Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold32
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: 5587194
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.26
Warning! 895791 characters in sequence are not A, C, G, or T
File 30 of 33
Found at i:4367439 original size:85 final size:85
Alignment explanation
Indices: 4367250--4367442 Score: 219
Period size: 85 Copynumber: 2.3 Consensus size: 85
4367240 AGTCGATGGG
* * * *
4367250 CAGACGATGGATGAAGAAGTCTCTTAGGTTTGGGTAGATGGGCAGACAATTGATAAAGGAAGTCT
1 CAGACGATGGATGAAGAAGTCTCCTAGGTTTGAGTAGATGGGCAAACAATTGATAAAAGAAGTCT
* * ***
4367315 CCCAGGACTGAGTCGACGGG
66 CCCAGGACTAAGCCGACAAC
* *
4367335 TAGA-GAATGGATGAAGAAGTCTCCTAGGTTTGAGTCGATGGGCAAACAATTGATAAAAG-AGTC
1 CAGACG-ATGGATGAAGAAGTCTCCTAGGTTTGAGTAGATGGGCAAACAATTGATAAAAGAAGTC
* *
4367398 TCCCTGGTCTAAGCCGACAAC
65 TCCCAGGACTAAGCCGACAAC
* *
4367419 CAGACGATTGATAAAGGAAGTCTC
1 CAGACGATGGATGAA-GAAGTCTC
4367443 TCGAGACTGA
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
84 29 0.33
85 60 0.67
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.22
Consensus pattern (85 bp):
CAGACGATGGATGAAGAAGTCTCCTAGGTTTGAGTAGATGGGCAAACAATTGATAAAAGAAGTCT
CCCAGGACTAAGCCGACAAC
Found at i:4367483 original size:127 final size:127
Alignment explanation
Indices: 4367292--4367573 Score: 302
Period size: 127 Copynumber: 2.2 Consensus size: 127
4367282 GGTAGATGGG
* * * * *
4367292 CAGACAATTGATAAAGGAAGTCTC-CCAGGACTGAGTCGACGGGTAGAGAATGGATGAAGAAGTC
1 CAGACGATTGATAAAGGAAGTCTCTCGA-GACTGAGTCGAAGGGAAGAGAATGGATAAAGAAGTC
* * * * * * *
4367356 TCCTAGGTTTGAGTCGATGGGCAAACAATTGATAAAAGAGTCTCCCTGGTCTAAGCCGACAAC
65 TCCCAGGTCTAAGCCAATGGGCAAACAATTGATAAAAGAGTCTCCCGGGTCTAAGCCAACAAC
* *
4367419 CAGACGATTGATAAAGGAAGTCTCTCGAGACTGAGTC-AAGAGGAAGACGATTGG-TAAAGGAGT
1 CAGACGATTGATAAAGGAAGTCTCTCGAGACTGAGTCGAAG-GGAAGA-GAATGGATAAAGAAGT
* * ** * * **
4367482 CTCCCGGGTCTAAGCCAATGGGCAGATTATTGATAAAGGAGTCTCCCGGGTCTAAGCCAATAGG
64 CTCCCAGGTCTAAGCCAATGGGCAAACAATTGATAAAAGAGTCTCCCGGGTCTAAGCCAACAAC
*
4367546 CAGATGATTGATAAAGG-AGTCTCTCGAG
1 CAGACGATTGATAAAGGAAGTCTCTCGAG
4367574 TCTAAGCTGA
Statistics
Matches: 129, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
126 13 0.10
127 109 0.84
128 7 0.05
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (127 bp):
CAGACGATTGATAAAGGAAGTCTCTCGAGACTGAGTCGAAGGGAAGAGAATGGATAAAGAAGTCT
CCCAGGTCTAAGCCAATGGGCAAACAATTGATAAAAGAGTCTCCCGGGTCTAAGCCAACAAC
Found at i:4367519 original size:42 final size:42
Alignment explanation
Indices: 4367102--4367893 Score: 348
Period size: 42 Copynumber: 18.7 Consensus size: 42
4367092 TGAAGAAATT
* * * * *
4367102 TCCCAGGTCTAAGCCGATGGGCAGACGGTTGATGAAGAAGTC
1 TCCCGGGTCTAAGCCGATGGGCAGATGATTGATAAAGGAGTC
* ** * * *
4367144 ACCTAGGTCTAAGTCGATGGGCAGATGATTGAT-GAGAAGTC
1 TCCCGGGTCTAAGCCGATGGGCAGATGATTGATAAAGGAGTC
** * ** *
4367185 TCGTGGGTCTGAGTTGATGGGCAGACGATTGATAAAGGAAAGTC
1 TCCCGGGTCTAAGCCGATGGGCAGATGATTGATAAAGG--AGTC
* * * * * * * * *
4367229 TCCTGAGACTGAGTCGATGGGCAGACGATGGATGAAGAAGTC
1 TCCCGGGTCTAAGCCGATGGGCAGATGATTGATAAAGGAGTC
*** * ** ** **
4367271 TCTTAGGTTTGGGTAGATGGGCAGACAATTGATAAAGGAAGTC
1 TCCCGGGTCTAAGCCGATGGGCAGATGATTGATAAAGG-AGTC
* * * * * * * * *
4367314 TCCCAGGACTGAGTCGACGGGTAGA-GAATGGATGAAGAAGTC
1 TCCCGGGTCTAAGCCGATGGGCAGATG-ATTGATAAAGGAGTC
** * * * * ** *
4367356 TCCTAGGTTTGAGTCGATGGGCAAACAATTGATAAAAGAGTC
1 TCCCGGGTCTAAGCCGATGGGCAGATGATTGATAAAGGAGTC
* **** *
4367398 TCCCTGGTCTAAGCCGACAACCAGACGATTGATAAAGGAAGTC
1 TCCCGGGTCTAAGCCGATGGGCAGATGATTGATAAAGG-AGTC
* * * * * * * * *
4367441 TCTCGAGACTGAGTC-AAGAGGAAGACGATTGGTAAAGGAGTC
1 TCCCGGGTCTAAGCCGATG-GGCAGATGATTGATAAAGGAGTC
* *
4367483 TCCCGGGTCTAAGCCAATGGGCAGATTATTGATAAAGGAGTC
1 TCCCGGGTCTAAGCCGATGGGCAGATGATTGATAAAGGAGTC
* *
4367525 TCCCGGGTCTAAGCCAATAGGCAGATGATTGATAAAGGAGTC
1 TCCCGGGTCTAAGCCGATGGGCAGATGATTGATAAAGGAGTC
* * * *
4367567 TCTCGAGTCTAAGCTGATGGGCAAATGATTGATAAAGGAAGTC
1 TCCCGGGTCTAAGCCGATGGGCAGATGATTGATAAAGG-AGTC
* * * * * * * *
4367610 TCTCGGGACTGAGCCGACGAGTAGATGATTGATAAAGAAATC
1 TCCCGGGTCTAAGCCGATGGGCAGATGATTGATAAAGGAGTC
** * * * *
4367652 TCCCAAGTCTAAGTCGATGAGTAGATGATTGGTAAAGGAGTC
1 TCCCGGGTCTAAGCCGATGGGCAGATGATTGATAAAGGAGTC
* * * * * * *
4367694 TCCCAGGTTTAAGCTGACGAGCAGACGATTGATAAAGAAAGTC
1 TCCCGGGTCTAAGCCGATGGGCAGATGATTGATAAAG-GAGTC
* * * * * * * * *
4367737 TCTCGAGACTGAGTCGATGGGTAGATGATGGGTAAAAGAGTC
1 TCCCGGGTCTAAGCCGATGGGCAGATGATTGATAAAGGAGTC
** * *
4367779 TCCTAGGTCTAAGCTGATAGGCAGATGATTGATAAAGGAAGTC
1 TCCCGGGTCTAAGCCGATGGGCAGATGATTGATAAAGG-AGTC
** * * * * * * *
4367822 TTTCGGGACTAAACCAATGGGTAAACGATTGATAAAAGAAGTC
1 TCCCGGGTCTAAGCCGATGGGCAGATGATTGAT-AAAGGAGTC
* ** * *
4367865 TACCGGAACTGAGCCAATGGGCAGATGAT
1 TCCCGGGTCTAAGCCGATGGGCAGATGAT
4367894 GGATGAAGAT
Statistics
Matches: 561, Mismatches: 176, Indels: 25
0.74 0.23 0.03
Matches are distributed among these distances:
41 34 0.06
42 320 0.57
43 168 0.30
44 39 0.07
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.22
Consensus pattern (42 bp):
TCCCGGGTCTAAGCCGATGGGCAGATGATTGATAAAGGAGTC
Found at i:4367558 original size:169 final size:169
Alignment explanation
Indices: 4367383--4367707 Score: 375
Period size: 169 Copynumber: 1.9 Consensus size: 169
4367373 TGGGCAAACA
*
4367383 ATTGATAAAAGAGTCTCCCTG-GTCTAAGCCGACAACCAGACGATTGATAAAGGAAGTCTCTCGA
1 ATTGATAAAAGAGTCTCCC-GAGTCTAAGCCGACAACCAAACGATTGATAAAGGAAGTCTCTCGA
* * * * ** * *
4367447 GACTGAGTC-AAGAGGAAGACGATTGGTAAAGGAGTCTCCCGGGTCTAAGCCAATGGGCAGATTA
65 GACTGAGCCGAAGA-GAAGACGATTGATAAAGAAATCTCCCAAGTCTAAGCCAATGAGCAGATGA
*
4367511 TTGATAAAGGAGTCTCCCGGGTCTAAGCCAATAGGCAGATG
129 TTGATAAAGGAGTCTCCCAGGTCTAAGCCAATAGGCAGATG
