Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 136 of 770
Found at i:39983914 original size:27 final size:27
Alignment explanation
Indices: 39983884--39984023 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
39983874 TGGTTTGTAA
* *
39983884 AATTACCAAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
39983911 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
39983938 AATTACCGAAATACCCTTGTAGGGAAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
39983965 AAAT-CCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
39983991 AATTATCGAGATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
39984018 AATTAC
1 AATTAC
39984024 AATTTTGCCC
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 22 0.23
27 72 0.77
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:39983915 original size:54 final size:54
Alignment explanation
Indices: 39983667--39983982 Score: 186
Period size: 54 Copynumber: 5.9 Consensus size: 54
39983657 CTCGATTAGC
*
39983667 AAAATTACCAAAATACCCTGGT-TTGTG-A-AATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCT--TATAGTGTAGAATTACCAAAATACCCCTGATTTGT
* *** * * * * **
39983720 GAAATTATTGAAATACCCTCGACT--TGTAAAATTACCAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCT-TA-TAGTGTAGAATTACCAAAATACCCCTGATTTGT
* * * * * *
39983774 AAAATTACCAAAATACCCCTA-ATTTGT-GAAATTACTAAAATACCCTTAACTTGT
1 AAAATTACCAAAATACCCTTATA-GTGTAG-AATTACCAAAATACCCCTGATTTGT
* * * *
39983828 AAAATTACCAAAATACCC--CTAGTTTACAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTATAGTGT--AGAATTACCAAAATACCCCTGATTTGT
* ** **
39983882 AAAATTACCAAAATACCCTTATAGGGTAGAATTACTGAAATACCCCT-ATAGGGT
1 AAAATTACCAAAATACCCTTATAGTGTAGAATTACCAAAATACCCCTGAT-TTGT
* * * * * *
39983936 AGAATTACCGAAATACCCTTGTAGGGAAGAAAT-CCAAAATACCCCTG
1 AAAATTACCAAAATACCCTTATAGTGTAGAATTACCAAAATACCCCTG
39983983 TAGGGTAGAA
Statistics
Matches: 199, Mismatches: 48, Indels: 31
0.72 0.17 0.11
Matches are distributed among these distances:
52 4 0.02
53 30 0.15
54 161 0.81
56 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTATAGTGTAGAATTACCAAAATACCCCTGATTTGT
Found at i:39983915 original size:81 final size:80
Alignment explanation
Indices: 39983667--39983929 Score: 307
Period size: 81 Copynumber: 3.3 Consensus size: 80
39983657 CTCGATTAGC
* *** * *
39983667 AAAATTACCAAAATA-CCCTGGTTTGTGAAATTACCAAAATACCCCTGATTTGTGAAATTATTGA
1 AAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAA
*
39983731 AATACCCTCGACT-TGT
66 AATACCCT-TA-TATGT
* * *
39983747 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAATTTGTGAAATTACTAA
1 AAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAA
39983812 AATACCCTTA-ACTTGT
66 AATACCCTTATA--TGT
* * *
39983828 AAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAA
*
39983893 AATACCCTTATAGGGT
66 AATACCCTTATA-TGT
* **
39983909 AGAATTACTGAAATACCCCTA
1 AAAATTACCAAAATACCCCTA
39983930 TAGGGTAGAA
Statistics
Matches: 159, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
80 16 0.10
81 142 0.89
82 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
AAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAA
AATACCCTTATATGT
Found at i:39983942 original size:81 final size:80
Alignment explanation
Indices: 39983774--39984023 Score: 204
Period size: 81 Copynumber: 3.1 Consensus size: 80
39983764 CTTGGTTTAC
* * * ** * **
39983774 AAAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAATACCCTTA-ACTTGTAAAATTACCA
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTATA-GGGTAGAATTACTG
**
39983838 AAATACCCC-TAGTTT
65 AAATACCCCTTAGGGT
*
39983853 ACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTATAGGGTAGAATTACT
1 --AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTATAGGGTAGAATTACT
39983918 GAAATACCCCTATAGGGT
64 GAAATACCCCT-TAGGGT
* * * ** * * * *
39983936 AGAATTACCGAAATA-CCCTTGTAGGGAAGAAAT-CCAAAATACCCCTGTAGGGTAGAATTA-TC
1 AAAATTACCAAAATACCCCTAGTTTGTAA-AATTACCAAAATACCCTTATAGGGTAGAATTACT-
* *
39983998 GAGATACCCTTGTAGGGT
64 GAAATACCCCT-TAGGGT
39984016 AAAATTAC
1 AAAATTAC
39984024 AATTTTGCCC
Statistics
Matches: 140, Mismatches: 24, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
79 1 0.01
80 56 0.40
81 78 0.56
82 1 0.01
83 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (80 bp):
AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTATAGGGTAGAATTACTGA
AATACCCCTTAGGGT
Found at i:39983994 original size:53 final size:54
Alignment explanation
Indices: 39983860--39984014 Score: 179
Period size: 54 Copynumber: 2.9 Consensus size: 54
39983850 TTTACAAAAT
** * * * * *
39983860 TACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCTTATAGGGTAGAAT
1 TACCAAAATACCCCT-GTAGGGTAGAATTACCGAAATACCCTTGTAGGGAAGAAA
** *
39983914 TACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGAAGAAA
1 TACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGAAGAAA
* *
39983968 T-CCAAAATACCCCTGTAGGGTAGAATTATCGAGATACCCTTGTAGGG
1 TACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGG
39984015 TAAAATTACA
Statistics
Matches: 85, Mismatches: 15, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
53 42 0.49
54 43 0.51
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (54 bp):
TACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGAAGAAA
Found at i:39985550 original size:48 final size:47
Alignment explanation
Indices: 39985477--39985738 Score: 229
Period size: 48 Copynumber: 5.6 Consensus size: 47
39985467 TATTCGTGTT
* *
39985477 GATGCCATGTCCCAGACATGATCTTACACTGACACCCCT-ATATGTGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACACCTCATA--TGTC
* * * *
39985525 GATGCCATGTCCCAAACATGGTCTTATACTGACACATCTCATA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACACCTCATATGTC
* * * * *
39985571 GATG-CATGTCCCAGACAT-GTCTTACACT-AGCTCTCGTCACAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CACACCTCA-TATGTC
* *
39985617 GATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCATA-GTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACACCTCATATGTC
* * **
39985663 GATG-CATGTCCCAGACAT-GTCTTACACT-AGCTCTCGTCTCA-ATACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CACAC--CTCATATGTC
*
39985709 GATGCCATGTCCCAGACATGGTTTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
39985739 AGCTCTCATA
Statistics
Matches: 174, Mismatches: 27, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
43 2 0.01
44 26 0.15
45 28 0.16
46 28 0.16
47 28 0.16
48 58 0.33
49 4 0.02
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACACACCTCATATGTC
Found at i:39985620 original size:46 final size:45
Alignment explanation
Indices: 39985568--39985787 Score: 223
Period size: 47 Copynumber: 4.8 Consensus size: 45
39985558 ACATCTCATA
39985568 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCACAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCA-AAT
* * *
39985614 GCCGATGCCATGTCCCAAACATGGTCTTACACT-GACACATC-TCATA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTC-TCGTCAAAT
* *
39985660 GTCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTC-AAAT
* * * *
39985706 ACCGATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCAT-AATCT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCAA-AT
* *
39985753 GGCTGATGCATGTCCTAGACATGTCTTACACTAGC
1 -GCCGATGCATGTCCCAGACATGTCTTACACTAGC
39985788 ATACAAATAA
Statistics
Matches: 144, Mismatches: 18, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
43 2 0.01
44 14 0.10
45 15 0.10
46 31 0.22
47 43 0.30
48 37 0.26
49 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCAAAT
Found at i:39985621 original size:92 final size:92
Alignment explanation
Indices: 39985524--39985787 Score: 386
Period size: 92 Copynumber: 2.8 Consensus size: 92
39985514 CTATATGTGT
*
39985524 CGATGCCATGTCCCAAACATGGTCTTATACTGACACATCTCATAGCCGATGCATGTCCCAGACAT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCATAGCCGATGCATGTCCCAGACAT
*
39985589 GTCTTACACTAGCTCTCGTCACAATGC
66 GTCTTACACTAGCTCTCGTCACAATAC
*
39985616 CGATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCATAGTCGATGCATGTCCCAGACAT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCATAGCCGATGCATGTCCCAGACAT
*
39985681 GTCTTACACTAGCTCTCGTCTCAATAC
66 GTCTTACACTAGCTCTCGTCACAATAC
* * * * * * * *
39985708 CGATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCATAATC-TGGCTGATGCATGTCCTAGA
1 CGATGCCATGTCCCAAACATGGTCTTACACT-G-ACACAT-CTCATAGCCGATGCATGTCCCAGA
39985772 CATGTCTTACACTAGC
63 CATGTCTTACACTAGC
39985788 ATACAAATAA
Statistics
Matches: 156, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
92 117 0.75
93 1 0.01
94 36 0.23
95 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (92 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCATAGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCTCTCGTCACAATAC
Found at i:39985761 original size:48 final size:48
Alignment explanation
Indices: 39985428--39985787 Score: 209
Period size: 48 Copynumber: 7.7 Consensus size: 48
39985418 TATAATGCCA
* * * **
39985428 ATGCTATGTCCCAGACATGGTATTACACTAGCTCTCGCATATTC-GTGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATAATCTG-GCCG
* * * * * *
39985478 ATGCCATGTCCCAGACATGATCTTACACT-GACACCCCT-ATATGTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATAATCTG-GCCG
* * * * * *
39985526 ATGCCATGTCCCAAACATGGTCTTATACT-G-ACACAT-CTCATAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATC-TGGCCG
* *
39985572 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCACA-AT-GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-A-ATCTGGCCG
* * * * * *
39985618 ATGCCATGTCCCAAACATGGTCTTACACT-G-ACACAT-CTCATAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATC-TGGCCG
* * *
39985664 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGT-CTCAAT-ACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATC--TGGCCG
* *
39985710 ATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCATAATCTGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATCTGGCCG
*
39985758 ATG-CATGTCCTAGACAT-GTCTTACACTAGC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC
39985788 ATACAAATAA
Statistics
Matches: 245, Mismatches: 45, Indels: 44
0.73 0.13 0.13
Matches are distributed among these distances:
44 19 0.08
45 29 0.12
46 53 0.22
47 47 0.19
48 66 0.27
49 3 0.01
50 28 0.11
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATCTGGCCG
Found at i:39985761 original size:140 final size:140
Alignment explanation
Indices: 39985428--39985784 Score: 376
Period size: 140 Copynumber: 2.5 Consensus size: 140
39985418 TATAATGCCA
* * *
39985428 ATGCTATGTCCCAGACATGGTATTACACTAGCTCTCGCATATTC-GTGTTGATGCCATGTCCCAG
1 ATGCCATGTCCCAGACATGGTATTACACTAGCTCT--CATAATCTG-GCTGATGCCATGTCCCAG
* * *
39985492 ACATGATCTTACACTGACACCCCTATATGTGTCGATGCCATGTCCCAAACATGGTCTTATACTGA
63 ACATGGTCTTACACTGACACACCTATA--TGTCGATGCCATGTCCCAAACATGGTCTTACACTGA
39985557 CACATCTCATAGCCG
126 CACATCTCATAGCCG
* * * * *
39985572 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCACA-AT-GCCGATGCCATGTCCCAAA
1 ATGCCATGTCCCAGACATGGTATTACACTAGCTCTCAT-A-ATCTGGCTGATGCCATGTCCCAGA
* * *
39985633 CATGGTCTTACACTGACACATCTCATA-GTCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT
64 CATGGTCTTACACTGACACACCT-ATATGTCGATGCCATGTCCCAAACATGGTCTTACACT-G-A
* *
39985695 CTCGTCTCAATA-CCG
126 CACATCTC-ATAGCCG
* *
39985710 ATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCATAATCTGGCTGATG-CATGTCCTAGACA
1 ATGCCATGTCCCAGACATGGTATTACACTAGCTCTCATAATCTGGCTGATGCCATGTCCCAGACA
39985774 T-GTCTTACACT
66 TGGTCTTACACT
39985785 AGCATACAAA
Statistics
Matches: 180, Mismatches: 22, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
136 9 0.05
137 14 0.08
138 30 0.17
139 31 0.17
140 61 0.34
141 4 0.02
142 15 0.08
143 13 0.07
144 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (140 bp):
ATGCCATGTCCCAGACATGGTATTACACTAGCTCTCATAATCTGGCTGATGCCATGTCCCAGACA
