750 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 80
64470590 TTAGTTTACC
* *
64470600 AAATTACTAAAATACCCCCAGTTGTAAAATTACCAAAGTACCCTCAGTTTATAAAATTACCCAAA
1 AAATTACCAAAATACCCCCAGTTGCAAAATTACCAAAGTACCCTCAGTTTATAAAATTACCCAAA
64470665 TACCCTCGATTTGTA
66 TACCCTCGATTTGTA
* * * * **
64470680 AAATTACCGAAATACCCTCAGTTTGCAAAATTACTGAAA-TACCCTC-GATTTGTAAAATTACTG
1 AAATTACCAAAATACCCCCAG-TTGCAAAATTAC-CAAAGTACCCTCAG-TTTATAAAATTACCC
64470743 AAATACCC
63 AAATACCC
64470751 CTGTAGGGTA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
80 19 0.32
81 38 0.63
82 3 0.05
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (80 bp):
AAATTACCAAAATACCCCCAGTTGCAAAATTACCAAAGTACCCTCAGTTTATAAAATTACCCAAA
TACCCTCGATTTGTA
Found at i:64470765 original size:27 final size:27
Alignment explanation
Indices: 64470735--64470902 Score: 201
Period size: 27 Copynumber: 6.2 Consensus size: 27
64470725 CGATTTGTAA
64470735 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
64470762 AATTACTGAAATAACCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
64470789 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** * * *
64470816 AATTACAAAAATGCCCTTGTATGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
64470843 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
64470870 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
64470897 AATTAC
1 AATTAC
64470903 CATTTTGCCC
Statistics
Matches: 121, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:64470766 original size:54 final size:55
Alignment explanation
Indices: 64470662--64470903 Score: 212
Period size: 54 Copynumber: 4.5 Consensus size: 55
64470652 AAAATTACCC
* * ** * *
64470662 AAATACCCTCGAT-TTGTAAAATTACCGAAATACCCTCAGT-TTGCAAAATTACTG
1 AAATACCCTCGATATGGTAAAATTACCGAAATACCC-CTGTAGGGTAGAATTACTG
* *
64470716 AAATACCCTCGAT-TTGTAAAATTACTGAAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCTCGATATGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACTG
* * * * **
64470770 AAATAACCCT--ATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACAA
1 AAAT-ACCCTCGATATGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACTG
* * *
64470824 AAATGCCCTTG-TATGGTAGAAA-TACCGAAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTCGATATGGTA-AAATTACCGAAATACCCCTGTAGGGTAGAATTACTG
* * **
64470878 AGATACCCTTG-TGGGGTAAAATTACC
1 AAATACCCTCGATATGGTAAAATTACC
64470904 ATTTTGCCCC
Statistics
Matches: 158, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
53 12 0.08
54 139 0.88
55 7 0.04
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (55 bp):
AAATACCCTCGATATGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACTG
Found at i:64470793 original size:81 final size:81
Alignment explanation
Indices: 64470708--64470902 Score: 221
Period size: 81 Copynumber: 2.4 Consensus size: 81
64470698 CAGTTTGCAA
** ** * *
64470708 AATTACTGAAATACCCTCG-ATTTGTAAAATTACTGAAATACCCCTGTAGGGTAGAATTACTGAA
1 AATTACTGAAATACCCTCGTA-GGGTAAAATTACAAAAATACCCCTGTAGGGTAGAAATACCGAA
64470772 ATAACCCTATAGGGTAG
65 ATAACCCTATAGGGTAG
* * * * *
64470789 AATTACTGAAATACCCTTGTAGGGTAGAATTACAAAAATGCCCTTGTATGGTAGAAATACCGAAA
1 AATTACTGAAATACCCTCGTAGGGTAAAATTACAAAAATACCCCTGTAGGGTAGAAATACCGAAA
* *
64470854 TACCCCTGTAGGGTAG
66 TAACCCTATAGGGTAG
* * * *
64470870 AATTACCGAGATACCCTTGTGGGGTAAAATTAC
1 AATTACTGAAATACCCTCGTAGGGTAAAATTAC
64470903 CATTTTGCCC
Statistics
Matches: 96, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 95 0.99
82 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (81 bp):
AATTACTGAAATACCCTCGTAGGGTAAAATTACAAAAATACCCCTGTAGGGTAGAAATACCGAAA
TAACCCTATAGGGTAG
Found at i:64470912 original size:81 final size:81
Alignment explanation
Indices: 64470731--64470902 Score: 227
Period size: 81 Copynumber: 2.1 Consensus size: 81
64470721 CCCTCGATTT
** * * * * *
64470731 GTAAAATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATAACCCTATAGGGTAGAATTACT
1 GTAAAATTACAAAAATGCCCTTGTAGGGTAGAAATACCGAAATAACCCTATAGGGTAGAATTACC
64470796 GAAATACCCTTGTAGG
66 GAAATACCCTTGTAGG
* * * *
64470812 GTAGAATTACAAAAATGCCCTTGTATGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACC
1 GTAAAATTACAAAAATGCCCTTGTAGGGTAGAAATACCGAAATAACCCTATAGGGTAGAATTACC
* *
64470877 GAGATACCCTTGTGGG
66 GAAATACCCTTGTAGG