* * * **** * *
4367552 ATTGATAAAGGAGTCTCTCGAGTCTAAGCTGATGGGCAAATGATTGATAAAGGAAGTCTCTCGGG
1 ATTGATAAAAGAGTCTCCCGAGTCTAAGCCGACAACCAAACGATTGATAAAGGAAGTCTCTCGAG
* * * * * *
4367617 ACTGAGCCGACGAGTAGATGATTGATAAAGAAATCTCCCAAGTCTAAGTCGATGAGTAGATGATT
66 ACTGAGCCGAAGAGAAGACGATTGATAAAGAAATCTCCCAAGTCTAAGCCAATGAGCAGATGATT
* *
4367682 GGTAAAGGAGTCTCCCAGGTTTAAGC
131 GATAAAGGAGTCTCCCAGGTCTAAGC
4367708 TGACGAGCAG
Statistics
Matches: 127, Mismatches: 27, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
168 1 0.01
169 123 0.97
170 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.23
Consensus pattern (169 bp):
ATTGATAAAAGAGTCTCCCGAGTCTAAGCCGACAACCAAACGATTGATAAAGGAAGTCTCTCGAG
ACTGAGCCGAAGAGAAGACGATTGATAAAGAAATCTCCCAAGTCTAAGCCAATGAGCAGATGATT
GATAAAGGAGTCTCCCAGGTCTAAGCCAATAGGCAGATG
Found at i:4367610 original size:127 final size:128
Alignment explanation
Indices: 4367383--4367893 Score: 453
Period size: 127 Copynumber: 4.0 Consensus size: 128
4367373 TGGGCAAACA
* * ** *
4367383 ATTGATAAAAGAGTCTCCCTGGTCTAAGCCGACAACCAGACGATTGATAAAGGAAGTCTCTCGAG
1 ATTGATAAAAGAGTCTCCCAGGTCTAAGCCGATAGGCAGATGATTGATAAAGGAAGTCTCTCGAG
* * * * * * *
4367448 ACTGAG-TCAAGAGG-AAGACGATTGGTAAAGG-AGTCTCCCGGGTCTAAGCCAATGGGCAGATT
66 ACTAAGCTGATG-GGCAA-ACGATTGATAAAGGAAGTCTCCCGGGACTGAGCCAATGGGCAGATG
* * *
4367510 ATTGATAAAGGAGTCTCCCGGGTCTAAGCCAATAGGCAGATGATTGATAAAGG-AGTCTCTCGAG
1 ATTGATAAAAGAGTCTCCCAGGTCTAAGCCGATAGGCAGATGATTGATAAAGGAAGTCTCTCGAG
* * * * * * *
4367574 TCTAAGCTGATGGGCAAATGATTGATAAAGGAAGTCTCTCGGGACTGAGCCGACGAGTAGATG
66 ACTAAGCTGATGGGCAAACGATTGATAAAGGAAGTCTCCCGGGACTGAGCCAATGGGCAGATG
* * * * * *
4367637 ATTGAT-AAAGAAATCTCCCAAGTCTAAGTCGAT-GAGTAGATGATTGGTAAAGG-AGTCTC-CC
1 ATTGATAAAAG-AGTCTCCCAGGTCTAAGCCGATAG-GCAGATGATTGATAAAGGAAGTCTCTCG
** * * * * * * * * *
4367698 AGGTTTAAGCTGACGAGCAGACGATTGATAAAGAAAGTCTCTCGAGACTGAGTCGATGGGTAGAT
64 A-GACTAAGCTGATGGGCAAACGATTGATAAAGGAAGTCTCCCGGGACTGAGCCAATGGGCAGAT
4367763 G
128 G
* * * * * *
4367764 ATGGGTAAAAGAGTCTCCTAGGTCTAAGCTGATAGGCAGATGATTGATAAAGGAAGTCTTTCGGG
1 ATTGATAAAAGAGTCTCCCAGGTCTAAGCCGATAGGCAGATGATTGATAAAGGAAGTCTCTCGAG
* ** * * * *
4367829 ACTAAACCAATGGGTAAACGATTGATAAAAGAAGTCTACCGGAACTGAGCCAATGGGCAGATG
66 ACTAAGCTGATGGGCAAACGATTGATAAAGGAAGTCTCCCGGGACTGAGCCAATGGGCAGATG
4367892 AT
1 AT
4367894 GGATGAAGAT
Statistics
Matches: 304, Mismatches: 70, Indels: 19
0.77 0.18 0.05
Matches are distributed among these distances:
126 35 0.12
127 210 0.69
128 58 0.19
129 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (128 bp):
ATTGATAAAAGAGTCTCCCAGGTCTAAGCCGATAGGCAGATGATTGATAAAGGAAGTCTCTCGAG
ACTAAGCTGATGGGCAAACGATTGATAAAGGAAGTCTCCCGGGACTGAGCCAATGGGCAGATG
Found at i:4367726 original size:169 final size:170
Alignment explanation
Indices: 4367424--4367743 Score: 394
Period size: 169 Copynumber: 1.9 Consensus size: 170
4367414 ACAACCAGAC
* * * * **
4367424 GATTGATAAAGGAAGTCTCTCGAGACTGAGTCAAGAGGAAGACGATTGGTAAAGGAGTCTCCCGG
1 GATTGATAAAGGAAGTCTCTCGAGACTGAGCCAAGAGGAAGACGATTGATAAAGAAATCTCCCAA
* * * * *
4367489 GTCTAAGCCAATGGGCAGATTATTGATAAAGGAGTCTCCCGGGTCTAAGCCAATAGGCAGATGAT
66 GTCTAAGCCAATGAGCAGATGATTGATAAAGGAGTCTCCCAGGTCTAAGCCAAGAGGCAGACGAT
*
4367554 TGATAAAG-GAGTCTCTCGAGTCTAAGCTGATGGGCAAAT
131 TGATAAAGAAAGTCTCTCGAGTCTAAGCTGATGGGCAAAT
* * * *
4367593 GATTGATAAAGGAAGTCTCTCGGGACTGAGCCGACGA-GTAGATGATTGATAAAGAAATCTCCCA
1 GATTGATAAAGGAAGTCTCTCGAGACTGAGCC-AAGAGGAAGACGATTGATAAAGAAATCTCCCA
* * * * * * *
4367657 AGTCTAAGTCGATGAGTAGATGATTGGTAAAGGAGTCTCCCAGGTTTAAGCTGACGA-GCAGACG
65 AGTCTAAGCCAATGAGCAGATGATTGATAAAGGAGTCTCCCAGGTCTAAGC-CAAGAGGCAGACG
4367721 ATTGATAAAGAAAGTCTCTCGAG
129 ATTGATAAAGAAAGTCTCTCGAG
4367744 ACTGAGTCGA
Statistics
Matches: 125, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
169 109 0.87
170 16 0.13
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (170 bp):
GATTGATAAAGGAAGTCTCTCGAGACTGAGCCAAGAGGAAGACGATTGATAAAGAAATCTCCCAA
GTCTAAGCCAATGAGCAGATGATTGATAAAGGAGTCTCCCAGGTCTAAGCCAAGAGGCAGACGAT
TGATAAAGAAAGTCTCTCGAGTCTAAGCTGATGGGCAAAT
Found at i:4367761 original size:85 final size:86
Alignment explanation
Indices: 4367499--4367833 Score: 315
Period size: 85 Copynumber: 4.0 Consensus size: 86
4367489 GTCTAAGCCA
* * * **
4367499 ATGGGCAGATTATTGATAAAGGAGTCTCCCGGGTCTAAGC-CAATAGGCAGATGATTGATAAAG-
1 ATGGGCAGATGATTGATAAAGGAGTCTCCCAGGTCTAAGCTGACGAGGCAGATGATTGATAAAGA
* *
4367562 GAGTCTCTCGAGTCTAAG-CTG
66 AAGTCTCTCGAGACTAAGTC-G
* * * * * * *
4367583 ATGGGCAAATGATTGATAAAGGAAGTCTCTCGGGACTGAGCCGACGA-GTAGATGATTGATAAAG
1 ATGGGCAGATGATTGATAAAGG-AGTCTCCCAGGTCTAAGCTGACGAGGCAGATGATTGATAAAG
* * *
4367647 AAA-TCTCCCAAGTCTAAGTCG
65 AAAGTCTCTCGAGACTAAGTCG
* * * * *
4367668 ATGAGTAGATGATTGGTAAAGGAGTCTCCCAGGTTTAAGCTGACGA-GCAGACGATTGATAAAGA
1 ATGGGCAGATGATTGATAAAGGAGTCTCCCAGGTCTAAGCTGACGAGGCAGATGATTGATAAAGA
*
4367732 AAGTCTCTCGAGACTGAGTCG
66 AAGTCTCTCGAGACTAAGTCG
* * * * * * *
4367753 ATGGGTAGATGATGGGTAAAAGAGTCTCCTAGGTCTAAGCTGA-TAGGCAGATGATTGATAAAGG
1 ATGGGCAGATGATTGATAAAGGAGTCTCCCAGGTCTAAGCTGACGAGGCAGATGATTGATAAAGA
* *
4367817 AAGTCTTTCGGGACTAA
66 AAGTCTCTCGAGACTAA
4367834 ACCAATGGGT
Statistics
Matches: 206, Mismatches: 39, Indels: 11
0.80 0.15 0.04
Matches are distributed among these distances:
84 57 0.28
85 145 0.70
86 4 0.02
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (86 bp):
ATGGGCAGATGATTGATAAAGGAGTCTCCCAGGTCTAAGCTGACGAGGCAGATGATTGATAAAGA
AAGTCTCTCGAGACTAAGTCG
Found at i:4367842 original size:85 final size:85
Alignment explanation
Indices: 4367463--4367844 Score: 225
Period size: 85 Copynumber: 4.5 Consensus size: 85
4367453 GTCAAGAGGA
* * * * * * * * * * *