TGGTCTTACACTGACACACCTATATGTCGATGCCATGTCCCAAACATGGTCTTACACTGACACAT
CTCATAGCCG
Found at i:40003586 original size:29 final size:29
Alignment explanation
Indices: 40003544--40003675 Score: 228
Period size: 29 Copynumber: 4.5 Consensus size: 29
40003534 AAAATTGTAC
*
40003544 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
* *
40003573 AGCACTAAGTGTGCGAGCTAAAAATACAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
40003602 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
40003632 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
40003661 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
40003676 GATTCACTAT
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
29 69 0.71
30 28 0.29
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:40003638 original size:59 final size:58
Alignment explanation
Indices: 40003544--40003675 Score: 228
Period size: 59 Copynumber: 2.3 Consensus size: 58
40003534 AAAATTGTAC
40003544 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTAAAAATACAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTAAAAATACAT
* * *
40003602 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTAAAAATACAT
40003661 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
40003676 GATTCACTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
58 23 0.33
59 47 0.67
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTAAAAATACAT
Found at i:40003664 original size:88 final size:89
Alignment explanation
Indices: 40003514--40003675 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
40003504 GACAAGATTG
* * *
40003514 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
40003579 AAGTGTGCGAGCTAAAAATACATA
66 AAGTGTGCGAGCTAAAAATACATA
* * *
40003603 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
40003667 AAGTGTGCG
66 AAGTGTGCG
40003676 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTAAAAATACATA
Found at i:40011606 original size:29 final size:29
Alignment explanation
Indices: 40011564--40011695 Score: 221
Period size: 29 Copynumber: 4.5 Consensus size: 29
40011554 AAAATTGTAC
40011564 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
40011593 AGCACTAAGTGTGCGACCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
40011622 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATAT
40011652 AGCACTAAGTGTGCGAGA-TGAAAATATAT
1 AGCACTAAGTGTGCGA-ACTGAAAATATAT
40011681 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
40011696 GATTCACTAT
Statistics
Matches: 98, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
29 71 0.72
30 27 0.28
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:40011660 original size:59 final size:58
Alignment explanation
Indices: 40011564--40011695 Score: 228
Period size: 59 Copynumber: 2.3 Consensus size: 58
40011554 AAAATTGTAC
*
40011564 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGACCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGACATGAAAATATAT
* *
40011622 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGATGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGACATGAAAATATAT
40011681 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
40011696 GATTCACTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
58 23 0.33
59 47 0.67
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGACATGAAAATATAT
Found at i:40011684 original size:88 final size:89
Alignment explanation
Indices: 40011534--40011695 Score: 256
Period size: 88 Copynumber: 1.8 Consensus size: 89
40011524 GACAAGATTG
* * *
40011534 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
40011599 AAGTGTGCGACCTGAAAATATATA
66 AAGTGTGCGACCTGAAAATATATA
* *
40011623 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGA-TGAAAATATATAGCAC
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGA-ACTGAAAATATATAGCAC
40011686 TAAGTGTGCG
65 TAAGTGTGCG
40011696 GATTCACTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
88 51 0.76
89 16 0.24
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGACCTGAAAATATATA
Found at i:40013994 original size:45 final size:45
Alignment explanation
Indices: 40013927--40014059 Score: 150
Period size: 45 Copynumber: 3.0 Consensus size: 45
40013917 AATATCGCAT
40013927 AATACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGA
1 AATACTATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGA
* * * *
40013972 GATACTATTCGGGCTTTCGAGCCTAGTAGGCTATAATGTCAGTGA
1 AATACTATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA
* * *
40014017 AATGA-TA-TCGGAC-TTCAAGCCTAGCAGGC-AAAATGCCGGTGA
1 AAT-ACTATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA
40014059 A
1 A
40014060 TGAATTCAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 9 0.12
45 40 0.53
46 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (45 bp):
AATACTATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:40024945 original size:49 final size:49
Alignment explanation
Indices: 40024875--40025119 Score: 242
Period size: 49 Copynumber: 4.9 Consensus size: 49
40024865 TAGCCAAAGC
* * * *
40024875 TATCTAGTACACATAGTAGCCTGCACTTACTACTACACATGCGACCAAT
1 TATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * * *
40024924 TATCCAGTACACGTAGGAGCCTGCACTTAGTACTACAGACGTGGCCTAAC
1 TATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * ** *
40024974 AAT-CTGATACACGTAGTAGCCTACACTTAGTACTACACACATGATCGAAGT
1 TATCCAG-TACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * *
40025025 TATCGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
40025074 AATCC-GATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCCAG-TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
40025120 TCATAATAGA
Statistics
Matches: 156, Mismatches: 34, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
48 1 0.01
49 79 0.51
50 41 0.26
51 34 0.22
52 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (49 bp):
TATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:40025011 original size:26 final size:26
Alignment explanation
Indices: 40024931--40025011 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 26
40024921 AATTATCCAG
* *
40024931 TACACGTAGGAGCCTGCACTTAGTAC
1 TACACGTAGTAGCCTACACTTAGTAC
* *
40024957 TACA-G-ACGTGGCCTAACAATCT-G-A-
1 TACACGTA-GTAGCCT-ACACT-TAGTAC
40024981 TACACGTAGTAGCCTACACTTAGTAC
1 TACACGTAGTAGCCTACACTTAGTAC
40025007 TACAC
1 TACAC
40025012 ACATGATCGA
Statistics
Matches: 41, Mismatches: 6, Indels: 16
0.65 0.10 0.25
Matches are distributed among these distances:
23 1 0.02
24 10 0.24
25 15 0.37
26 14 0.34
27 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (26 bp):
TACACGTAGTAGCCTACACTTAGTAC
Found at i:40025055 original size:101 final size:98
Alignment explanation
Indices: 40024882--40025113 Score: 284
Period size: 100 Copynumber: 2.3 Consensus size: 98
40024872 AGCTATCTAG
* * ** *
40024882 TACACATAGTAGCCTGCACTTACTACTACACATGCGACCAATTATCCAGTACACGTAGGAGCCTG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACACGACCAATTATCCAGTACACATAGGAGCCTG
* * * *
40024947 CACTTAGTACTACAGACGTGGCCTAACAATCTGA
66 CACTTAGTACTACACACGCGACC-AACAATCCGA
* * * * * *
40024981 TACACGTAGTAGCCTACACTTAGTACTACACACATGATCGAAGTTATCGAGTACGCATAGTAGCC
1 TACACGTAGTAGCCTGCACTTAGTACTACACACACGA-CCAA-TTATCCAGTACACATAGGAGCC
* *
40025046 TGCACTTAGTACTACACATGCGACCAATAATCCGA
64 TGCACTTAGTACTACACACGCGACCAACAATCCGA
40025081 TACACGTAGTAGCCTGCACTTAGTACTACACAC
1 TACACGTAGTAGCCTGCACTTAGTACTACACAC
40025114 GTGACCTCAT
Statistics
Matches: 113, Mismatches: 18, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
99 31 0.27
100 43 0.38
101 39 0.35
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (98 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACACGACCAATTATCCAGTACACATAGGAGCCTG
CACTTAGTACTACACACGCGACCAACAATCCGA
Found at i:40028063 original size:139 final size:140
Alignment explanation
Indices: 40027830--40028089 Score: 332
Period size: 139 Copynumber: 1.9 Consensus size: 140
40027820 AAGTCAACGC
* ** ** *
40027830 CATGTCCCAGACATGGTCTTACACTAGCTCTCATATATTCGTGTCGTTGCCATGTCCTAGACATG
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCA-ATATTAATGTCGACGCCATGTCCCAGACATG
*
40027895 GTCTTACACTGACACCTTTATACGTGCCAATGCCATGTCCC-AACATGGTCTTACACTGACACAT
65 GTCTTACACTGACACCTATATACGTGCCAATG-CATGTCCCAAACAT-GTCTTACACTGACACAT
40027959 CTCGTAGCCGATA
128 CTCGTAGCCGATA
* *
40027972 CATGTCCCAAACAT-GTCTTACACTAGCTCTC-GTCTTAATGTCGACGCCATGTCCCAGACATGG
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCAATATTAATGTCGACGCCATGTCCCAGACATGG
* * *
40028035 TCTTACACTGGC-TCTCATA-ATGTGGCCAATGCATGTCCCAAACATGTCTTACACT
66 TCTTACACTGACACCT-ATATACGT-GCCAATGCATGTCCCAAACATGTCTTACACT
40028090 AGCATACAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
138 23 0.22
139 50 0.49
141 17 0.17
142 13 0.13
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (140 bp):
CATGTCCCAAACATGGTCTTACACTAGCTCTCAATATTAATGTCGACGCCATGTCCCAGACATGG
TCTTACACTGACACCTATATACGTGCCAATGCATGTCCCAAACATGTCTTACACTGACACATCTC
GTAGCCGATA
Found at i:40028070 original size:47 final size:48
Alignment explanation
Indices: 40027774--40028089 Score: 196
Period size: 47 Copynumber: 6.7 Consensus size: 48
40027764 TAGGGTATAA
* *
40027774 TGCCAATGCCATCTCCCAAACATAGTCTTACACTGGCTCATCCATCAA-G
1 TGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCAT-CAT-AATG
* * *
40027823 T--CAACGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCATATATTCG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCATA-A-T-G
* ** * * * * * * *
40027871 TGTCGTTGCCATGTCCTAGACATGGTCTTACACTGACACCT-TTATACG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCATA-ATG
* * *
40027919 TGCCAATGCCATGTCCC-AACATGGTCTTACACTGACACATC-T--CG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCATAATG
* * * * *
40027963 TAGCCGAT-ACATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTTAATG
1 T-GCCAATGCCATGTCCCAAACATGGTCTTACACT-G-GCTCATCATAATG
* * *
40028012 T--CGACGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCATAATG
40028057 TGGCCAATG-CATGTCCCAAACAT-GTCTTACACT
1 T-GCCAATGCCATGTCCCAAACATGGTCTTACACT
40028090 AGCATACAAA
Statistics
Matches: 213, Mismatches: 34, Indels: 43
0.73 0.12 0.15
Matches are distributed among these distances:
44 22 0.10
45 23 0.11
46 21 0.10
47 81 0.38
48 29 0.14
49 3 0.01
50 33 0.15
51 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCATAATG
Found at i:40039583 original size:53 final size:53
Alignment explanation
Indices: 40039520--40039624 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
40039510 GTGAAAAGAG
*
40039520 ACCAAGTGTGGATGAGGAACTAGTTTGTGAGTTTTATGCAAATTTAACTTCAT
1 ACCAAGTGTGGATGAGGAACTAGTTCGTGAGTTTTATGCAAATTTAACTTCAT
40039573 ACCAAGTGTGGATGAGGAACTAGTTCGTGAGTTTTATGCAAATTTAACTTCA
1 ACCAAGTGTGGATGAGGAACTAGTTCGTGAGTTTTATGCAAATTTAACTTCA
40039625 GGCGATATGA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.34
Consensus pattern (53 bp):
ACCAAGTGTGGATGAGGAACTAGTTCGTGAGTTTTATGCAAATTTAACTTCAT
Found at i:40055888 original size:35 final size:35
Alignment explanation
Indices: 40055848--40055918 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
40055838 CACTCTATTT
*
40055848 AATTTATTCCAAAATACACATTAACGAAAATTTAC
1 AATTTAGTCCAAAATACACATTAACGAAAATTTAC
* *
40055883 AATTTAGTCCAAAATACACATTAAGGCAAATTTAC
1 AATTTAGTCCAAAATACACATTAACGAAAATTTAC
40055918 A
1 A
40055919 CTATTGCCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.48, C:0.17, G:0.06, T:0.30
Consensus pattern (35 bp):
AATTTAGTCCAAAATACACATTAACGAAAATTTAC
Found at i:40065125 original size:21 final size:21
Alignment explanation
Indices: 40065101--40065140 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
40065091 AGGGATTTAT
40065101 TTGT-AAAATGTGTAAAATACA
1 TTGTGAAAAT-TGTAAAATACA
*
40065122 TTGTGAAAATTGTGAAATA
1 TTGTGAAAATTGTAAAATA