64470893 GTAAAATTAC
1 GTAAAATTAC
64470903 CATTTTGCCC
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (81 bp):
GTAAAATTACAAAAATGCCCTTGTAGGGTAGAAATACCGAAATAACCCTATAGGGTAGAATTACC
GAAATACCCTTGTAGG
Found at i:64471181 original size:24 final size:25
Alignment explanation
Indices: 64471131--64471181 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
64471121 CAGTTTACCG
64471131 AAAGGACTTTGCCCCAGTTTATTAA
1 AAAGGACTTTGCCCCAGTTTATTAA
* *
64471156 AAAGGGCTTTGCCCTAG-TTATTAA
1 AAAGGACTTTGCCCCAGTTTATTAA
64471180 AA
1 AA
64471182 GAGGCTAGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (25 bp):
AAAGGACTTTGCCCCAGTTTATTAA
Found at i:64471187 original size:24 final size:25
Alignment explanation
Indices: 64471106--64471181 Score: 84
Period size: 24 Copynumber: 3.1 Consensus size: 25
64471096 AGGAAGTGCT
* **
64471106 AAAAGGGCTATGCCCCAGTTTA-CC
1 AAAAGGGCTTTGCCCCAGTTTATTA
* *
64471130 GAAAGGACTTTGCCCCAGTTTATTA
1 AAAAGGGCTTTGCCCCAGTTTATTA
*
64471155 AAAAGGGCTTTGCCCTAG-TTATTA
1 AAAAGGGCTTTGCCCCAGTTTATTA
64471179 AAA
1 AAA
64471182 GAGGCTAGGC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 28 0.65
25 15 0.35
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTA
Found at i:64471389 original size:31 final size:31
Alignment explanation
Indices: 64471351--64471421 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
64471341 CGTTTACAGT
64471351 AAAGGCTTCGACCCAATGATATGATTCATGA
1 AAAGGCTTCGACCCAATGATATGATTCATGA
* * *
64471382 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGACCCAATGATATGATTCATGA
64471413 AAAGGCTTC
1 AAAGGCTTC
64471422 AGCCCAGTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGACCCAATGATATGATTCATGA
Found at i:64471427 original size:31 final size:30
Alignment explanation
Indices: 64471351--64471429 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 30
64471341 CGTTTACAGT
*
64471351 AAAGGCTTCGACCCAATGATATGATTCATGA
1 AAAGGCTTCG-CCCAGTGATATGATTCATGA
*
64471382 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTC-GCCCAGTGATATGATTCATGA
64471413 AAAGGCTTCAGCCCAGT
1 AAAGGCTTC-GCCCAGT
64471430 AACCGTTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 43 0.98
32 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (30 bp):
AAAGGCTTCGCCCAGTGATATGATTCATGA
Found at i:64473828 original size:22 final size:23
Alignment explanation
Indices: 64473780--64473828 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
64473770 ACTATAAATA
*
64473780 CCATCCCTCACTTCTCACTCAAT
1 CCATCCCTCACTACTCACTCAAT
64473803 -CATCCCTCA-TCACTCACT-AAT
1 CCATCCCTCACT-ACTCACTCAAT
64473824 CCATC
1 CCATC
64473829 TATACATTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.24, C:0.47, G:0.00, T:0.29
Consensus pattern (23 bp):
CCATCCCTCACTACTCACTCAAT
Found at i:64481287 original size:17 final size:17
Alignment explanation
Indices: 64481244--64481300 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
64481234 TAATCACTTT
64481244 AATATTAAATT-A-ATA
1 AATATTAAATTAAGATA
64481259 AA-A-TACAATTAAGATA
1 AATATTA-AATTAAGATA
* *
64481275 AATATTAAATTAAGTTT
1 AATATTAAATTAAGATA
64481292 AATATTAAA
1 AATATTAAA
64481301 ATATTAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
13 2 0.06
14 5 0.14
15 3 0.09
16 5 0.14
17 18 0.51
18 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (17 bp):
AATATTAAATTAAGATA
Found at i:64482547 original size:21 final size:20
Alignment explanation
Indices: 64482521--64482559 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
64482511 GAGTATTTTG
64482521 ATGTTTGGTGATAGATTATGA
1 ATGTTTGGTGATAG-TTATGA
*
64482542 ATGTTTGTTGATAGTTAT
1 ATGTTTGGTGATAGTTAT
64482560 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (20 bp):
ATGTTTGGTGATAGTTATGA
Found at i:64486783 original size:23 final size:23
Alignment explanation
Indices: 64486757--64486814 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
64486747 ATCCTAAGAA
*
64486757 CTCGTCGGACAAGTATTCCCCAC
1 CTCGTCAGACAAGTATTCCCCAC
* *
64486780 CTCGGCCAGACCAGTATTCCCCAC
1 CTC-GTCAGACAAGTATTCCCCAC
64486804 CTCGTTCAGAC
1 CTCG-TCAGAC
64486815 CGAAGATTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 4 0.14
24 25 0.86
ACGTcount: A:0.21, C:0.41, G:0.17, T:0.21
Consensus pattern (23 bp):
CTCGTCAGACAAGTATTCCCCAC