4367463 AGACGATTGGTAAAG-GAGTCTCCCGGGTCTAAGCCAATGGGCAGATTATTGATAAAGGAGTCTC
1 AGACGATTGATAAAGAAAGTCTCTCGAGACTAAACCAATGGGTAGATGATGGGTAAAAGAGTCTC
* * *
4367527 CCGGGTCTAAGC-CAATAGGC
66 CCAGGTCTAAGCTGAAGA-GC
* * * * ** * * * * *
4367547 AGATGATTGATAAAG-GAGTCTCTCGAGTCTAAGCTGATGGGCAAATGATTGATAAAGGAAGTCT
1 AGACGATTGATAAAGAAAGTCTCTCGAGACTAAACCAATGGGTAGATGATGGGTAAAAG-AGTCT
* * * * * * *
4367611 CTCGGGACTGAGCCGACGAGT
65 CCCAGGTCTAAGCTGAAGAGC
* * * * ** * * * *
4367632 AGATGATTGATAAAGAAA-TCTCCCAAGTCTAAGTCGATGAGTAGATGATTGGTAAAGGAGTCTC
1 AGACGATTGATAAAGAAAGTCTCTCGAGACTAAACCAATGGGTAGATGATGGGTAAAAGAGTCTC
* *
4367696 CCAGGTTTAAGCTGACGAGC
66 CCAGGTCTAAGCTGAAGAGC
* ** *
4367716 AGACGATTGATAAAGAAAGTCTCTCGAGACTGAGTCGATGGGTAGATGATGGGTAAAAGAGTCTC
1 AGACGATTGATAAAGAAAGTCTCTCGAGACTAAACCAATGGGTAGATGATGGGTAAAAGAGTCTC
*
4367781 CTAGGTCTAAGCTGATAG-GC
66 CCAGGTCTAAGCTGA-AGAGC
* * * *
4367801 AGATGATTGATAAAGGAAGTCTTTCGGGACTAAACCAATGGGTA
1 AGACGATTGATAAAGAAAGTCTCTCGAGACTAAACCAATGGGTA
4367845 AACGATTGAT
Statistics
Matches: 243, Mismatches: 50, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
84 86 0.35
85 153 0.63
86 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (85 bp):
AGACGATTGATAAAGAAAGTCTCTCGAGACTAAACCAATGGGTAGATGATGGGTAAAAGAGTCTC
CCAGGTCTAAGCTGAAGAGC
Found at i:4375075 original size:13 final size:13
Alignment explanation
Indices: 4375057--4375082 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4375047 ACAAAGATCC
4375057 ATGTATCGATACA
1 ATGTATCGATACA
4375070 ATGTATCGATACA
1 ATGTATCGATACA
4375083 TTGAGTAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4375132 original size:30 final size:30
Alignment explanation
Indices: 4375091--4375188 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
4375081 CATTGAGTAA
*
4375091 TGTATCGATACATTTCCTTGGCAGTAGCTT
1 TGTAGCGATACATTTCCTTGGCAGTAGCTT
* * * *
4375121 TGTAGCGATACATTGT-ATCGATACAATA-CTT
1 TGTAGCGATACATT-TCCTTG--GCAGTAGCTT
*
4375152 ATGTATCGATACATTTCCTTGGCAGTAGCTT
1 -TGTAGCGATACATTTCCTTGGCAGTAGCTT
4375183 TGTAGC
1 TGTAGC
4375189 AATAAATTGT
Statistics
Matches: 51, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
30 24 0.47
31 8 0.16
32 19 0.37
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.38
Consensus pattern (30 bp):
TGTAGCGATACATTTCCTTGGCAGTAGCTT
Found at i:4375170 original size:62 final size:62
Alignment explanation
Indices: 4375058--4375226 Score: 248
Period size: 62 Copynumber: 2.7 Consensus size: 62
4375048 CAAAGATCCA
* * * * *
4375058 TGTATCGATACAATGTATCGATACATTGAGTAATGTATCGATACATTTCCTTGGCAGTAGCTT
1 TGTAGCGATACATTGTATCGATACAAT-ACTTATGTATCGATACATTTCCTTGGCAGTAGCTT
4375121 TGTAGCGATACATTGTATCGATACAATACTTATGTATCGATACATTTCCTTGGCAGTAGCTT
1 TGTAGCGATACATTGTATCGATACAATACTTATGTATCGATACATTTCCTTGGCAGTAGCTT
* * * *
4375183 TGTAGCAATAAATTGTATCGATACAACACTTATGTATTGATACA
1 TGTAGCGATACATTGTATCGATACAATACTTATGTATCGATACA
4375227 GTTACTGTTT
Statistics
Matches: 97, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
62 73 0.75
63 24 0.25
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (62 bp):
TGTAGCGATACATTGTATCGATACAATACTTATGTATCGATACATTTCCTTGGCAGTAGCTT
Found at i:4378691 original size:29 final size:30
Alignment explanation
Indices: 4378641--4378698 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
4378631 GGAAGATTAT
4378641 TTCTGTGGAAGGGTTGGTTTTG-GTTTTGG
1 TTCTGTGGAAGGGTTGGTTTTGTGTTTTGG
* *
4378670 TTCTGTGGATGGTTTTGG-TTTGTGTTTTG
1 TTCTGTGGAAGG-GTTGGTTTTGTGTTTTG
4378699 CGGTGTAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.05, C:0.03, G:0.38, T:0.53
Consensus pattern (30 bp):
TTCTGTGGAAGGGTTGGTTTTGTGTTTTGG
Found at i:4388065 original size:163 final size:163
Alignment explanation
Indices: 4387767--4388244 Score: 443
Period size: 163 Copynumber: 2.9 Consensus size: 163
4387757 GTCTATACAA
* * *
4387767 AAAAAATTCAAAATTTATGAAATTAATTGAATTTGTCAAAACTGATTT-TATGGAAATTTAATAA
1 AAAAAATTCAAAACTTATGAAAATAAATGAATTT-TCAAAACTGATTTATATGGAAATTTAATAA
* * * * *
4387831 CAATATTAGATGGATTTTAAAAATTTTAAATCAGGAAAATCTCCCCAAAAATATTTATGTAGTAG
65 CAATATTAGATGAATTCTAAAAATTTTAAATCAAGAAAATCTCCCCAAAAATATTTATGGAGTAA
*
4387896 AAAACTC-GATTTTTC-GAAAATAGGGAGATTTCAAAG
130 AAAACTCAG-TTTTTCAGAAAA-A-GG-CATTTCAAAG
* ** *
4387932 AAAAAATTCAAAACTAATGAAAATAAATGAATGTTTCAAAACTGATTTATA-GG-TGTTTAATGA
1 AAAAAATTCAAAACTTATGAAAATAAATGAAT-TTTCAAAACTGATTTATATGGAAATTTAATAA
* *
4387995 CAATATTAGATGAATTCT-AAAATTTTAAATCGAATAAAATC-CCCCTAAAATATTTATGGAGTA
65 CAATATTAGATGAATTCTAAAAATTTTAAATC-AAGAAAATCTCCCCAAAAATATTTATGGAGTA
4388058 AAAAACTCAGTTTTTCAAGAAAAAGGCATTTCAAAG
129 AAAAACTCAGTTTTTC-AGAAAAAGGCATTTCAAAG
* * * * * * * ** *
4388094 AAAAAGTCCAAAACTTGTGAAAATGAATTAATTTTTTAAAGCTGATTTAATAT-G-AATCAAATG
1 AAAAAATTCAAAACTTATGAAAATAAATGAA-TTTTCAAAACTGATTT-ATATGGAAATTTAATA
** * * * * * * **
4388157 ATGATATTTGATGAATTTTAAAAATTTAAAAACTAAGAAAAATCTCTCCAAAAAAATTTACAGAG
64 ACAATATTAGATGAATTCTAAAAATTTTAAATC-AAG-AAAATCTCCCCAAAAATATTTATGGAG
* * *
4388222 TAGAAAACTCTGTATTTCAGAAA
127 TAAAAAACTCAGTTTTTCAGAAA
4388245 TATTGTAATT
Statistics
Matches: 258, Mismatches: 43, Indels: 24
0.79 0.13 0.07
Matches are distributed among these distances:
162 47 0.18
163 73 0.28
164 45 0.17
165 59 0.23
166 34 0.13
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.32
Consensus pattern (163 bp):
AAAAAATTCAAAACTTATGAAAATAAATGAATTTTCAAAACTGATTTATATGGAAATTTAATAAC
AATATTAGATGAATTCTAAAAATTTTAAATCAAGAAAATCTCCCCAAAAATATTTATGGAGTAAA
AAACTCAGTTTTTCAGAAAAAGGCATTTCAAAG
Found at i:4388141 original size:162 final size:164
Alignment explanation
Indices: 4387767--4388142 Score: 408
Period size: 162 Copynumber: 2.3 Consensus size: 164
4387757 GTCTATACAA
* * * * * **