40065141 ATGAATTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.35
Consensus pattern (21 bp):
TTGTGAAAATTGTAAAATACA
Found at i:40067720 original size:27 final size:27
Alignment explanation
Indices: 40067512--40067719 Score: 335
Period size: 27 Copynumber: 7.7 Consensus size: 27
40067502 CGTACCTGAA
* * *
40067512 CCCTTAAGTGATAAAATGATGATTTTT
1 CCCTTATGTGATAAAATGACGATTTTG
*
40067539 CCCTTATGTGATAAAATGACGATTTTA
1 CCCTTATGTGATAAAATGACGATTTTG
*
40067566 CCCTTATGTGATAAAATGACAATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
40067593 CCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
*
40067620 CCCTTATGTGATAAAATGACAATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
40067647 CCCTTATGTGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
* * *
40067674 CCCATCTGTGATAAAATGATGATTTTG
1 CCCTTATGTGATAAAATGACGATTTTG
40067701 CCCTTATGTGATAAAATGA
1 CCCTTATGTGATAAAATGA
40067720 TCGAAATACC
Statistics
Matches: 168, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 168 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.37
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACGATTTTG
Found at i:40067742 original size:54 final size:53
Alignment explanation
Indices: 40067518--40067747 Score: 239
Period size: 54 Copynumber: 4.3 Consensus size: 53
40067508 TGAACCCTTA
** * **
40067518 AGTGATAAAATGATGATTTTTCCCTTATGTGATAAAATGACGATTTTACCCTTAT
1 AGTGATAAAATGACAATTTTGCCCTTATGTGATAAAATGACGA--TTACCCCCAT
*** *
40067573 -GTGATAAAATGACAATTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTT
1 AGTGATAAAATGACAATTTTGCCCTTATGTGATAAAATGACGATTACCCCCAT
***
40067625 ATGTGATAAAATGACAATTTTGCCCTTATGTGATAAAATGACGATTTTGCCCAT
1 A-GTGATAAAATGACAATTTTGCCCTTATGTGATAAAATGACGATTACCCCCAT
* ** *
40067679 CTGTGATAAAATGATGATTTTGCCCTTATGTGATAAAATGATCGAAATACCCCCAT
1 -AGTGATAAAATGACAATTTTGCCCTTATGTGATAAAATGA-CG-ATTACCCCCAT
*
40067735 AG-AATAAAATGAC
1 AGTGATAAAATGAC
40067748 TGTAATACCC
Statistics
Matches: 150, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
52 4 0.03
54 136 0.91
55 3 0.02
56 7 0.05
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (53 bp):
AGTGATAAAATGACAATTTTGCCCTTATGTGATAAAATGACGATTACCCCCAT
Found at i:40067742 original size:81 final size:81
Alignment explanation
Indices: 40067519--40067747 Score: 284
Period size: 81 Copynumber: 2.8 Consensus size: 81
40067509 GAACCCTTAA
* * **
40067519 GTGATAAAATGATGATTTTTCCCTTATGTGATAAAATGACGATTTTACCCTTAT-GTGATAAAAT
1 GTGATAAAATGATGATTTTGCCCTTATGTGATAAAATGACGA-ATTACCCCCATAGTGATAAAAT
*
40067583 GACAATTTTGCCCTTAT
65 GACAATTTTGCCCATAT
* *** *
40067600 GTGATAAAATGACGATTTTGCCCTTATGTGATAAAATGAC-AATTTTGCCCTTATGTGATAAAAT
1 GTGATAAAATGATGATTTTGCCCTTATGTGATAAAATGACGAATTACCCCCATA-GTGATAAAAT
* *
40067664 GACGATTTTGCCCATCT
65 GACAATTTTGCCCATAT
* *
40067681 GTGATAAAATGATGATTTTGCCCTTATGTGATAAAATGATCGAAATACCCCCATAG-AATAAAAT
1 GTGATAAAATGATGATTTTGCCCTTATGTGATAAAATGA-CGAATTACCCCCATAGTGATAAAAT
40067745 GAC
65 GAC
40067748 TGTAATACCC
Statistics
Matches: 125, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
79 4 0.03
80 1 0.01
81 110 0.88
82 2 0.02
83 8 0.06
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (81 bp):
GTGATAAAATGATGATTTTGCCCTTATGTGATAAAATGACGAATTACCCCCATAGTGATAAAATG
ACAATTTTGCCCATAT
Found at i:40068190 original size:18 final size:19
Alignment explanation
Indices: 40068163--40068212 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
40068153 TATTTGCATT
*
40068163 CTGCAGTGATTACT-GTTA
1 CTGCACTGATTACTGGTTA
* *
40068181 CTGCATTGATCA-TGGTTA
1 CTGCACTGATTACTGGTTA
40068199 CTGCACTGATTACT
1 CTGCACTGATTACT
40068213 TCCACTGCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (19 bp):
CTGCACTGATTACTGGTTA
Found at i:40070095 original size:90 final size:90
Alignment explanation
Indices: 40069938--40070119 Score: 301
Period size: 90 Copynumber: 2.0 Consensus size: 90
40069928 AGCCAGTTGA
* *
40069938 AATGCTATGGCAATTCTCAAAGAATATGTAGGGAGGATTTGTATTGTTAAATGATAAGGGTTGGA
1 AATGCTATGGCAATTCTCAAAGAATACGTAGGGAGGATTTGTATTGTTAAATGATAAGGGTTAGA
*
40070003 ATTACTTAGGCTTTATTCTTATACC
66 ATTACTTAGGCTTTATTCTTACACC
* * * *
40070028 AATGCTATGGTAATTCTCGAATAATACGTAGGGAGGATTTTTATTGTTAAATGATAAGGGTTAGA
1 AATGCTATGGCAATTCTCAAAGAATACGTAGGGAGGATTTGTATTGTTAAATGATAAGGGTTAGA
40070093 ATTACTTAGGCTTTATTCTTACACC
66 ATTACTTAGGCTTTATTCTTACACC
40070118 AA
1 AA
40070120 CATAATGCCA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 85 1.00
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (90 bp):
AATGCTATGGCAATTCTCAAAGAATACGTAGGGAGGATTTGTATTGTTAAATGATAAGGGTTAGA
ATTACTTAGGCTTTATTCTTACACC
Found at i:40077918 original size:31 final size:31
Alignment explanation
Indices: 40077875--40077935 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
40077865 TGTCAATTAA
40077875 TTACAATGTAAATACACTTAATAATTAATTT
1 TTACAATGTAAATACACTTAATAATTAATTT
* *
40077906 TTACAATTTAAATACATTTAATAATTAATT
1 TTACAATGTAAATACACTTAATAATTAATT
40077936 CATTCATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (31 bp):
TTACAATGTAAATACACTTAATAATTAATTT
Found at i:40079076 original size:15 final size:14
Alignment explanation
Indices: 40079056--40079098 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
40079046 GGTTTCTTGC
40079056 TTTTCTTTTATTTAA
1 TTTTCTTTTATTT-A
40079071 TTTTCTTTTATTTA
1 TTTTCTTTTATTTA
*
40079085 TGTTCTTATTATTT
1 TTTTCTT-TTATTT
40079099 TTATTATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTTCTTTTATTTA
Found at i:40082453 original size:21 final size:21
Alignment explanation
Indices: 40082429--40082470 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
40082419 CATGTGAAAG
*
40082429 CAAAGCAGAAGGAGAGGATGA
1 CAAAGAAGAAGGAGAGGATGA
* *
40082450 CAAAGAAGAAGTAGATGATGA
1 CAAAGAAGAAGGAGAGGATGA
40082471 AATGGATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (21 bp):
CAAAGAAGAAGGAGAGGATGA
Found at i:40083619 original size:17 final size:17
Alignment explanation
Indices: 40083597--40083631 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
40083587 ATCGTCAACC
40083597 ACTAGTTGAAAATTTCT
1 ACTAGTTGAAAATTTCT
40083614 ACTAGTTGAAAATTTCT
1 ACTAGTTGAAAATTTCT
40083631 A
1 A
40083632 ATTTTCTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (17 bp):
ACTAGTTGAAAATTTCT
Found at i:40087749 original size:39 final size:39
Alignment explanation
Indices: 40087686--40088143 Score: 583
Period size: 39 Copynumber: 11.7 Consensus size: 39
40087676 CACCAACACA
* * * * * * *
40087686 AAGCCTACGGGACTTTAAGCCCGGATATAGTACCAGTACG
1 AAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCACG
* * * *
40087726 AAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* * *
40087765 AAGCCTGCGGATCTTAAGTCTGGATACAATTTCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* * *
40087804 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACG
1 AAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCACG
*
40087844 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCATG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* *
40087883 AAGCCTGCGGACCTTAAGTCCGGATACAATTCTAGCATG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* * * *
40087922 AAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* *
40087961 AAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGGACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* * *
40088000 AAGCCTGCGGATCTTTAAGCCCGGATACAATTCCAGCATG
1 AAGCCTGCGGA-CCTTAAGTCCGGATACAATTCCAGCACG
*
40088040 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCATG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* *
40088079 AAGCCTGCAGACCTTAAGTCTGGATACAATTCCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* *
40088118 AAGCCTACGGACCTTAAGTCCAGATA
1 AAGCCTGCGGACCTTAAGTCCGGATA
40088144 TACATCAAAT
Statistics
Matches: 370, Mismatches: 46, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
39 296 0.80
40 74 0.20
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.21
Consensus pattern (39 bp):
AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
Found at i:40087899 original size:118 final size:117
Alignment explanation
Indices: 40087686--40088143 Score: 585
Period size: 118 Copynumber: 3.9 Consensus size: 117
40087676 CACCAACACA
* * * * *
40087686 AAGCCTACGGGACTTTAAGCCCGGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGGAT
1 AAGCCTGC-GGACCTTAAGCCCGGATACAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
* * * * * * *
40087751 ATAGTACCAGTACGAAGCCTGCGGATCTTAAGTCTGGATACAATTTCAGCACG
65 ACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTTCAGCATG
* * *
40087804 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
1 AAGCCTGC-GGACCTTAAGCCCGGATACAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
*
40087869 ACAATTCCAGCATGAAGCCTGCGGACCTTAAGTCCGGATACAA-TTCTAGCATG
65 ACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTTC-AGCATG
* * * * *
40087922 AAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACGAAGCCTGCGGATCTTAAGTCCGGATA
1 AAGCCTGCGGACCTTAAGCCCGGATACAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
* * * *
40087987 CAATTCCAGGACGAAGCCTGCGGATCTTTAAGCCCGGATACAATTCCAGCATG
66 CAATTCCAGCACGAAGCCTGCGGA-CCTTAAGTCCGGATACAATTTCAGCATG
* * * * *
40088040 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCATGAAGCCTGCAGACCTTAAGTCTGGATA
1 AAGCCTGCGGACCTTAAGCCCGGATACAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
* *
40088105 CAATTCCAGCACGAAGCCTACGGACCTTAAGTCCAGATA
66 CAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
40088144 TACATCAAAT
Statistics
Matches: 297, Mismatches: 40, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
117 86 0.29
118 209 0.70
119 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.21
Consensus pattern (117 bp):
AAGCCTGCGGACCTTAAGCCCGGATACAATACCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
CAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTTCAGCATG
Found at i:40088018 original size:157 final size:156
Alignment explanation
Indices: 40087686--40088143 Score: 637
Period size: 157 Copynumber: 2.9 Consensus size: 156
40087676 CACCAACACA
* * * * * *
40087686 AAGCCTACGGGACTTTAAGCCCGGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGGAT
1 AAGCCTGC-GGACTTTAAGCCCGGATACAATTCCAGCATGAAGCCTGCGGACCTTAAGTCCGGAT
* * * * * * * *
40087751 ATAGTACCAGTACGAAGCCTGCGGATCTTAAGTCTGGATACAATTTCAGCACGAAGCCTGCGGGT
65 ACAATTCCAGCATGAAGCCTGCGGACCTTAAGTCTGGATACAATTCCAGCACGAAGCCTGCGGAT
*
40087816 CTTTAAGCCCGGATACAATTCCAGCACG
130 C-TTAAGTCCGGATACAATTCCAGCACG
* *
40087844 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCATGAAGCCTGCGGACCTTAAGTCCGGATA
1 AAGCCTGCGGACTTTAAGCCCGGATACAATTCCAGCATGAAGCCTGCGGACCTTAAGTCCGGATA
* * * * * *
40087909 CAATTCTAGCATGAAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACGAAGCCTGCGGATC
66 CAATTCCAGCATGAAGCCTGCGGACCTTAAGTCTGGATACAATTCCAGCACGAAGCCTGCGGATC
*
40087974 TTAAGTCCGGATACAATTCCAGGACG
131 TTAAGTCCGGATACAATTCCAGCACG
40088000 AAGCCTGCGGATCTTTAAGCCCGGATACAATTCCAGCATGAAGCCTGCGGACCTTAAGTCCGGAT
1 AAGCCTGCGGA-CTTTAAGCCCGGATACAATTCCAGCATGAAGCCTGCGGACCTTAAGTCCGGAT
* * *
40088065 ACAATTCCAGCATGAAGCCTGCAGACCTTAAGTCTGGATACAATTCCAGCACGAAGCCTACGGAC
65 ACAATTCCAGCATGAAGCCTGCGGACCTTAAGTCTGGATACAATTCCAGCACGAAGCCTGCGGAT
*
40088130 CTTAAGTCCAGATA
130 CTTAAGTCCGGATA
40088144 TACATCAAAT
Statistics
Matches: 263, Mismatches: 36, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
156 35 0.13
157 221 0.84
158 7 0.03
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.21
Consensus pattern (156 bp):
AAGCCTGCGGACTTTAAGCCCGGATACAATTCCAGCATGAAGCCTGCGGACCTTAAGTCCGGATA
CAATTCCAGCATGAAGCCTGCGGACCTTAAGTCTGGATACAATTCCAGCACGAAGCCTGCGGATC
TTAAGTCCGGATACAATTCCAGCACG
Found at i:40088045 original size:196 final size:196
Alignment explanation
Indices: 40087700--40088145 Score: 748
Period size: 196 Copynumber: 2.3 Consensus size: 196