Found at i:64489806 original size:50 final size:50
Alignment explanation
Indices: 64489665--64489811 Score: 179
Period size: 50 Copynumber: 2.9 Consensus size: 50
64489655 ATCTATTGTG
* **
64489665 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
64489715 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCGGATAATT
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
64489765 -GGTTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 AGG-TCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
64489812 GCTTTGGCTA
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
49 2 0.03
50 78 0.98
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:64492830 original size:15 final size:15
Alignment explanation
Indices: 64492810--64492869 Score: 77
Period size: 15 Copynumber: 4.0 Consensus size: 15
64492800 TCGTATATTA
*
64492810 GGTTTCTTTACTCTG
1 GGTTTCTTTATTCTG
64492825 GGTTTCTTTATTCTG
1 GGTTTCTTTATTCTG
*
64492840 GGTTTCTCTA-TCTTG
1 GGTTTCTTTATTC-TG
*
64492855 GATTTCTTTATTCTG
1 GGTTTCTTTATTCTG
64492870 TTTTCTTGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 2 0.05
15 35 0.90
16 2 0.05
ACGTcount: A:0.08, C:0.17, G:0.18, T:0.57
Consensus pattern (15 bp):
GGTTTCTTTATTCTG
Found at i:64492844 original size:30 final size:30
Alignment explanation
Indices: 64492810--64492869 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
64492800 TCGTATATTA
* *
64492810 GGTTTCTTTA-CTCTGGGTTTCTTTATTCTG
1 GGTTTCTCTATCT-TGGATTTCTTTATTCTG
64492840 GGTTTCTCTATCTTGGATTTCTTTATTCTG
1 GGTTTCTCTATCTTGGATTTCTTTATTCTG
64492870 TTTTCTTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.08, C:0.17, G:0.18, T:0.57
Consensus pattern (30 bp):
GGTTTCTCTATCTTGGATTTCTTTATTCTG
Found at i:64495097 original size:50 final size:49
Alignment explanation
Indices: 64494971--64495159 Score: 207
Period size: 50 Copynumber: 3.8 Consensus size: 49
64494961 TGAAGTCGCA
* * * *
64494971 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACG
* * *
64495022 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGATTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * * * * *
64495072 TGTGTAGTACTAAGTGCAGGTTACTACATGTGCCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
64495121 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
64495160 GCTTTGGCTA
Statistics
Matches: 114, Mismatches: 24, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
49 37 0.32
50 43 0.38
51 34 0.30
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:64497410 original size:17 final size:17
Alignment explanation
Indices: 64497380--64497417 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
64497370 AAAGACTTAG
*
64497380 TTAGTTTCTTCTT-CCC
1 TTAGTTTCTACTTCCCC
64497396 TTAGCTTTCTACTTCCCC
1 TTAG-TTTCTACTTCCCC
64497414 TTAG
1 TTAG
64497418 AGGACAAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 8 0.42
18 7 0.37
ACGTcount: A:0.11, C:0.32, G:0.08, T:0.50
Consensus pattern (17 bp):
TTAGTTTCTACTTCCCC
Found at i:64498779 original size:48 final size:47
Alignment explanation
Indices: 64498724--64498901 Score: 189
Period size: 48 Copynumber: 3.7 Consensus size: 47
64498714 ACATTATGAG
* * *
64498724 AGCCAGTGTAAAACATGTCTAGGACATACATCGGCCTCGAGAGATACA
1 AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACA-ACA
* * * *
64498772 AGCCAGTGTAATACATG-CTTAGGACATGCATCGGCATTGAGACAA-G
1 AGCCAGTGTAAGACATGTC-TAGGACATGCATCGGCCTCGAGACAACA
* * *
64498818 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAAACA
1 AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGA-CAACA
* * *
64498866 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCGGC
1 AGCCAGTGTAAGACATGTCTAGGACAT-GCATCGGC
64498902 ACCAATAGAT
Statistics
Matches: 111, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
46 35 0.32
47 5 0.05
48 63 0.57
49 8 0.07
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (47 bp):
AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACAACA
Found at i:64498843 original size:46 final size:46
Alignment explanation
Indices: 64498680--64498902 Score: 175
Period size: 48 Copynumber: 4.8 Consensus size: 46
64498670 TGATATGTGT
* ** ** **
64498680 GCTAGTGTAAGACACGTCTGGGACATGCATCACCA-C-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAAACA-A