4387767 AAAAAATTCAAAATTTATGAAATTAATTGAAT-TTGTCAAAACTGATTT-TATGGAAATTTAATA
1 AAAAAATCCAAAACTAATGAAAATAAATGAATGTT-TCAAAACTGATTTATA-GG-TGTTTAATA
* * * *
4387830 ACAATATTAGATGGATTTTAAAAATTTTAAATCAGGAAAATCTCCCCAAAAATATTTATGTAGTA
63 ACAATATTAGATGAATTCTAAAAATTTTAAATCAAGAAAATCTCCCCAAAAATATTTATGGAGTA
* *
4387895 GAAAACTCGATTTTTCGAAAATAGGGAGATTTCAAAG
128 AAAAACTCGATTTTTCGAAAATAGGGACATTTCAAAG
* *
4387932 AAAAAATTCAAAACTAATGAAAATAAATGAATGTTTCAAAACTGATTTATAGGTGTTTAATGACA
1 AAAAAATCCAAAACTAATGAAAATAAATGAATGTTTCAAAACTGATTTATAGGTGTTTAATAACA
* *
4387997 ATATTAGATGAATTCT-AAAATTTTAAATCGAATAAAATC-CCCCTAAAATATTTATGGAGTAAA
66 ATATTAGATGAATTCTAAAAATTTTAAATC-AAGAAAATCTCCCCAAAAATATTTATGGAGTAAA
4388060 AAACTC-AGTTTTTCAAGAAAA-A-GG-CATTTCAAAG
130 AAACTCGA-TTTTTC--GAAAATAGGGACATTTCAAAG
* ** * * * * *
4388094 AAAAAGTCCAAAACTTGTGAAAATGAATTAATTTTTTAAAGCTGATTTA
1 AAAAAATCCAAAACTAATGAAAATAAATGAATGTTTCAAAACTGATTTA
4388143 ATATGAATCA
Statistics
Matches: 181, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
162 50 0.28
163 48 0.27
164 31 0.17
165 48 0.27
166 4 0.02
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.33
Consensus pattern (164 bp):
AAAAAATCCAAAACTAATGAAAATAAATGAATGTTTCAAAACTGATTTATAGGTGTTTAATAACA
ATATTAGATGAATTCTAAAAATTTTAAATCAAGAAAATCTCCCCAAAAATATTTATGGAGTAAAA
AACTCGATTTTTCGAAAATAGGGACATTTCAAAG
Found at i:4388467 original size:166 final size:166
Alignment explanation
Indices: 4387767--4388535 Score: 486
Period size: 167 Copynumber: 4.7 Consensus size: 166
4387757 GTCTATACAA
* * * * *
4387767 AAAAAATTC-AAAATTTATG-AAATTAATTGAATTTGTCAAAACTGATTT--TATGGAAATTTAA
1 AAAAAATTCAAAAATTCATGAAAATGAA-AGAATTT-TTAAAACTGATTTAATAT-G-AATTAAA
* * * ** * * * *
4387828 TAACAATATTAGATGGATTTTAAAAATTTTAAATC-AGGAAAATCTCC-CCAAAAATATTTA-TG
62 TAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATC-CCTCCAAAAAAATTTACAG
* * *
4387890 TAGTAGAAAACTCGATTTTTC-GAAA-ATAGGGAGATTTCAAAG
126 -AGAAGAAAACTCCATATTTCAGAAATATA-GGA-ATTTCAAAG
* * * * ** * *
4387932 AAAAAATTC-AAAACTAATGAAAAT-AAATGAATGTTTCAAAACTGATTT-ATAGGTGTTTAATG
1 AAAAAATTCAAAAATTCATGAAAATGAAA-GAAT-TTTTAAAACTGATTTAATATGAATTAAATA
* * * * * * * * * * **
4387994 ACAATATTAGATGAATTCTAAAATTTTAAATCGAA-TAAAATCCC-CCTAAAATATTTATGGAGT
64 ATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCCAAAAAAATTTACAGAG-
* *
4388057 AA-AAAACT-CAGTTTTTCAAGAAA-A-AGGCATTTCAAAG
128 AAGAAAACTCCA-TATTTC-AGAAATATAGGAATTTCAAAG
* * * * ** * * *
4388094 AAAAAGTCCAAAACTT-GTGAAAATGAATTAATTTTTTAAAGCTGATTTAATATGAATCAAATGA
1 AAAAAATTCAAAAATTCATGAAAATGAAAGAA-TTTTTAAAACTGATTTAATATGAATTAAATAA
* * * *
4388158 TGATATTTGATGAATTTTAAAAATTTAAAAACTAAGAAAAATCTCTCCAAAAAAATTTACAGAGT
65 TAATATTTGATGAATTTTAAAAA-TTAAAAACCAAGAAAAATCCCTCCAAAAAAATTTACAGAGA
** * * * *
4388223 AGAAAACTCTGTATTTCAGAAATATTGTAATTTTAAGG
129 AGAAAACTCCATATTTCAGAAATATAGGAATTTCAAAG
** * * *
4388261 AAAAAATTCAAAAGCTCAT-AAAAGGAAAGAGTTTTTTAAAACTGATTTAATATGAGTTAAATAA
1 AAAAAATTCAAAAATTCATGAAAATGAAAGA-ATTTTTAAAACTGATTTAATATGAATTAAATAA
* * * * * **
4388325 AAAAATTTGATGAATTTTAAAACTAAAAAACCAAGAAAAATCCCTCTAAACAAAA-TTATGGAGA
65 TAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCCAAA-AAAATTTACAGAGA
* *
4388389 AGAAATCTCCATATTT-TGAAA-ACTAGAGAATTTCAAAG
129 AGAAAACTCCATATTTCAGAAATA-TAG-GAATTTCAAAG
* * * *
4388427 AAAAAATTCAAAAATTCATGAAAATGAAGGAATTTTTAAAAATCAATTTAATATGAAATAAATAA
1 AAAAAATTCAAAAATTCATGAAAATGAAAGAATTTTTAAAACT-GATTTAATATGAATTAAATAA
* * *
4388492 TAATATTTTATGAATTATAAAAATTAAAAACCATGAAAAATCCC
65 TAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCC
4388536 CCTGAATTTT
Statistics
Matches: 471, Mismatches: 105, Indels: 54
0.75 0.17 0.09
Matches are distributed among these distances:
162 39 0.08
163 65 0.14
164 50 0.11
165 62 0.13
166 111 0.24
167 143 0.30
168 1 0.00
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (166 bp):
AAAAAATTCAAAAATTCATGAAAATGAAAGAATTTTTAAAACTGATTTAATATGAATTAAATAAT
AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCCAAAAAAATTTACAGAGAAG
AAAACTCCATATTTCAGAAATATAGGAATTTCAAAG
Found at i:4393432 original size:13 final size:13
Alignment explanation
Indices: 4393414--4393438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4393404 CAATTCTTCA
4393414 TGTATCGATACAT
1 TGTATCGATACAT
4393427 TGTATCGATACA
1 TGTATCGATACA
4393439 GTGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4393553 original size:20 final size:19
Alignment explanation
Indices: 4393489--4393560 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 19
4393479 TGCTAGTTTC
* * *
4393489 ATGTATTGATACAATTGTGA
1 ATGTATCGATACAAATG-AA
4393509 ATGTATCGATA-AAATGAA
1 ATGTATCGATACAAATGAA
4393527 CATGTATCGATACAAA-GCATA
1 -ATGTATCGATACAAATG-A-A
*
4393548 ATGTATTGATACA
1 ATGTATCGATACA
4393561 TCTGGATAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.02
19 16 0.36
20 26 0.59
21 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (19 bp):
ATGTATCGATACAAATGAA
Found at i:4400548 original size:12 final size:12
Alignment explanation
Indices: 4400531--4400564 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4400521 CGAGTCAACT
*
4400531 TCATCATTATTA
1 TCATCATCATTA
4400543 TCATCATCATTA
1 TCATCATCATTA
*
4400555 TCTTCATCAT
1 TCATCATCAT
4400565 CTTTGATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (12 bp):
TCATCATCATTA
Found at i:4400549 original size:15 final size:15
Alignment explanation
Indices: 4400531--4400565 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
4400521 CGAGTCAACT
4400531 TCATCATTAT-TATCA
1 TCATCATTATCT-TCA
4400546 TCATCATTATCTTCA
1 TCATCATTATCTTCA
4400561 TCATC
1 TCATC
4400566 TTTGATGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 18 0.95