40087690 CTACGGGACT
* * * * *
40087700 TTAAGCCCGGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACG
1 TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACG
* * *
40087765 AAGCCTGCGGATCTTAAGTCTGGATACAATTTCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGAT
66 AAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGATCTTTAAGCCCGGAT
*
40087830 ACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCATGAAGCCTGCGGAC
131 ACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCATGAAGCCTGCAGAC
40087895 C
196 C
* *
40087896 TTAAGTCCGGATACAATTCTAGCATGAAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACG
1 TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACG
*
40087961 AAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGGACGAAGCCTGCGGATCTTTAAGCCCGGAT
66 AAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGATCTTTAAGCCCGGAT
*
40088026 ACAATTCCAGCATGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCATGAAGCCTGCAGAC
131 ACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCATGAAGCCTGCAGAC
40088091 C
196 C
* * *
40088092 TTAAGTCTGGATACAATTCCAGCACGAAGCCTACGGACCTTAAGTCCAGATATA
1 TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATA
40088146 CATCAAATAT
Statistics
Matches: 232, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 232 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (196 bp):
TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACG
AAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGATCTTTAAGCCCGGAT
ACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCATGAAGCCTGCAGAC
C
Found at i:40090209 original size:39 final size:39
Alignment explanation
Indices: 40090127--40090289 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
40090117 TATGGTAACC
* * * *
40090127 CGCACAAATGCCTTCGGGACTTATCTCAGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
40090167 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
40090206 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
40090245 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
40090284 CGCACA
1 CGCACA
40090290 TTCATACACA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 95 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:40092497 original size:38 final size:39
Alignment explanation
Indices: 40092384--40092526 Score: 234
Period size: 39 Copynumber: 3.7 Consensus size: 39
40092374 CCGCACAAAG
*
40092384 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * *
40092424 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
40092463 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
40092501 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
40092527 TCGAACATTC
Statistics
Matches: 95, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.37
39 51 0.54
40 9 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:40092505 original size:77 final size:79
Alignment explanation
Indices: 40092344--40092525 Score: 269
Period size: 77 Copynumber: 2.3 Consensus size: 79
40092334 TCGTTCAAAC
* * **
40092344 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
40092409 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
40092424 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-TATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
40092487 CAATTTGCACAATT
66 CAATTTGCACAATT
40092501 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
40092526 CTCGAACATT
Statistics
Matches: 94, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 9 0.10
79 32 0.34
80 9 0.10
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:40096383 original size:40 final size:40
Alignment explanation
Indices: 40096275--40096444 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
40096265 CGGGATTTAA
* * * * *
40096275 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
40096315 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40096355 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40096395 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
40096435 CCGGATATAT
1 CCGGATATAT
40096445 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:40098346 original size:189 final size:189
Alignment explanation
Indices: 40098026--40098387 Score: 575
Period size: 189 Copynumber: 1.9 Consensus size: 189
40098016 TTCCCCTCAT
* * *
40098026 ACTTTCAAAGTTTATTACTAGGTCCTTTCTAGTGAAATTCACATCTATAATTCTAAATCAAAGCA
1 ACTTTCAAAGTTTACTACTAGATCCTTTCTAGTGAAATTCACATCTATAACTCTAAATCAAAGCA
*
40098091 TAAAAAATATCACACATGAGTTAACACACATTATAGGCAATAAAATAAATATTAAATTATTTTTA
66 TAAAAAATATCACACATGAATTAACACACATTATAGGCAATAAAATAAATATTAAATTATTTTTA
* **
40098156 TGCCTTGGTTTTGTGGTCCCGAAACCACATTTCGACTAGGGTCGTTTTAAGGCTGTCAC
131 TGCCTCGGTTTTGTGGTCCCGAAACCACATCCCGACTAGGGTCGTTTTAAGGCTGTCAC
*
40098215 ACTTTCAAAGTTTACTACTAGATCCTTTCTAGTGAAATTCACATTTATAACTCTAAATCGAAA-C
1 ACTTTCAAAGTTTACTACTAGATCCTTTCTAGTGAAATTCACATCTATAACTCTAAATC-AAAGC
* * * *
40098279 ATCAAAAATGTCACACATGAATTAACACATATTATAGGC-ATCAAAATAAATTTTAAATTATTTT
65 ATAAAAAATATCACACATGAATTAACACACATTATAGGCAAT-AAAATAAATATTAAATTATTTT
*
40098343 TATGCCTCGGTTTTGTGGTCCTGAAACCACATCCCGACTAGGGTC
129 TATGCCTCGGTTTTGTGGTCCCGAAACCACATCCCGACTAGGGTC
40098388 AATTTTGGGC
Statistics
Matches: 158, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
188 2 0.01
189 153 0.97
190 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (189 bp):
ACTTTCAAAGTTTACTACTAGATCCTTTCTAGTGAAATTCACATCTATAACTCTAAATCAAAGCA
TAAAAAATATCACACATGAATTAACACACATTATAGGCAATAAAATAAATATTAAATTATTTTTA
TGCCTCGGTTTTGTGGTCCCGAAACCACATCCCGACTAGGGTCGTTTTAAGGCTGTCAC
Found at i:40099851 original size:28 final size:29
Alignment explanation
Indices: 40099781--40099881 Score: 116
Period size: 28 Copynumber: 3.5 Consensus size: 29
40099771 ATAGTGAATC
*
40099781 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
*
40099810 CGCACACTTTGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
40099838 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
40099868 CGCACACTTAGTGC
1 CGCACACTTAGTGC
40099882 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 22 0.35
29 19 0.31
30 19 0.31
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:40101522 original size:31 final size:31
Alignment explanation
Indices: 40101484--40101562 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
40101474 TTTAACGGTT
40101484 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
40101515 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* * *
40101546 ATTGGTCTGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
40101563 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:40101633 original size:42 final size:42
Alignment explanation
Indices: 40101586--40101677 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
40101576 TGGCCCTTAG
* ** *
40101586 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
40101628 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
40101670 GCCCATTT
1 GCCCATTT
40101678 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:40101866 original size:26 final size:26
Alignment explanation
Indices: 40101822--40101971 Score: 248
Period size: 26 Copynumber: 5.8 Consensus size: 26
40101812 CCTCTTTAAT
*
40101822 AACTGGGGCA-AAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
40101847 AACTAGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
40101873 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
40101899 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
40101925 AACTGGGGCATAAGCCATTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
40101951 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
40101972 GCACTTCCTC
Statistics
Matches: 115, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 9 0.08
26 106 0.92
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:40102445 original size:20 final size:21
Alignment explanation
Indices: 40102420--40102459 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
40102410 TGGGTTCGAA
40102420 AGCCCATTG-GGCCCAATTTT
1 AGCCCATTGAGGCCCAATTTT
40102440 AGCCCATTGAGGCCCAATTT
1 AGCCCATTGAGGCCCAATTT
40102460 ACCATCGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (21 bp):
AGCCCATTGAGGCCCAATTTT
Found at i:40102864 original size:27 final size:27
Alignment explanation
Indices: 40102773--40102856 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
40102763 GGGCATATTC
* *
40102773 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
40102800 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
40102827 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
40102854 GTC
1 GTC
40102857 TTTTTACCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:40102948 original size:27 final size:27
Alignment explanation
Indices: 40102895--40103254 Score: 226
Period size: 27 Copynumber: 13.3 Consensus size: 27
40102885 TTTCATCCTA
* * * * *
40102895 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
** * *
40102922 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *** *
40102949 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTATAAA-T
* *
40102978 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAT
* *
40103005 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * * * *
40103032 TAAGGGTATTTCGATAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
40103058 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTATAAAT
* *
40103085 CTAGGGATATTTTGGTAATTTTACAAAT
1 CAAGGG-TATTTTGGTAATTTTATAAAT
** * * *
40103113 TGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * * *
40103140 CAGGGGTATTTTAGCAATTTTATAGA-
1 CAAGGGTATTTTGGTAATTTTATAAAT
* *
40103166 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAT
* * *
40103193 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAT
* * *
40103220 CAATGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAT
*
40103247 CGAGGGTA
1 CAAGGGTA
40103255 AAACAGTAAT
Statistics
Matches: 263, Mismatches: 60, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
26 26 0.10
27 207 0.79
28 17 0.06
29 13 0.05
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAT
Found at i:40103107 original size:81 final size:80
Alignment explanation
Indices: 40103008--40103240 Score: 322
Period size: 81 Copynumber: 2.9 Consensus size: 80
40102998 TGTAAATCAG
* * * *
40103008 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGATAATTTCACAAACCAGTGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGTGGTATTTTAG
40103073 TAATTTTACAAACTA
66 TAATTTTACAAACTA
*
40103088 GGGATATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTA
1 GGG-TATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGTGGTATTTTA
* * *
40103153 GCAATTTTATAGACTA
65 GTAATTTTACAAACTA
** * * ** *
40103169 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGTGGTATTTTAG
40103234 TAATTTT
66 TAATTTT
40103241 GTAAATCGAG
Statistics
Matches: 135, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 63 0.47
81 72 0.53
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGTGGTATTTTAG
TAATTTTACAAACTA
Found at i:40103249 original size:54 final size:54
Alignment explanation
Indices: 40102895--40103254 Score: 269
Period size: 54 Copynumber: 6.6 Consensus size: 54
40102885 TTTCATCCTA
* * * * ** *
40102895 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTATAAAC
* *** * * * *
40102949 CAATGGTATTTCCATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-TCAAGGGTATTT-TGGTAATTTTATAAAC
* * * * * *
40103005 CAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGATAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTATAAAC
* * *
40103059 C-AGTGGTATTTTGGTAATTTTACAAA-CTAGGGATATTTTGGTAATTTTACAAAT
1 CAAG-GGTATTTTGGTAATTTTACAAATCAAGGG-TATTTTGGTAATTTTATAAAC
** * * * * * *
40103113 TGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAGCAATTTTATAGA-