* * * * *
64498725 GCCAGTGTAAAACATGTCTAGGACATACATCGGCCTCGAGAGATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGA-A-ACAA
* * * * *
64498773 GCCAGTGTAATACATG-CTTAGGACATGCATCGGCATTGAGACAA-GA
1 GCTAGTGTAAGACATGTC-TGGGACATGCATCGGCATCGAGA-AACAA
*
64498819 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAAACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAG--AAACAA
*
64498867 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGGCA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCA
64498903 CCAATAGATG
Statistics
Matches: 142, Mismatches: 26, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
45 27 0.19
46 35 0.25
47 6 0.04
48 65 0.46
49 9 0.06
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAAACAA
Found at i:64498843 original size:94 final size:95
Alignment explanation
Indices: 64498722--64498902 Score: 249
Period size: 94 Copynumber: 1.9 Consensus size: 95
64498712 CCACATTATG
* *
64498722 AGAGCCAGTGTAAAACATGTCTAGGACATACATCGGCCTCGAGAGATACAAGCCAGTGTAATACA
1 AGAGCCAGTGTAAAACATGTCTAGGACATACATCGGCCTCGAGAGAAACAAGCCAGTGTAAGACA
64498787 TG-CTTAGGACAT-GCATCGGCATTGAGACA
66 TGTC-TAGGACATGGCATCGGCATTGAGACA
* * * * * * *
64498816 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAAACAAGCTAGTGTAAGACC
1 AGAGCCAGTGTAAAACATGTCTAGGACATACATCGGCCTCGAGAGAAACAAGCCAGTGTAAGACA
*
64498881 TGTCTGGGACATGGCATCGGCA
66 TGTCTAGGACATGGCATCGGCA
64498903 CCAATAGATG
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
94 65 0.87
95 10 0.13
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.20
Consensus pattern (95 bp):
AGAGCCAGTGTAAAACATGTCTAGGACATACATCGGCCTCGAGAGAAACAAGCCAGTGTAAGACA
TGTCTAGGACATGGCATCGGCATTGAGACA
Found at i:64498928 original size:49 final size:49
Alignment explanation
Indices: 64498826--64499047 Score: 143
Period size: 49 Copynumber: 4.6 Consensus size: 49
64498816 AGAGCTAGTG
* * ** * *
64498826 TAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATA-A-ACAAGCTAGTG
1 TAAGACCTGTCTGGGACATGGCATCGACCTC-A-ATAGATGGAAGCCAGTA
*
64498874 TAAGACCTGTCTGGGACATGGCATCGGCAC-CAATAGAT-GAGAGCCAGTA
1 TAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGGA-AGCCAGTA
* * * * * * * *
64498923 TAAGACCTATCTGGGACACGGCAACAACCTCGATATATGGAAGTCAGTG
1 TAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGGAAGCCAGTA
* ** ** *
64498972 TAAGACCTGTCTGGGACATGGCATCGACTTTGAT-G-TGCTAGCCAGTG
1 TAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGGAAGCCAGTA
* *
64499019 TAAGACCATGTTTGGGACATGGCGTCGAC
1 TAAGACC-TGTCTGGGACATGGCATCGAC
64499048 ATCTTATCCC
Statistics
Matches: 141, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
47 19 0.13
48 41 0.29
49 78 0.55
50 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (49 bp):
TAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGGAAGCCAGTA
Found at i:64506040 original size:37 final size:37
Alignment explanation
Indices: 64505987--64506089 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
64505977 CAAATAGTCC
*
64505987 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
* *
64506024 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
*
64506061 CCACACGTAGTCATTGGGTCTTACCCAGA
1 CCACACGTAGTCATCGGGTCTTACCCAGA
64506090 ATATATTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
Found at i:64506708 original size:48 final size:48
Alignment explanation
Indices: 64506235--64506699 Score: 858
Period size: 48 Copynumber: 9.6 Consensus size: 48
64506225 CACACATCTC
64506235 CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA
64506283 CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA
64506331 CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA
64506379 CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA
64506427 CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA
64506475 CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA
64506523 CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA
64506571 CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA
* *
64506619 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTC--ATA
* * **
64506669 TATATTTCACATTAGCCATTCAACTTTACCA
1 CATATTTCATATTAGCCATTCGGCTTTACCA
64506700 TACACATATA
Statistics