16 1 0.05
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.46
Consensus pattern (15 bp):
TCATCATTATCTTCA
Found at i:4401466 original size:79 final size:77
Alignment explanation
Indices: 4401305--4401659 Score: 299
Period size: 79 Copynumber: 4.5 Consensus size: 77
4401295 ACGGGGTTGG
* * *
4401305 AGTATCCCCAATGGTGGAAAATCGAT-TTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTTGAA
1 AGTATCCCCAATTGTGGAAAATCGATGTTTTGGAAATAAAATCG-GGTTGGAGTAT-CCCTCGAA
* * *
4401369 AATAA-CAGGGTAGG
64 AATAATGAGGTTA-A
*** *
4401383 AGTATCCTTGATTAG-GGAAAATCGATGCTTTGGAAATAAAATCAGGGTTGGAGTACTCCCTCGA
1 AGTATCCCCAATT-GTGGAAAATCGATGTTTTGGAAATAAAATC-GGGTTGGAGTA-TCCCTCGA
4401447 AAATAATGAGGTTAA
63 AAATAATGAGGTTAA
* * * * * * *
4401462 AGTATCCCTAATTATGAAAAATTGGTGTTTTGGAAATAAGATCTGGTTTGGAGTATCCGCTC-AG
1 AGTATCCCCAATTGTGGAAAATCGATGTTTTGGAAATAAAATC-GGGTTGGAGTATCC-CTCGA-
4401526 AAATAATGAGGTTAA
63 AAATAATGAGGTTAA
* * * * * *
4401541 AGTATCCCCAATTGTGAAAAAT-TAGTGTTTTAGAAA-AAAATTGGGGTTGGAGTATTTCCTCGG
1 AGTATCCCCAATTGTGGAAAATCGA-TGTTTTGGAAATAAAA-TCGGGTTGGAGTA-TCCCTCGA
* *
4401604 AAATAACGAGGTTAG
63 AAATAATGAGGTTAA
* * * *
4401619 AGTATCCCCGATTGTGGAAAATCGGTGCTTTAGAAATAAAA
1 AGTATCCCCAATTGTGGAAAATCGATGTTTTGGAAATAAAA
4401660 ACATCAATGA
Statistics
Matches: 226, Mismatches: 37, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
78 83 0.37
79 136 0.60
80 7 0.03
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (77 bp):
AGTATCCCCAATTGTGGAAAATCGATGTTTTGGAAATAAAATCGGGTTGGAGTATCCCTCGAAAA
TAATGAGGTTAA
Found at i:4406260 original size:13 final size:13
Alignment explanation
Indices: 4406242--4406267 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4406232 TACACAAAGT
4406242 ATGTATCGATACA
1 ATGTATCGATACA
4406255 ATGTATCGATACA
1 ATGTATCGATACA
4406268 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4406265 original size:32 final size:33
Alignment explanation
Indices: 4406224--4406287 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
4406214 TAGCCGAACT
**
4406224 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
4406256 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
4406288 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:4408520 original size:21 final size:21
Alignment explanation
Indices: 4408487--4408536 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
4408477 TTGCAAGTTG
*
4408487 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
4408509 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
4408530 AAATAAA
1 AAATAAA
4408537 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:4410354 original size:15 final size:15
Alignment explanation
Indices: 4410334--4410364 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4410324 TAAAAATGTC
*
4410334 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
4410349 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
4410364 C
1 C
4410365 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:4418301 original size:20 final size:21
Alignment explanation
Indices: 4418276--4418326 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 21
4418266 TTGGAGCATG
*
4418276 TATCGATACATTCACTTA-TA
1 TATCGATACATTAACTTATTA
4418296 TATCGATACATTAACTTATTA
1 TATCGATACATTAACTTATTA
4418317 TATCGATACA
1 TATCGATACA
4418327 AATTGTAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (21 bp):
TATCGATACATTAACTTATTA
Found at i:4421663 original size:13 final size:13
Alignment explanation
Indices: 4421645--4421671 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4421635 ACATAATGCT
4421645 TTGTATCGATACA
1 TTGTATCGATACA
4421658 TTGTATCGATACA
1 TTGTATCGATACA
4421671 T
1 T
4421672 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4421680 original size:19 final size:19
Alignment explanation
Indices: 4421656--4421712 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
4421646 TGTATCGATA
*
4421656 CATTGTATCGATACATGAT
1 CATTGTATCGATACATGAG
4421675 CATTGTATCGATACATGCAG
1 CATTGTATCGATACATG-AG
* *
4421695 AATTGTATTGATACATGA
1 CATTGTATCGATACATGA
4421713 AACTAGCAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGAG
Found at i:4423025 original size:19 final size:18
Alignment explanation
Indices: 4423001--4423063 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
4422991 AAACAGTAAA
4423001 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
4423020 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
4423033 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
4423052 TGTATCGATACA
1 TGTATCGATACA
4423064 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:4423038 original size:13 final size:13
Alignment explanation
Indices: 4423020--4423044 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4423010 ACATAAGTGT
4423020 TGTATCGATACAA
1 TGTATCGATACAA
4423033 TGTATCGATACA
1 TGTATCGATACA
4423045 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4423040 original size:32 final size:32
Alignment explanation
Indices: 4422999--4423071 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
4422989 ACAAACAGTA
4422999 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
4423031 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
4423063 AATGTATCG
1 AATGTATCG
4423072 CTACGAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:4425643 original size:102 final size:102
Alignment explanation
Indices: 4425479--4425707 Score: 311
Period size: 102 Copynumber: 2.2 Consensus size: 102
4425469 GTTTCTCAAT
* * * * *
4425479 TTTTCATAATCGGGGGTACTCCAACCCCGGTTTTATTTCTATAACACTAATTTTTCGCAATCGAG
1 TTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGAG
* * * *
4425544 GATACTCCAATTCCGATTTTATTTTC-GAAACACCAA