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTATAAAC
* ** * *
40103166 CTAGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTATAAAC
* * ** *
40103220 CAATGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTA
40103255 AAACAGTAAT
Statistics
Matches: 237, Mismatches: 60, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
53 46 0.19
54 136 0.57
55 20 0.08
56 35 0.15
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTATAAAC
Found at i:40103262 original size:27 final size:27
Alignment explanation
Indices: 40103232--40103360 Score: 174
Period size: 26 Copynumber: 4.9 Consensus size: 27
40103222 ATGGTATTTT
* *
40103232 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * *
40103259 AGTAATTTTGTAAATC-AAGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
40103285 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
40103312 -GATAATTCTATAAATCGAGGGT-AAAC
1 AG-TAATTCTATAAATCGAGGGTAAAAC
*
40103338 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
40103361 CTTTGGTAAT
Statistics
Matches: 94, Mismatches: 4, Indels: 8
0.89 0.04 0.08
Matches are distributed among these distances:
26 48 0.51
27 46 0.49
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:40103308 original size:53 final size:53
Alignment explanation
Indices: 40103232--40103360 Score: 172
Period size: 53 Copynumber: 2.4 Consensus size: 53
40103222 ATGGTATTTT
* * * *
40103232 AGTAATTTTGTAAATCGAGGGTAAAAC-AGTAATTTTGTAAATC-AAGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAACGA-TAATTCTATAAATCGAAGGT-AAAC
*
40103285 AGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAC
1 AGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAAGGTAAAC
*
40103338 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
40103361 CTTTGGTAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
53 63 0.93
54 5 0.07
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (53 bp):
AGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAAGGTAAAC
Found at i:40116719 original size:46 final size:46
Alignment explanation
Indices: 40116661--40116836 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
40116651 TCACTTGTGT
*
40116661 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACATTATG-A
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCT-CATTATGAA
*
40116707 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG--CATTGA-GAA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTCATT-ATGAA
* ** *
40116753 GAGCGCTAGTGTAAGACATATCTGGGACATGCATCGGCCTCAAGATGTA
1 GAGC-C-AGTGTAAGACATGTCTGGGACATGCATCGG-CTCATTATGAA
40116802 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
40116837 CATGAAATGT
Statistics
Matches: 112, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
45 6 0.05
46 54 0.48
47 29 0.26
48 19 0.17
49 4 0.04
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCATTATGAA
Found at i:40120100 original size:80 final size:80
Alignment explanation
Indices: 40120016--40120164 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
40120006 TATGGTAACC
* * * *
40120016 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
40120080 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
40120096 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
40120161 CCGG
66 CCGG
40120165 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:40120106 original size:40 final size:38
Alignment explanation
Indices: 40120057--40120164 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
40120047 ATCACGATTT
*
40120057 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
40120097 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
40120137 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
40120165 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:40128072 original size:80 final size:80
Alignment explanation
Indices: 40127988--40128136 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
40127978 TATGGTAACC
* * * *
40127988 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
40128052 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
40128068 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
40128133 CCGG
66 CCGG
40128137 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:40128078 original size:40 final size:38
Alignment explanation
Indices: 40128029--40128136 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
40128019 ATCACGATTT
*
40128029 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
40128069 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
40128109 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
40128137 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:40131460 original size:46 final size:46
Alignment explanation
Indices: 40131410--40131582 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
40131400 TGGTTGAGCA
*
40131410 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
40131456 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
40131503 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
40131549 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
40131583 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:40131566 original size:93 final size:93
Alignment explanation
Indices: 40131407--40131577 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
40131397 GGATGGTTGA
* *
40131407 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
40131472 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
40131500 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
40131565 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
40131578 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:40131844 original size:19 final size:20
Alignment explanation
Indices: 40131807--40131844 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40131797 ATAAGGTGGT
40131807 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
40131827 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
40131845 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:40138646 original size:80 final size:80
Alignment explanation
Indices: 40138562--40138710 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
40138552 TATGGTAACC
* * * *
40138562 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
40138626 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
40138642 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
40138707 CCGG
66 CCGG
40138711 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:40138652 original size:40 final size:38
Alignment explanation
Indices: 40138603--40138710 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
40138593 ATCACGATTT
*
40138603 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
40138643 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
40138683 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
40138711 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:40141907 original size:18 final size:21
Alignment explanation
Indices: 40141886--40141927 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
40141876 TGATAAATGT
40141886 ATGTATTA-A-AT-AAGAAAA
1 ATGTATTATAGATCAAGAAAA
40141904 ATGTATTATAGATCAAGAAAA
1 ATGTATTATAGATCAAGAAAA
40141925 ATG
1 ATG
40141928 AGATTCAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 1 0.05
20 2 0.10
21 10 0.48
ACGTcount: A:0.55, C:0.02, G:0.14, T:0.29
Consensus pattern (21 bp):
ATGTATTATAGATCAAGAAAA
Found at i:40141908 original size:22 final size:21
Alignment explanation
Indices: 40141880--40141927 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
40141870 GTGTTTTGAT
40141880 AAATGTATGTATTAAAT-AAGAA
1 AAATGTAT-TA-TAAATCAAGAA
*
40141902 AAATGTATTATAGATCAAGAA
1 AAATGTATTATAAATCAAGAA
40141923 AAATG
1 AAATG
40141928 AGATTCAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 12 0.50
22 8 0.33
ACGTcount: A:0.54, C:0.02, G:0.15, T:0.29
Consensus pattern (21 bp):
AAATGTATTATAAATCAAGAA
Found at i:40142423 original size:46 final size:46
Alignment explanation
Indices: 40142276--40142445 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
40142266 TGGTTGAGCA
*
40142276 TCCGAACTCGTTGAGTTGAGTCCGA-TTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
40142321 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACG
* *
40142366 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
40142413 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTT
40142446 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 28 0.27
46 61 0.59
47 4 0.04
49 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:40142434 original size:92 final size:91
Alignment explanation
Indices: 40142275--40142441 Score: 271
Period size: 92 Copynumber: 1.8 Consensus size: 91
40142265 ATGGTTGAGC
* * *
40142275 ATCCGAACTCGTTGAGTTGAGTCCGATTCACTTATGGATGCAAATGTCTGAACTCGTTGAGTTGA
1 ATCCGAACTCGTTGAGTTGAGTCCGATTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTGA
40142340 GTCCGAGTTCGTGAGATGTAACTAGG
66 GTCCGAGTTCGTGAGATGTAACTAGG
* * *
40142366 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGA-TTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTG
40142431 AGTCCGAGTTC
65 AGTCCGAGTTC
40142442 ACTTGGGGCG
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 26 0.38
92 43 0.62
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (91 bp):
ATCCGAACTCGTTGAGTTGAGTCCGATTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTGA
GTCCGAGTTCGTGAGATGTAACTAGG
Found at i:40142707 original size:19 final size:20
Alignment explanation
Indices: 40142670--40142707 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40142660 ATAAGGTGGT
40142670 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
40142690 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
40142708 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:40144562 original size:49 final size:49
Alignment explanation
Indices: 40144501--40144810 Score: 159
Period size: 49 Copynumber: 6.6 Consensus size: 49
40144491 ATCAAAGTCA
40144501 ATGCCATGTCCCAGACAGGTCTTACACTGACT-TTCATATATCG-TGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTT-ATATATCGAT-GCCG
* * * *
40144550 ATGCCGTGTCCCAGACAGGTCTTACACTGGCTCTTATCTATCGATGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTTATATATCGATGCCG
* * * * * * * *
40144599 ATGCCATGTCCCAAACAAGTCCTACACTAACAC--ACA-A-C-AAGCTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTTATATATCGATGCCG
* * * * *
40144643 ACGCCATGTCCCAGATAGGTCCTACACT-AGCT-TCTATATCTCGAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTCT-TATATATCGATGCCG
* * * ** * *
40144692 ATG-CATCTCCCATACATGTCTTACACT-AGCTCTCGTCT-T-AATGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTCTTATATATCGATGCCG
* * * * **
40144738 ATG-CATGTCCCAGACATGTGTTACACTGGCTCTCATA-AT-GGGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTTATATATCGATGCCG
* * *
40144784 ATG-CATGCCCCAAACATGTCTTACACT
1 ATGCCATGTCCCAGACAGGTCTTACACT
40144811 AGCACACATA
Statistics
Matches: 201, Mismatches: 48, Indels: 27
0.73 0.17 0.10
Matches are distributed among these distances:
43 1 0.00
44 28 0.14
45 1 0.00
46 67 0.33
47 2 0.01
48 26 0.13
49 73 0.36
50 3 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCTTATATATCGATGCCG
Found at i:40144626 original size:98 final size:97
Alignment explanation
Indices: 40144449--40144626 Score: 223
Period size: 98 Copynumber: 1.8 Consensus size: 97
40144439 TAGATAAGAT
*
40144449 GCCGATGCAATGTCCCAGACATGGTCTTGCACTGGCTAGCACATCAAAGTCAATGCCATGTCCCA
1 GCCGATGCAATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCAATGCCATGTCCCA
* * *
40144514 GACAGGTCTTACACTGACTTTCATATATCGTG
66 AACAAGTCCTACACTGACTTTCATATATCGTG
** *** * * *
40144546 GCCGATGCCGTGTCCCAGACA-GGTCTTACACTGGCTCTTATCTATCGATGTCGATGCCATGTCC
1 GCCGATGCAATGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATCAAAGTCAATGCCATGTCC
40144610 CAAACAAGTCCTACACT
64 CAAACAAGTCCTACACT
40144627 AACACACAAC
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
96 15 0.22
97 20 0.30
98 32 0.48
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (97 bp):
GCCGATGCAATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCAATGCCATGTCCCA
AACAAGTCCTACACTGACTTTCATATATCGTG
Found at i:40144749 original size:46 final size:46
Alignment explanation
Indices: 40144686--40144813 Score: 148
Period size: 46 Copynumber: 2.8 Consensus size: 46
40144676 CTATATCTCG
* * * **
40144686 AGGCCGATGCATCTCCCATACATGTCTTACACTAGCTCTCGTCTTA
1 AGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAATA
* * * * *
40144732 ATGCCGATGCATGTCCCAGACATGTGTTACACTGGCTCTCATAATG
1 AGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAATA
* *
40144778 GGGCCGATGCATGCCCCAAACATGTCTTACACTAGC
1 AGGCCGATGCATGTCCCAAACATGTCTTACACTAGC
40144814 ACACATATCA
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
AGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAATA
Found at i:40155890 original size:29 final size:29
Alignment explanation
Indices: 40155857--40155929 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
40155847 GTGACGAGAT
40155857 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
40155886 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
40155915 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
40155930 GAGCTCGAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:40160635 original size:40 final size:40
Alignment explanation
Indices: 40160590--40160759 Score: 189
Period size: 40 Copynumber: 4.2 Consensus size: 40
40160580 CGGAATACAA
* *
40160590 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTATTAGC
* * *
40160630 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTATTAGC
* * *
40160670 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTATTATC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTATTAGC
* *** * * *
40160710 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAAT-GCCTTCGGGTATTAGC
40160750 CCGGATATAA
1 CCGGATATAA
40160760 TTACTAGCAT
Statistics
Matches: 108, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 3 0.03
40 105 0.97
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTATTAGC
Found at i:40160730 original size:80 final size:80
Alignment explanation
Indices: 40160590--40160759 Score: 209
Period size: 80 Copynumber: 2.1 Consensus size: 80
40160580 CGGAATACAA
* * *
40160590 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTATTAGCCCGGATAGAACGACTAGCAC-AATG
*
40160654 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * * * **
40160670 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTATTATCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTATTAGCCCGGAT-AGAACGACTAGCACAATG
*
40160734 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
40160750 CCGGATATAA
1 CCGGATATAA
40160760 TTACTAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
79 3 0.04
80 71 0.93
81 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTATTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:40160766 original size:40 final size:40
Alignment explanation
Indices: 40160590--40160795 Score: 168
Period size: 40 Copynumber: 5.2 Consensus size: 40
40160580 CGGAATACAA
* *
40160590 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTA-GCACGAATGCCTTCGGGTATTAGC
* * * *
40160630 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTATTAGC
* * *
40160670 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTATTATC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTATTAGC
* ** * *
40160710 CCGGATGTGGTC-ACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATAT-AACAACTAGCACGAAT-GCCTTCGGGTATTAGC
** ** * *
40160750 CCGGATATAATTACTAGCATAAATGTCTTCGTG-ACTTAGC
1 CCGGATATAACAACTAGCACGAATGCCTTCGGGTA-TTAGC
40160790 CCGGAT
1 CCGGAT
40160796 CTCATTCAAT
Statistics
Matches: 135, Mismatches: 25, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
39 3 0.02
40 128 0.95
41 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACGAATGCCTTCGGGTATTAGC
Found at i:40167182 original size:58 final size:59
Alignment explanation
Indices: 40167064--40167225 Score: 195
Period size: 58 Copynumber: 2.8 Consensus size: 59
40167054 GTGACGAGAT
* *
40167064 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTGGAAAAATA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
***
40167122 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
* ** * **
40167180 TGGCACTGTGTGTGCGGGCT-TAAATCGCATGGCACTAAGTGTGCGA
1 TGGCACTGAGTGTGCATGCTGGAAAT-ATATGGCACTAAGTGTGCGA
40167226 AATCGAGTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 86 0.95
59 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (59 bp):
TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
Found at i:40167186 original size:29 final size:29
Alignment explanation
Indices: 40167064--40167165 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
40167054 GTGACGAGAT
40167064 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
40167093 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
40167122 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
40167151 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
40167166 GAGCTCGAAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:40191239 original size:34 final size:34
Alignment explanation
Indices: 40191201--40191267 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
40191191 TAGTAACAGT
* *
40191201 TCAGTTTCAGT-TAGGGCCTTAGCCTATTACAATA
1 TCAGTATCAGTGT-GGGCCTTAGCCCATTACAATA
*
40191235 TCAGTATCAGTGTGGGCCTTAGCCCATTTCAAT
1 TCAGTATCAGTGTGGGCCTTAGCCCATTACAAT
40191268 GTCGATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (34 bp):
TCAGTATCAGTGTGGGCCTTAGCCCATTACAATA
Found at i:40195669 original size:50 final size:50
Alignment explanation
Indices: 40195542--40195945 Score: 380
Period size: 50 Copynumber: 8.0 Consensus size: 50
40195532 CCAATGATCC
* * * ***
40195542 ATTGTAAGATCACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAG
1 ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
* * * * *
40195592 ATAGTTTTAGGTCACGTGTGTAGTACTAAGTGTACGCTACTACGTGTACCAG
1 AT--TGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
* ** **
40195644 ATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTATTAG
1 ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
* ** *
40195694 ATGGTTAGGTCACATGTGTAGTACTAAGTTTAGGCTACCATGTGTACC-G
1 ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
* * * **
40195743 AATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTTG
1 -ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
* * * ** * * *
40195794 -TTAACTTTGATCACATGTGTAGTACTAAAAGAAGGCTACTACGTGTATCAG
1 ATT--GTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
* * * * *
40195845 ATGGCTAAGTCACGTGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAG
1 ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
* * *
40195895 ATTGATAGGTCACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAG
1 ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
40195945 A
1 A
40195946 GAGCTTCGGT
Statistics
Matches: 278, Mismatches: 69, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
49 3 0.01
50 200 0.72
51 35 0.13
52 40 0.14
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (50 bp):
ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
Found at i:40195841 original size:151 final size:151
Alignment explanation
Indices: 40195656--40195941 Score: 430
Period size: 151 Copynumber: 1.9 Consensus size: 151
40195646 TGTTAGGTCG
** * * * *
40195656 CATGTGTAGTACTAAGTGCAGGCTACTACATGTATTAGATGGTTAGGTCACATGTGTAGTACTAA
1 CATGTGTAGTACTAAAAGAAGGCTACTACATGTATCAGATGGCTAAGTCACATGTGTAGTACTAA
** * *
40195721 GTTTAGGCTACCATGTGTACC-GAATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTAT
66 GTGCAAGCTACCATGTGTACCAG-ATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTAT
40195785 GCGTACTTGTTAACTTTGATCA
130 GCGTACTTGTTAACTTTGATCA
* *
40195807 CATGTGTAGTACTAAAAGAAGGCTACTACGTGTATCAGATGGCTAAGTCACGTGTGTAGTACTAA
1 CATGTGTAGTACTAAAAGAAGGCTACTACATGTATCAGATGGCTAAGTCACATGTGTAGTACTAA
* *
40195872 GTGCAAGCTACTATGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGTAGGCTACTATG
66 GTGCAAGCTACCATGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
40195937 CGTAC
131 CGTAC
40195942 CAGAGAGCTT
Statistics
Matches: 120, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
151 119 0.99
152 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (151 bp):
CATGTGTAGTACTAAAAGAAGGCTACTACATGTATCAGATGGCTAAGTCACATGTGTAGTACTAA
GTGCAAGCTACCATGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
CGTACTTGTTAACTTTGATCA
Found at i:40195906 original size:201 final size:201
Alignment explanation
Indices: 40195554--40195942 Score: 494
Period size: 201 Copynumber: 1.9 Consensus size: 201
40195544 TGTAAGATCA
* * ** * *
40195554 CATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTCACGTGTGTAGTACT
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTTT-AGATAACTTTAGATCACATGTGTAGTACT
** * * * * * *
40195619 AAGTGTACGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
65 AAAAGAACGCTACTACGTGTACCAGATGGCTAAGTCACATGTGTAGTACTAAGTGCAAGCTACTA
** * * *
40195684 CATGTATTAGATGGTTAGGTCACATGTGTAGTACTAAGTTTAGGCTACCATGTGTACCGAATTGA
130 CATGTACCAGATGGATAGGTCACATGTGTAGTACTAAGTGTAGGCTACCATGCGTACCGAATTGA
40195749 TAGGTCG
195 TAGGTCG
*
40195756 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTT-GTTAACTTT-GATCACATGTGTAGTAC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGT--TTAGATAACTTTAGATCACATGTGTAGTAC
* * *
40195819 TAAAAGAAGGCTACTACGTGTATCAGATGGCTAAGTCACGTGTGTAGTACTAAGTGCAAGCTACT
64 TAAAAGAACGCTACTACGTGTACCAGATGGCTAAGTCACATGTGTAGTACTAAGTGCAAGCTACT
** * *
40195884 ATGTGTACCAGATTGATAGGTCACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACC
129 ACATGTACCAGATGGATAGGTCACATGTGTAGTACTAAGTGTAGGCTACCATGCGTACC
40195943 AGAGAGCTTC
Statistics
Matches: 158, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
201 119 0.75
202 37 0.23
204 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (201 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTTTAGATAACTTTAGATCACATGTGTAGTACTA
AAAGAACGCTACTACGTGTACCAGATGGCTAAGTCACATGTGTAGTACTAAGTGCAAGCTACTAC
ATGTACCAGATGGATAGGTCACATGTGTAGTACTAAGTGTAGGCTACCATGCGTACCGAATTGAT
AGGTCG
Found at i:40199503 original size:15 final size:15
Alignment explanation
Indices: 40199460--40199519 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
40199450 TTATGATATG
*
40199460 TATCTTGGATTTCCT
1 TATCTTGGATTTCTT
40199475 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
40199490 TATCTTGGACTTCTT
1 TATCTTGGATTTCTT
* * *
40199505 AATCCTGGTTTTCTT
1 TATCTTGGATTTCTT
40199520 GTTATCTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.55
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:40202573 original size:50 final size:50
Alignment explanation
Indices: 40202489--40202824 Score: 379
Period size: 50 Copynumber: 6.7 Consensus size: 50
40202479 AAGACAGTTT
* * * * *
40202489 TAGGTCACGTGTGTAGTACTAAATACAGGTTACTACGTGTACCAGATTGT
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGA
* * * ** * * *
40202539 TATGTCGCATGTGTAGTACTAAGTGCAGGCTACTATATGTACCCA-ATAGTT
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATTG-A
* * * * *
40202590 TCGATCACGTGTGTAGTACTAAGT-CTAGGCTACTACATGTATCAGATGGT
1 TAGGTCACGTGTGTAGTACTAAGTGC-AGGCTACTACGTGTATCAGATTGA
*
40202640 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATTGA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGA
* * *
40202690 TAGGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACATGTATTAGATTGA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGA
* * * *