Matches: 409, Mismatches: 6, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
48 379 0.93
50 30 0.07
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.37
Consensus pattern (48 bp):
CATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA
Found at i:64517812 original size:79 final size:81
Alignment explanation
Indices: 64517676--64517860 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
64517666 TTGAATGATG
*
64517676 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
64517740 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
64517755 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
64517817 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
64517835 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64517861 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:64517874 original size:40 final size:40
Alignment explanation
Indices: 64517677--64517860 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
64517667 TGAATGATGT
* * * *
64517677 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
64517717 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
64517757 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
64517795 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
64517836 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
64517861 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:64517882 original size:79 final size:79
Alignment explanation
Indices: 64517729--64517893 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
64517719 GGACTAAGAT
* **
64517729 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
64517794 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
64517808 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
64517871 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
64517887 CCGAAGG
1 CCGAAGG
64517894 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:64525873 original size:79 final size:81
Alignment explanation
Indices: 64525737--64525921 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
64525727 TTGAATGATG
*
64525737 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGATTAAGATCCGAAGGCATT
64525801 TCTGCGAGATACTA-A
66 TCTGCGAGATACTATA
* * * *
64525816 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGATTAAGAT-CCGAAGGCA
* *
64525878 TTTGTGCGAGTTACTATA
64 TTTCTGCGAGATACTATA
* *
64525896 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64525922 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGATTAAGATCCGAAGGCATT
TCTGCGAGATACTATA
Found at i:64525928 original size:40 final size:40
Alignment explanation
Indices: 64525737--64525921 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
64525727 TTGAATGATG
* * * *
64525737 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * * *
64525777 TCCGGATTAAGAT-CCGAAGGCATTTCTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
64525817 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
64525856 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
64525897 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
64525922 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 80 0.65
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:64525943 original size:79 final size:77
Alignment explanation
Indices: 64525738--64525954 Score: 206
Period size: 79 Copynumber: 2.7 Consensus size: 77
64525728 TGAATGATGT
** * * *
64525738 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTATATCCGG-TTAAG-TCCGAAGGCATTT
*
64525802 CTGCGAGATACTAATT
62 CTGCGAGATACTAATA
** * *
64525818 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCC-GGTTAAGT-CCGAAGGCATTTCT
*
64525883 GCGAGTTACT-ATAA
64 GCGAGATACTAAT-A
* *
64525897 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTATATCCGGTT-AAGTCCGAAGG
64525955 TACGTGATTT
Statistics
Matches: 118, Mismatches: 12, Indels: 15
0.81 0.08 0.10
Matches are distributed among these distances:
78 3 0.03
79 68 0.58
80 47 0.40
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCCGGTTAAGTCCGAAGGCATTTCTGC
GAGATACTAATA
Found at i:64544190 original size:21 final size:21
Alignment explanation
Indices: 64544161--64544201 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
64544151 AAGTGTACTA
* *
64544161 TACTGGCAGCTCTGCTGCAAT