66 GATACTCCAACTCCAATTTTATTTCCAAAAACACCAA
*
4425580 TTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAA-TTTTCTATAATC
1 TTTT-CACAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTTTTC-ACAATC
4425643 GAGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAA
63 GAGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAA
*
4425683 TCTTCACAATCGGGGATACTCCAAC
1 TTTTCACAATCGGGGATACTCCAAC
4425708 TCCGTTATTT
Statistics
Matches: 113, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
101 10 0.09
102 91 0.81
103 12 0.11
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (102 bp):
TTTTCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCGAG
GATACTCCAACTCCAATTTTATTTCCAAAAACACCAA
Found at i:4425708 original size:51 final size:50
Alignment explanation
Indices: 4425479--4425711 Score: 261
Period size: 51 Copynumber: 4.6 Consensus size: 50
4425469 GTTTCTCAAT
* * * * * *
4425479 TTTTCATAATCGGGGGTACTCCAACCCCGGTTTTA-TTTCTATAACACTAA
1 TTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACACCAA
* * * *
4425529 TTTTTCGCAATCGAGGATACTCCAATTCCGATTTTATTTTCGAAACACCAA
1 -TTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAA
* *
4425580 TTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAA
1 TTTT-CACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAA
* * * *
4425631 TTTTCTATAATCGAGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAA
1 TTTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACACCAA
*
4425683 TCTTCACAATCGGGGATACTCCAACTCCG
1 TTTTCACAATCGGGGATACTCCAACTCCG
4425712 TTATTTCCGA
Statistics
Matches: 152, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
50 5 0.03
51 129 0.85
52 18 0.12
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (50 bp):
TTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAA
Found at i:4425814 original size:80 final size:79
Alignment explanation
Indices: 4425690--4425976 Score: 495
Period size: 79 Copynumber: 3.6 Consensus size: 79
4425680 CAATCTTCAC
* *
4425690 AATCGGGGATACTCCAACTCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAA
1 AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAA
4425755 TATTGATTTCTCAT
66 TATTGATTTCTCAT
4425769 AATCGGGGATACTCCTAACCCCGTTA-TTTCTGAGGGGATACTCCAACCCCGGCTTTATTCCTAA
1 AATCGGGGATACTCC-AACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGGCTTTATTCCTAA
4425833 AATATTGATTTCTCAT
64 AATATTGATTTCTCAT
*
4425849 AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAA
1 AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAA
*
4425914 TATTGATTTCTCAC
66 TATTGATTTCTCAT
* *
4425928 AATCAGGGATACTCCAACCCCGTTATTTTCGCGGGGATACTCCAACCCC
1 AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC
4425977 ATTATTTTTA
Statistics
Matches: 199, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
79 122 0.61
80 77 0.39
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (79 bp):
AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAA
TATTGATTTCTCAT
Found at i:4425937 original size:159 final size:158
Alignment explanation
Indices: 4425690--4425976 Score: 495
Period size: 159 Copynumber: 1.8 Consensus size: 158
4425680 CAATCTTCAC
*
4425690 AATCGGGGATACTCCAACTCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAA
1 AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAA
* *
4425755 TATTGATTTCTCATAATCGGGGATACTCCTAACCCCGTTA-TTTCTGAGGGGATACTCCAACCCC
66 TATTGATTTCTCACAATCAGGGATACTCC-AACCCCGTTATTTTC-GAGGGGATACTCCAACCCC
4425819 GGCTTTATTCCTAAAATATTGATTTCTCAT
129 GGCTTTATTCCTAAAATATTGATTTCTCAT
* *
4425849 AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAA
1 AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAA
*
4425914 TATTGATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTCGCGGGGATACTCCAACCCC
66 TATTGATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC
4425977 ATTATTTTTA
Statistics
Matches: 121, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
158 28 0.23
159 93 0.77
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (158 bp):
AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAA
TATTGATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGG
CTTTATTCCTAAAATATTGATTTCTCAT
Found at i:4425973 original size:28 final size:28
Alignment explanation
Indices: 4425933--4426003 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
4425923 CTCACAATCA
* **
4425933 GGGATACTCCAACCCCGTTATTTTCGCG
1 GGGATACTCCAACCCCATTATTTTCAAG
*
4425961 GGGATACTCCAACCCCATTATTTTTAAG
1 GGGATACTCCAACCCCATTATTTTCAAG
4425989 GGGATACTCCAACCC
1 GGGATACTCCAACCC
4426004 TGATTTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (28 bp):
GGGATACTCCAACCCCATTATTTTCAAG
Found at i:4426043 original size:107 final size:107
Alignment explanation
Indices: 4425852--4426062 Score: 255
Period size: 107 Copynumber: 2.0 Consensus size: 107
4425842 TTCTCATAAT
* * * * *
4425852 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATAT
1 CGGGGATACTCCAACCCCATTATTTTCAAGGGGATACTCCAACCCCGACTTTATTTCTAAAACAC
**
4425917 TGATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTCG
66 CAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTCG
* * * *
4425959 CGGGGATACTCCAACCCCATTATTTTTAAGGGGATACTCCAACCCTGATTTTATTT-TCAAACCA
1 CGGGGATACTCCAACCCCATTATTTTCAAGGGGATACTCCAACCCCGACTTTATTTCT-AAAACA
* * **
4426023 CCAATTT-TCTATAATTAGGGATACTCCAACCTTGTTATTT
65 CCAATTTCTC-ACAATCAGGGATACTCCAACCCCGTTATTT
4426063 CCAAAGGGTT
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
106 3 0.03
107 84 0.97
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (107 bp):
CGGGGATACTCCAACCCCATTATTTTCAAGGGGATACTCCAACCCCGACTTTATTTCTAAAACAC
CAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTTCG
Found at i:4426044 original size:79 final size:79
Alignment explanation
Indices: 4425961--4426136 Score: 217
Period size: 79 Copynumber: 2.2 Consensus size: 79
4425951 TATTTTCGCG
** * * * *
4425961 GGGATACTCCAACCCCATTATTTTTAAGGGGATACTCCAACCCTGATTTTATTTTCAAACCACCA
1 GGGATACTCCAACCCCATTATTTCCAAAGGGATACTCCAACCCCGATTTTATTTCCAAAACACCA
* *
4426026 ATTTTCTATAATTA
66 ATTTTCCATAATCA
*** * *
4426040 GGGATACTCCAACCTTGTTATTTCCAAAGGGTTACTCCAACCCCGATTTTATTTCCAAAACACCG
1 GGGATACTCCAACCCCATTATTTCCAAAGGGATACTCCAACCCCGATTTTATTTCCAAAACACCA
4426105 ATTTTCCATAATCA
66 ATTTTCCATAATCA
* *
4426119 GGGGTACTCCAGCCCCAT
1 GGGATACTCCAACCCCAT
4426137 CGTCATATCC
Statistics
Matches: 79, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.32
Consensus pattern (79 bp):
GGGATACTCCAACCCCATTATTTCCAAAGGGATACTCCAACCCCGATTTTATTTCCAAAACACCA
ATTTTCCATAATCA
Found at i:4427790 original size:15 final size:15
Alignment explanation
Indices: 4427770--4427804 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
4427760 AACCATCAAA
4427770 GATGATGAAGATAAT
1 GATGATGAAGATAAT
*
4427785 GATGATGATGATAAT
1 GATGATGAAGATAAT
4427800 GATGA
1 GATGA
4427805 AGTTGACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:4434845 original size:13 final size:13
Alignment explanation
Indices: 4434827--4434853 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4434817 ACATAATGCT
4434827 TTGTATCGATACA
1 TTGTATCGATACA
4434840 TTGTATCGATACA
1 TTGTATCGATACA
4434853 T
1 T
4434854 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4434850 original size:33 final size:32
Alignment explanation
Indices: 4434808--4434872 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
4434798 CATATCTAGA
* *
4434808 TGTATCGATACATAATGCTTTGTATCGATACAT
1 TGTATCGATACATAAT-CATTGTATCAATACAT
*
4434841 TGTATCGATACATGATCATTGTATCAATACAT
1 TGTATCGATACATAATCATTGTATCAATACAT
4434873 GCACAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAATCATTGTATCAATACAT
Found at i:4434862 original size:19 final size:18
Alignment explanation
Indices: 4434837--4434894 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
4434827 TTGTATCGAT
4434837 ACATTGTATCGATACATG
1 ACATTGTATCGATACATG
*
4434855 ATCATTGTATCAATACATG
1 A-CATTGTATCGATACATG
*
4434874 CACAATTGTATCGATATATG
1 -AC-ATTGTATCGATACATG
4434894 A
1 A
4434895 AACTGGCAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 18 0.53
20 15 0.44
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:4438496 original size:20 final size:20
Alignment explanation
Indices: 4438451--4438506 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
4438441 ATTCTACAAT
*
4438451 ATGTATCGATACAACAAATCA
1 ATGTATCGATAC-ATAAATCA
* *
4438472 ATGTATCGATACATAAGTGA
1 ATGTATCGATACATAAATCA
*
4438492 ATGTATTGATACATA
1 ATGTATCGATACATA
4438507 GGCTTATTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATAAATCA
Found at i:4443649 original size:14 final size:14
Alignment explanation
Indices: 4443630--4443669 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
4443620 CACATGTCCA
4443630 AAAATTAGTTCGAT
1 AAAATTAGTTCGAT
*
4443644 AAAATTGTGATTCGAT
1 AAAATT-AG-TTCGAT
4443660 AAAATTAGTT
1 AAAATTAGTT
4443670 GGAAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 8 0.36
15 2 0.09
16 12 0.55
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (14 bp):
AAAATTAGTTCGAT
Found at i:4446207 original size:62 final size:63
Alignment explanation
Indices: 4446110--4446230 Score: 199
Period size: 62 Copynumber: 1.9 Consensus size: 63
4446100 GTCCACAACA
* * *
4446110 TAAAAGTGCTACATGATCTTAAAGGACTTG-TTTTTTTCATGGAAATTACTAAAATGACTTCC
1 TAAAAGTGCTACATGATCTTAAAGAACTTGATTTTTTTCATAGAAATTACCAAAATGACTTCC
*
4446172 TAAAAGTGCTACATGATCTTAAAGAACTTGATTTTTTTCATAGAAATTACCCAAATGAC
1 TAAAAGTGCTACATGATCTTAAAGAACTTGATTTTTTTCATAGAAATTACCAAAATGAC
4446231 CTAATGACCA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
62 29 0.54
63 25 0.46
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (63 bp):
TAAAAGTGCTACATGATCTTAAAGAACTTGATTTTTTTCATAGAAATTACCAAAATGACTTCC
Found at i:4448757 original size:20 final size:20
Alignment explanation
Indices: 4448734--4448800 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
4448724 TAACAAGAGC
4448734 AAGTAACTTTTCAGCGAAGT
1 AAGTAACTTTTCAGCGAAGT
* ** *
4448754 AAGTAACCTCTT-AATGATAGA
1 AAGTAA-CTTTTCAGCGA-AGT
4448775 AAGTAAC-TTTCAGCGAAGT
1 AAGTAACTTTTCAGCGAAGT
4448794 AAGTAAC
1 AAGTAAC
4448801 CTCTTAATGA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
19 11 0.31
20 13 0.36
21 12 0.33
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (20 bp):
AAGTAACTTTTCAGCGAAGT
Found at i:4448780 original size:21 final size:21
Alignment explanation
Indices: 4448754--4448821 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
4448744 TCAGCGAAGT
4448754 AAGTAACCTCTTAATGATAGA
1 AAGTAACCTCTTAATGATAGA
** *
4448775 AAGTAA-CT-TTCAGCGA-AGT
1 AAGTAACCTCTT-AATGATAGA
4448794 AAGTAACCTCTTAATGATAGA
1 AAGTAACCTCTTAATGATAGA
4448815 AAGTAAC
1 AAGTAAC
4448822 TTTCCAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
19 10 0.27
20 10 0.27
21 17 0.46
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (21 bp):
AAGTAACCTCTTAATGATAGA
Found at i:4448797 original size:40 final size:40
Alignment explanation
Indices: 4448734--4448825 Score: 175
Period size: 40 Copynumber: 2.3 Consensus size: 40
4448724 TAACAAGAGC
4448734 AAGTAACTTTTCAGCGAAGTAAGTAACCTCTTAATGATAGA
1 AAGTAAC-TTTCAGCGAAGTAAGTAACCTCTTAATGATAGA
4448775 AAGTAACTTTCAGCGAAGTAAGTAACCTCTTAATGATAGA
1 AAGTAACTTTCAGCGAAGTAAGTAACCTCTTAATGATAGA
4448815 AAGTAACTTTC
1 AAGTAACTTTC
4448826 CAATAAAGGG
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 44 0.86