40202740 TAAGTCATGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATAAGATTGA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGA
**
40202790 TAGGTCATATGTGTAGTACTAAGTGCAGGCTACTA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
40202825 TGCGTACCAG
Statistics
Matches: 245, Mismatches: 36, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
50 204 0.83
51 41 0.17
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (50 bp):
TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGA
Found at i:40203056 original size:16 final size:16
Alignment explanation
Indices: 40203035--40203066 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
40203025 AGAATGGAGT
40203035 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
40203051 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
40203067 TAAAACAATT
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:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:40204841 original size:11 final size:11
Alignment explanation
Indices: 40204825--40204851 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
40204815 ATCCACGACG
40204825 ATCCATACTAA
1 ATCCATACTAA
40204836 ATCCATACTAA
1 ATCCATACTAA
40204847 ATCCA
1 ATCCA
40204852 CTAATGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (11 bp):
ATCCATACTAA
Found at i:40209263 original size:34 final size:33
Alignment explanation
Indices: 40209220--40209291 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 33
40209210 CGTATTAGTA
40209220 ACAGTTCAGT-TTCAGT-TAGGGCCTTAGCCCATT
1 ACAGTTCAGTATT-AGTGT-GGGCCTTAGCCCATT
40209253 ACAGTATCAGTATTAGTGTGGGCCTTAGCCCATT
1 ACAGT-TCAGTATTAGTGTGGGCCTTAGCCCATT
*
40209287 TCAGT
1 ACAGT
40209292 GTCGATAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
33 5 0.14
34 27 0.77
35 3 0.09
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (33 bp):
ACAGTTCAGTATTAGTGTGGGCCTTAGCCCATT
Found at i:40210673 original size:40 final size:40
Alignment explanation
Indices: 40210614--40210814 Score: 273
Period size: 40 Copynumber: 5.0 Consensus size: 40
40210604 TGGATGATAA
* * * *
40210614 CCGGGCTAAGT-CCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
* *
40210653 CCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
*
40210693 CCGGACTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
40210733 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * *
40210773 CCGGGCTATGTCCCGAAGGCAGTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
40210813 CC
1 CC
40210815 AGTTAAATCC
Statistics
Matches: 150, Mismatches: 9, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
39 13 0.09
40 137 0.91
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:40214930 original size:55 final size:55
Alignment explanation
Indices: 40214846--40214959 Score: 201
Period size: 55 Copynumber: 2.1 Consensus size: 55
40214836 GCTTAAACTT
* * *
40214846 AAACTTTATACTTAGCCATTTTTGCATGGCTTAGTATATACACAACCTCAAAATC
1 AAACTTTATACTTAGCAATTTTCGCATGGCTTAATATATACACAACCTCAAAATC
40214901 AAACTTTATACTTAGCAATTTTCGCATGGCTTAATATATACACAACCTCAAAATC
1 AAACTTTATACTTAGCAATTTTCGCATGGCTTAATATATACACAACCTCAAAATC
40214956 AAAC
1 AAAC
40214960 ATATTAACTA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (55 bp):
AAACTTTATACTTAGCAATTTTCGCATGGCTTAATATATACACAACCTCAAAATC
Found at i:40219109 original size:40 final size:40
Alignment explanation
Indices: 40219064--40219230 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
40219054 CGGAATATAA
40219064 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
40219104 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
40219144 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
40219184 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
40219223 CCGGATAT
1 CCGGATAT
40219231 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:40219214 original size:80 final size:79
Alignment explanation
Indices: 40219064--40219230 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
40219054 CGGAATATAA
* *
40219064 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
40219129 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
40219144 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
40219206 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
40219223 CCGGATAT
1 CCGGATAT
40219231 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:40220079 original size:17 final size:19
Alignment explanation
Indices: 40220056--40220101 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
40220046 AAGAAGCATG
40220056 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
40220074 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
40220092 AATCATGCTC
1 AATCATGCTC
40220102 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:40227114 original size:40 final size:40
Alignment explanation
Indices: 40227069--40227235 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
40227059 CGGAATATAA
40227069 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
40227109 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
40227149 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
40227189 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
40227228 CCGGATAT
1 CCGGATAT
40227236 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:40227219 original size:80 final size:79
Alignment explanation
Indices: 40227069--40227235 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
40227059 CGGAATATAA
* *
40227069 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
40227134 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
40227149 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
40227211 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
40227228 CCGGATAT
1 CCGGATAT
40227236 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:40228083 original size:17 final size:19
Alignment explanation
Indices: 40228060--40228105 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
40228050 AAGAAGCATG
40228060 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
40228078 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
40228096 AATCATGCTC
1 AATCATGCTC
40228106 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:40231331 original size:40 final size:40
Alignment explanation
Indices: 40231286--40231452 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
40231276 CGGAATATAA
40231286 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
40231326 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
40231366 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
40231406 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
40231445 CCGGATAT
1 CCGGATAT
40231453 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:40239317 original size:40 final size:40
Alignment explanation
Indices: 40239272--40239438 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
40239262 CGGAATATAA
40239272 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
40239312 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
40239352 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
40239392 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
40239431 CCGGATAT
1 CCGGATAT
40239439 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:40239422 original size:80 final size:79
Alignment explanation
Indices: 40239288--40239438 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
40239278 ATAATCACGT
*
40239288 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
40239353 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
40239368 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
40239431 CCGGATAT
64 CCGGATAT
40239439 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:40242664 original size:27 final size:27
Alignment explanation
Indices: 40242613--40242681 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
40242603 GTAGGCTAGC
* * *
40242613 ATTACTGAAATACCCTTGTAGGGTAGA
1 ATTACTGAAATACCCCTATAAGGTAGA
*
40242640 ATTACTGAAATGCCCCTATAAGGTAGA
1 ATTACTGAAATACCCCTATAAGGTAGA
**
40242667 ATTACCAAAATACCC
1 ATTACTGAAATACCC
40242682 TTGGTTTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (27 bp):
ATTACTGAAATACCCCTATAAGGTAGA
Found at i:40242696 original size:27 final size:27
Alignment explanation
Indices: 40242666--40242844 Score: 157
Period size: 27 Copynumber: 6.6 Consensus size: 27
40242656 TATAAGGTAG
*
40242666 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTGTAA
40242693 AATTACCAAAATA-CCTCTGGTTTGTAA
1 AATTACCAAAATACCCT-TGGTTTGTAA
*
40242720 AATTACCAAAATACTCC-TAGTTTGTAA
1 AATTACCAAAATAC-CCTTGGTTTGTAA
** *
40242747 AATTACCAAAATA-CCTCTAATTTGTGA
1 AATTACCAAAATACCCT-TGGTTTGTAA
** * ***
40242774 AATTACTGAAATACCCTCGACCTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
** * **
40242801 AATTACTGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAA
*
40242828 AATTACCAAAGTACCCT
1 AATTACCAAAATACCCT
40242845 AGATTTACAG
Statistics
Matches: 131, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
25 2 0.02
26 3 0.02
27 121 0.92
28 3 0.02
29 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTGTAA
Found at i:40242724 original size:54 final size:54
Alignment explanation
Indices: 40242666--40242844 Score: 191
Period size: 54 Copynumber: 3.3 Consensus size: 54
40242656 TATAAGGTAG
* *
40242666 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCTCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCTCTGATTTGTAA
* * *
40242720 AATTACCAAAATACTCC-TAGTTTGTAAAATTACCAAAATACCTCTAATTTGTGA
1 AATTACCAAAATAC-CCTTGGTTTGTAAAATTACCAAAATACCTCTGATTTGTAA
** * *** ** *
40242774 AATTACTGAAATACCCTCGACCTGTAAAATTACTGAAATACC-CTCGACTTGTAA
1 AATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCTCT-GATTTGTAA
*
40242828 AATTACCAAAGTACCCT
1 AATTACCAAAATACCCT
40242845 AGATTTACAG
Statistics
Matches: 102, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
53 4 0.04
54 96 0.94
55 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
AATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCTCTGATTTGTAA
Found at i:40242777 original size:81 final size:80
Alignment explanation
Indices: 40242666--40242861 Score: 189
Period size: 81 Copynumber: 2.4 Consensus size: 80
40242656 TATAAGGTAG
** ***
40242666 AATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATA-CCTCTGGTTTGTAAAATTACCAAA
1 AATTACCAAAATACCC-TAATTTATAAAATTACCAAAATACCCTC-GACCTGTAAAATTACCAAA
*
40242730 ATACTCCTAG-TTTGTAA
64 ATAC-CCTAGACTTGTAA
* * ** **
40242747 AATTACCAAAATACCTCTAATTTGTGAAATTACTGAAATACCCTCGACCTGTAAAATTACTGAAA
1 AATTACCAAAATACC-CTAATTTATAAAATTACCAAAATACCCTCGACCTGTAAAATTACCAAAA
*
40242812 TACCCTCGACTTGTAA
65 TACCCTAGACTTGTAA
* * *
40242828 AATTACCAAAGTACCCTAGATTTACAGAATTACC
1 AATTACCAAAATACCCTA-ATTTATAAAATTACC
40242862 GTTTTACCTT
Statistics
Matches: 92, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
80 7 0.08
81 80 0.87
82 5 0.05
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (80 bp):
AATTACCAAAATACCCTAATTTATAAAATTACCAAAATACCCTCGACCTGTAAAATTACCAAAAT
ACCCTAGACTTGTAA
Found at i:40242869 original size:27 final size:27
Alignment explanation
Indices: 40242839--40243167 Score: 433
Period size: 27 Copynumber: 12.2 Consensus size: 27
40242829 ATTACCAAAG
* *
40242839 TACCCTAGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
40242866 TACCTTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
40242893 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
40242920 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
40242947 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * **
40242974 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTT
* *
40243001 TACCCTCTATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
40243028 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
40243055 TACCCTCGATTTACAGAATTATCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