1 TACTAGCAGCTCTACTGCAAT
64544182 TACTAGCAGCTCTACTGCAA
1 TACTAGCAGCTCTACTGCAA
64544202 ACACTGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (21 bp):
TACTAGCAGCTCTACTGCAAT
Found at i:64553442 original size:24 final size:24
Alignment explanation
Indices: 64553414--64553466 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
64553404 TTTACAAAGG
64553414 TGAACTGACAATGCAACTTAATGA
1 TGAACTGACAATGCAACTTAATGA
*
64553438 TGAACTGACCATGCAACTTAATGA
1 TGAACTGACAATGCAACTTAATGA
64553462 TGAAC
1 TGAAC
64553467 ACGTTACCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.25
Consensus pattern (24 bp):
TGAACTGACAATGCAACTTAATGA
Found at i:64556874 original size:23 final size:24
Alignment explanation
Indices: 64556825--64556874 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
64556815 TTATCCGGGC
*
64556825 TAAAATAGGAAACTCATAAGAGTT
1 TAAAATAAGAAACTCATAAGAGTT
* *
64556849 TAAAATAAGAAGCTCAT-TGAGTT
1 TAAAATAAGAAACTCATAAGAGTT
64556872 TAA
1 TAA
64556875 CAAGTAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (24 bp):
TAAAATAAGAAACTCATAAGAGTT
Found at i:64556972 original size:25 final size:25
Alignment explanation
Indices: 64556938--64557014 Score: 120
Period size: 25 Copynumber: 3.1 Consensus size: 25
64556928 TAGTTCAAGC
* * *
64556938 GAGCC-ATATCAGAAAGCTCACAAA
1 GAGCCTATATCAGGACGCTCATAAA
64556962 GAGCCTATATCAGGACGCTCATAAA
1 GAGCCTATATCAGGACGCTCATAAA
64556987 GAGCCTATATCAGGACGCTCATAAA
1 GAGCCTATATCAGGACGCTCATAAA
64557012 GAG
1 GAG
64557015 ATGCATTTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
24 5 0.10
25 44 0.90
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (25 bp):
GAGCCTATATCAGGACGCTCATAAA
Found at i:64559373 original size:41 final size:42
Alignment explanation
Indices: 64559278--64559390 Score: 122
Period size: 41 Copynumber: 2.7 Consensus size: 42
64559268 CATATCTAAA
* * ** *
64559278 ATGCCAATGTCCCAAAC-GTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTTCCAGACAG-GGTCTTACA-CAAATCAAATATCG
* *
64559321 ATGCCACTGTTCCAGATAGGGTCTTACACAAATCAAATA-CG
1 ATGCCAATGTTCCAGACAGGGTCTTACACAAATCAAATATCG
*
64559362 ATGCCAATGTTCCAGACATGGTCTTACAC
1 ATGCCAATGTTCCAGACAGGGTCTTACAC
64559391 GTAATCACAT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 28 0.47
42 8 0.14
43 22 0.37
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (42 bp):
ATGCCAATGTTCCAGACAGGGTCTTACACAAATCAAATATCG
Found at i:64560595 original size:14 final size:15
Alignment explanation
Indices: 64560578--64560606 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
64560568 TTAAGAAAAT
64560578 TTCACACAT-ATAAA
1 TTCACACATAATAAA
64560592 TTCACACATAATAAA
1 TTCACACATAATAAA
64560607 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:64565476 original size:43 final size:43
Alignment explanation
Indices: 64565320--64565477 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
64565310 AAGTGTTTTT
* *
64565320 GTGTAAGACCACATCTGGGACGTTGGCATTGACT-TATGATTTAC
1 GTGTAAGACCACATCTGGGACGTTGGCATCGA-TATTTG-TTTAC
* * * *
64565364 GTCTAAGACCACGTCTGGGACGTTGGCGTCG-TATTT-TATTTC
1 GTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGT-TTAC
* **
64565406 GTGTAAGACC-CTGTCTGGGACAATGGCATCGATATTTGTTTAC
1 GTGTAAGACCAC-ATCTGGGACGTTGGCATCGATATTTGTTTAC
* *
64565449 ATGTAAGACCACATCTAGGACGTTGGCAT
1 GTGTAAGACCACATCTGGGACGTTGGCAT
64565478 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 2 0.02
42 29 0.32
43 32 0.35
44 29 0.32
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGTTTAC
Found at i:64568155 original size:18 final size:19
Alignment explanation
Indices: 64568132--64568167 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
64568122 AACTTGGCAC
*
64568132 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
64568150 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
64568168 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:64568497 original size:30 final size:30
Alignment explanation
Indices: 64568463--64568523 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
64568453 TCCTTAACTC
64568463 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
64568493 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
64568523 A
1 A
64568524 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Done.