40243082 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
40243109 TACCTTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
40243136 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
40243163 TACCC
1 TACCC
40243168 CTACGGTGTT
Statistics
Matches: 265, Mismatches: 37, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 265 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:40242884 original size:81 final size:81
Alignment explanation
Indices: 40242812--40243167 Score: 478
Period size: 81 Copynumber: 4.4 Consensus size: 81
40242802 ATTACTGAAA
* * *** * * *
40242812 TACCCTCGACTTGTAAAATTACCAAAGTACCCTAGATTTACAGAATTACCGTTTTACCTTCGATT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
*
40242877 TACAAAATTACCGTTT
66 TACAGAATTACCGTTT
* * * *
40242893 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
* *
40242958 TATAGAATTATCGTTT
66 TACAGAATTACCGTTT
* * * *
40242974 TACCCTCGATTTATAGAATTACTATTTTACCCTCTATTTACAAAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
40243039 TACAGAATTACCGTTT
66 TACAGAATTACCGTTT
* * * * *
40243055 TACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTACAAAATTACTGTTTTACCTTCGATT
1 TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
*
40243120 TACAGAATTACCATTT
66 TACAGAATTACCGTTT
*
40243136 TACCCTCAATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTATAAAATTACCATTTTACCC
40243168 CTACGGTGTT
Statistics
Matches: 238, Mismatches: 37, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 238 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
TACAGAATTACCGTTT
Found at i:40243447 original size:27 final size:26
Alignment explanation
Indices: 40243403--40243454 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
40243393 CTCGCTGCAA
*
40243403 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
40243430 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
40243455 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:40243709 original size:31 final size:31
Alignment explanation
Indices: 40243671--40243780 Score: 130
Period size: 31 Copynumber: 3.4 Consensus size: 31
40243661 TTGCATTCAC
* *
40243671 ATTCTGATTTTGATTCTGTCACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
* *
40243702 ATTCTGATTCTAATTCTGTCACCTTATTCTGATTCAG
1 ATTCTGATTCTGATTCTGTCA-C-----CTGATTCTG
40243739 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
40243770 ATTCTGATTCT
1 ATTCTGATTCT
40243781 CATTTGGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
31 38 0.57
32 1 0.01
36 1 0.01
37 27 0.40
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATTCTG
Found at i:40243710 original size:6 final size:6
Alignment explanation
Indices: 40243671--40243801 Score: 74
Period size: 6 Copynumber: 21.3 Consensus size: 6
40243661 TTGCATTCAC
* * * *
40243671 ATTCTG ATTTTG ATTCTG -TCACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
40243720 -TCACCTT ATTCTG ATTCAG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
*
40243770 ATTCTG ATTCTC ATT-TGG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCT-G ATTCTG A-TTCTG AT
40243802 AATGTTTCTT
Statistics
Matches: 95, Mismatches: 17, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
5 5 0.05
6 77 0.81
7 10 0.11
8 3 0.03
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:40243791 original size:37 final size:36
Alignment explanation
Indices: 40243671--40243792 Score: 146
Period size: 37 Copynumber: 3.4 Consensus size: 36
40243661 TTGCATTCAC
*
40243671 ATTCTGATTTTGATTCTGTCACCTGATACTGATTCTG
1 ATTCTGA-TTTGATTCTGTCACCTGATTCTGATTCTG
* *
40243708 ATTCT-A----ATTCTGTCACCTTATTCTGATTCAG
1 ATTCTGATTTGATTCTGTCACCTGATTCTGATTCTG
40243739 ATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTG
1 ATTCTGATT-TGATTCTGTCACCTGATTCTGATTCTG
*
40243776 ATTCTCATTTGGATTCT
1 ATTCTGATTT-GATTCT
40243793 AGTTCTGATA
Statistics
Matches: 72, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
31 27 0.38
32 1 0.01
36 2 0.03
37 42 0.58
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (36 bp):
ATTCTGATTTGATTCTGTCACCTGATTCTGATTCTG
Found at i:40246834 original size:18 final size:18
Alignment explanation
Indices: 40246811--40246846 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
40246801 TAAGAAGAAG
40246811 ATGAACACATTTTGGCCT
1 ATGAACACATTTTGGCCT
40246829 ATGAACACATTTTGGCCT
1 ATGAACACATTTTGGCCT
40246847 TAATTTCCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (18 bp):
ATGAACACATTTTGGCCT
Found at i:40257204 original size:40 final size:40
Alignment explanation
Indices: 40257159--40257326 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
40257149 CGGAATACAA
40257159 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
40257199 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
40257239 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
40257279 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
40257319 CCGGATAT
1 CCGGATAT
40257327 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:40265169 original size:40 final size:40
Alignment explanation
Indices: 40265124--40265291 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
40265114 CGGAATACAA
40265124 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
40265164 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
40265204 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
40265244 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
40265284 CCGGATAT
1 CCGGATAT
40265292 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:40272935 original size:42 final size:42
Alignment explanation
Indices: 40272877--40273039 Score: 213
Period size: 42 Copynumber: 3.8 Consensus size: 42
40272867 GTAATTCAGT
* *
40272877 TTCGATGCCTCTGTCCCAGACACGGTCTTACACGAAATTAGA
1 TTCGATGCCTATGTCCCAGACATGGTCTTACACGAAATTAGA
* * *
40272919 TTCGACGCCTATGTCCCAGACATGGTCTTACACAAAATCAGA
1 TTCGATGCCTATGTCCCAGACATGGTCTTACACGAAATTAGA
*
40272961 TTCCATGCCTATGTCCCAGACATGGTCTTACACGTAAATCTCA-A
1 TTCGATGCCTATGTCCCAGACATGGTCTTACACG-AAAT-T-AGA
*
40273005 GTT-GAGGCCTATGTCCCAGACATGGTCTTACACGA
1 -TTCGATGCCTATGTCCCAGACATGGTCTTACACGA
40273040 TATCTCAAAT
Statistics
Matches: 106, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
42 68 0.64
43 5 0.05
44 30 0.28
45 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26
Consensus pattern (42 bp):
TTCGATGCCTATGTCCCAGACATGGTCTTACACGAAATTAGA
Found at i:40272988 original size:84 final size:86
Alignment explanation
Indices: 40272872--40273037 Score: 241
Period size: 84 Copynumber: 2.0 Consensus size: 86
40272862 TTCATGTAAT
* * *
40272872 TCAGTTTCGATGCCTCTGTCCCAGACACGGTCTTACACG-AAAT-T--AGATTCGACGCCTATGT
1 TCAGATTCCATGCCTATGTCCCAGACACGGTCTTACACGTAAATCTCAAG-TT-GACGCCTATGT
40272933 CCCAGACATGGTCTTACACAAAA
64 CCCAGACATGGTCTTACACAAAA
* *
40272956 TCAGATTCCATGCCTATGTCCCAGACATGGTCTTACACGTAAATCTCAAGTTGAGGCCTATGTCC
1 TCAGATTCCATGCCTATGTCCCAGACACGGTCTTACACGTAAATCTCAAGTTGACGCCTATGTCC
40273021 CAGACATGGTCTTACAC
66 CAGACATGGTCTTACAC
40273038 GATATCTCAA
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
84 35 0.48
85 4 0.05
86 30 0.41
87 2 0.03
88 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (86 bp):
TCAGATTCCATGCCTATGTCCCAGACACGGTCTTACACGTAAATCTCAAGTTGACGCCTATGTCC
CAGACATGGTCTTACACAAAA
Found at i:40273030 original size:44 final size:44
Alignment explanation
Indices: 40272846--40273046 Score: 209
Period size: 42 Copynumber: 4.7 Consensus size: 44
40272836 CAATGCCGAA
* * * * * * * *
40272846 GTCCCGGACGTGGTCTTTCATGTAAT-TCAGTTTCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGAAATCTCAGATTCGACGCCTAT
*
40272889 GTCCCAGACACGGTCTTACACGAAAT-T-AGATTCGACGCCTAT
1 GTCCCAGACATGGTCTTACACGAAATCTCAGATTCGACGCCTAT
* * *
40272931 GTCCCAGACATGGTCTTACAC-AAA-ATCAGATTCCATGCCTAT
1 GTCCCAGACATGGTCTTACACGAAATCTCAGATTCGACGCCTAT
*
40272973 GTCCCAGACATGGTCTTACACGTAAATCTCA-AGTT-GAGGCCTAT
1 GTCCCAGACATGGTCTTACACG-AAATCTCAGA-TTCGACGCCTAT
*
40273017 GTCCCAGACATGGTCTTACACGATATCTCA
1 GTCCCAGACATGGTCTTACACGAAATCTCA
40273047 AATCAATGTC
Statistics
Matches: 136, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
41 4 0.03
42 66 0.49
43 28 0.21
44 33 0.24
45 5 0.04
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACGAAATCTCAGATTCGACGCCTAT
Found at i:40276644 original size:13 final size:13
Alignment explanation
Indices: 40276626--40276651 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40276616 TTTATTGACG
40276626 ACATTTTGATTTA
1 ACATTTTGATTTA
40276639 ACATTTTGATTTA
1 ACATTTTGATTTA
40276652 TTCTAAGGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
ACATTTTGATTTA
Found at i:40285714 original size:57 final size:57
Alignment explanation
Indices: 40285613--40285728 Score: 155
Period size: 57 Copynumber: 2.0 Consensus size: 57
40285603 GAACATGAAC
* * * *
40285613 GTGATTGGGCCTAAATGGCCATATTAATGTGATTTGGGCCTAATGGGCTATATACAG
1 GTGATTGGGCCTAAATGGCCATATGAATATGATTTGGGCCTAATGGGCCAGATACAG
*
40285670 GTGATTTGGGCCT-AATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAG
1 GTGA-TTGGGCCTAAAT-GGCCATATGAATATGATTTGGGCCTAATGGGCCAGATACAG
40285727 GT
1 GT
40285729 ATGTGAATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
57 30 0.58
58 22 0.42
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (57 bp):
GTGATTGGGCCTAAATGGCCATATGAATATGATTTGGGCCTAATGGGCCAGATACAG
Found at i:40285716 original size:28 final size:28
Alignment explanation
Indices: 40285613--40285719 Score: 121
Period size: 29 Copynumber: 3.8 Consensus size: 28
40285603 GAACATGAAC
40285613 GTGA-TTGGGCCTAAAT-GGCCATATTAAT
1 GTGATTTGGGCCT-AATGGGCCATA-TAAT
* *
40285641 GTGATTTGGGCCTAATGGGCTATATACAG
1 GTGATTTGGGCCTAATGGGCCATATA-AT
40285670 GTGATTTGGGCCTAATGGGCCATATGAAT
1 GTGATTTGGGCCTAATGGGCCATAT-AAT
* *
40285699 ATGA-TTGGGCTTAATGGGCCA
1 GTGATTTGGGCCTAATGGGCCA
40285720 GATACAGGTA
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
28 25 0.36
29 43 0.62
30 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (28 bp):
GTGATTTGGGCCTAATGGGCCATATAAT
Found at i:40286026 original size:25 final size:26
Alignment explanation
Indices: 40286001--40286050 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
40285991 CCGTAATTAA
* *
40286001 GGAAAAATTACCGAAATACCCCTAAG
1 GGAAAAATGACCAAAATACCCCTAAG
*
40286027 GGCAAAATGACCAAAATACCCCTA
1 GGAAAAATGACCAAAATACCCCTA
40286051 GGTGTTGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.46, C:0.26, G:0.14, T:0.14
Consensus pattern (26 bp):
GGAAAAATGACCAAAATACCCCTAAG
Found at i:40287130 original size:44 final size:45
Alignment explanation
Indices: 40287070--40287227 Score: 118
Period size: 44 Copynumber: 3.6 Consensus size: 45
40287060 GAGTGTTTTT
*
40287070 GTGTAAGATCACGTTTGGGACATTGGCATCGAGTTCT-ATTTTAC
1 GTGTAAGACCACGTTTGGGACATTGGCATCGAGTTCTGATTTTAC
* ** **
40287114 GTGTAAGACCATGTTTGTTACATCAGCATC--GTATCTGATTTT--
1 GTGTAAGACCACGTTTGGGACATTGGCATCGAGT-TCTGATTTTAC
* * *
40287156 GTGTAAGACC-CTGTCTGGGACAATGGCATTGATGTT-TGA--TTAC
1 GTGTAAGACCAC-GTTTGGGACATTGGCATCGA-GTTCTGATTTTAC
* * *
40287199 ATGTAAGACCACATTTGGGACGTTGGCAT
1 GTGTAAGACCACGTTTGGGACATTGGCAT
40287228 TATATATCTT
Statistics
Matches: 86, Mismatches: 19, Indels: 19
0.69 0.15 0.15
Matches are distributed among these distances:
41 2 0.02
42 23 0.27
43 28 0.33
44 31 0.36
45 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (45 bp):
GTGTAAGACCACGTTTGGGACATTGGCATCGAGTTCTGATTTTAC
Found at i:40289420 original size:27 final size:27
Alignment explanation
Indices: 40289390--40289441 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
40289380 CCCCTAATTG
40289390 ATAAAATGACTATTATGCCCCTGTGTA
1 ATAAAATGACTATTATGCCCCTGTGTA
*
40289417 ATAAAATGACTATTATGCCTCTGTG
1 ATAAAATGACTATTATGCCCCTGTG
40289442 AGATGTATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (27 bp):
ATAAAATGACTATTATGCCCCTGTGTA
Done.