41 7 0.14
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.29
Consensus pattern (40 bp):
AAGTAACTTTCAGCGAAGTAAGTAACCTCTTAATGATAGA
Found at i:4452427 original size:158 final size:157
Alignment explanation
Indices: 4452059--4452661 Score: 588
Period size: 166 Copynumber: 3.8 Consensus size: 157
4452049 AAATATGATT
** * * *
4452059 TTTTCTACTCTGTAAATTTTTTCGGAGAAATTTTTCTTGGCTTTCTT--TTTTTAAAATTCTTCA
1 TTTTCTACTCCATAAATTTTTTAGG-G-GATTTTTCTTGG-TTT-TTAATTTTTAAAATTCATCA
* * * *
4452122 AACAAT-ATTATTTACTCCATATTAATTTAGTTTTAAAAAATTCATTCAT-TT--T---TATTTT
62 AAC-ATCATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATATTCATGAATTTTTT
* *
4452180 TCCTTGAAA-TTTCATTTTT-TTAAATACAGTG
126 TTCTTGAAATTTTC-TTTTTCTAAAATACAGTG
* * *
4452211 TTTTTTACTCCATAAATTTTTTTTACGGGGTTTTTTCTTGGTTCTTAATTTTTAAAATTCATCAA
1 TTTTCTACTCCATAAA--TTTTTTA-GGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAA
* * * * * *
4452276 GCATCATTATTTATTTTATGTTAGTTCATTTTTCAAAAATTCATTCAT-TTGCATGAATTTTTTT
63 ACATCATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATATT-CATGAATTTTTTT
4452340 TCTTGAAATTTTCTTTTTCTAAAATACAGTG
127 TCTTGAAATTTTCTTTTTCTAAAATACAGTG
4452371 TTTTCTACTCCATAAATCTTTTTAGGGGATTTTTCATT-GTTTTTAATTTTTAAAATTCATCAAA
1 TTTTCTACTCCATAAAT-TTTTTAGGGGATTTTTC-TTGGTTTTTAATTTTTAAAATTCATCAAA
* * * *
4452435 CATCATTATTTATCTCATATTAATTTAGGTTTAAAAAATTCATTCATATTCATGAGTTTTTGATT
64 CATCATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATATTCATGA---ATT--TT
* * * *
4452500 TTTTCCCCTGAAACTCTTT-TTTTTC-AAAATTCAATA
124 TTTT--CTTGAAA-T-TTTCTTTTTCTAAAATACAGTG
* * * *
4452536 TTTTCTACTCTATAAATTTTTCCGAGGGGATTTTTTTTGGTTTTCAATTTTTAAAATTCATCAAA
1 TTTTCTACTCCATAAATTTTT--TAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAA
* *
4452601 CATCATTATTTATTTCATACTAATTTAGTTTTCAAAAATTCATTCATCTTCATGAATTTTT
64 CATCATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATATTCATGAATTTTT
4452662 GAATTTTTTA
Statistics
Matches: 375, Mismatches: 47, Indels: 49
0.80 0.10 0.10
Matches are distributed among these distances:
151 2 0.01
152 17 0.05
153 64 0.17
154 7 0.02
155 2 0.01
156 1 0.00
158 79 0.21
159 28 0.07
160 30 0.08
161 5 0.01
163 8 0.02
164 4 0.01
165 32 0.09
166 93 0.25
167 3 0.01
ACGTcount: A:0.28, C:0.13, G:0.07, T:0.52
Consensus pattern (157 bp):
TTTTCTACTCCATAAATTTTTTAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAACA
TCATTATTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATATTCATGAATTTTTTTTCTT
GAAATTTTCTTTTTCTAAAATACAGTG
Found at i:4454356 original size:127 final size:127
Alignment explanation
Indices: 4454127--4454478 Score: 471
Period size: 127 Copynumber: 2.8 Consensus size: 127
4454117 AATATCTTTT
* * *
4454127 ATTTTTAAATCTTTTATATTCCTATGGATATCCGTAGGGGTATATAAGATTCTGAAAAACTTTTT
1 ATTTTT-AATCTTTTATATTCCTATGGATATCCGTAGGGGTATAAAAGATT-TTAAAAACTTTTC
** * *
4454192 GTATCTTTTCGGGTATCTATTAAGGTACGAAAT-A-TTTTTTCCAAAGATAAATAAATATTAATC
64 GTATCTTTTTAGGTATCCATTAAGGTACGAAATGATTTTTTTCCAAAAAT-AATAAATATTAATC
*
4454255 ATTTTTAATTTTTTATATTCCTATGGATATCCGTAGGGGTATAAAAGATTTTAAAAACTTTTCGT
1 ATTTTTAATCTTTTATATTCCTATGGATATCCGTAGGGGTATAAAAGATTTTAAAAACTTTTCGT
* *
4454320 ATCTTTTTAGGTATCCATTAAGGTACAAAATGATTTTTTTCTAAAAATAATAAATATTAATC
66 ATCTTTTTAGGTATCCATTAAGGTACGAAATGATTTTTTTCCAAAAATAATAAATATTAATC
* * *
4454382 GTTTTTAATCTTTTATATTCCTAT-GAGTATCCGTAGGGGTATTAAAAGA-TTT-CAAATTTTTC
1 ATTTTTAATCTTTTATATTCCTATGGA-TATCCGTAGGGGTA-TAAAAGATTTTAAAAACTTTTC
** * *
4454444 GTATCTTGGTAGGTCTCCATCAAGGTACGAAATGA
64 GTATCTTTTTAGGTATCCATTAAGGTACGAAATGA
4454479 CACTTTTTGG
Statistics
Matches: 201, Mismatches: 19, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
126 80 0.40
127 96 0.48
128 25 0.12
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (127 bp):
ATTTTTAATCTTTTATATTCCTATGGATATCCGTAGGGGTATAAAAGATTTTAAAAACTTTTCGT
ATCTTTTTAGGTATCCATTAAGGTACGAAATGATTTTTTTCCAAAAATAATAAATATTAATC
Found at i:4455301 original size:157 final size:154
Alignment explanation
Indices: 4454999--4455382 Score: 486
Period size: 157 Copynumber: 2.4 Consensus size: 154
4454989 TACGAAACTA
* * * *
4454999 AGTCCTAGGTAACCACCTGGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATTCC-
1 AGTCCTAGGTTATCACCAGGTCTACTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCA--CCT
*
4455063 TTTTATAGTCCTTTTTAAGTCCTTAAGGGGTACCGAGATACTTTCACATCGAAAGCATCCCCTAA
64 TTTTATAGTCCTTTTTAAGTCCTTAAGGGGTACAGAGATACTTTCACATCGAAAGCATCCCCTAA
*
4455128 GGGCATTTTCATATTTTTTTTAGAATCG
129 GGGCATTTTCATA--TTTTTTAAAATCG
* * *
4455156 AGTCCTAGGTTATCACCGGGTCTATTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCACCCTT
1 AGTCCTAGGTTATCACCAGGTCTACTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCA-CCTT
* * * * * * *
4455221 TTTATAGTCCTTTTTAAGTCTTTTAGGGGTACTAG-GATACTTTCACGTTGAAGGTAT-CCCTAG
65 TTTATAGTCCTTTTTAAGTCCTTAAGGGGTAC-AGAGATACTTTCACATCGAAAGCATCCCCTAA
*
4455284 GGGTATTTTCATAATTTTTTAAAATCG
129 GGGCATTTTCAT-ATTTTTTAAAATCG
* *
4455311 AGTCCTAGGTTGTTATCACCAGGTCCACTTTTATGCCGAAGATGGGTATTTAGGATAGGTTCACC
1 AGTCCTA-G--GTTATCACCAGGTCTACTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACC
4455376 TTTTTAT
63 TTTTTAT
4455383 TAATTTTTCT
Statistics
Matches: 199, Mismatches: 22, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
155 19 0.10
156 19 0.10
157 113 0.57
158 48 0.24
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (154 bp):
AGTCCTAGGTTATCACCAGGTCTACTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCTTT
TTATAGTCCTTTTTAAGTCCTTAAGGGGTACAGAGATACTTTCACATCGAAAGCATCCCCTAAGG
GCATTTTCATATTTTTTAAAATCG
Found at i:4458270 original size:15 final size:15
Alignment explanation
Indices: 4458239--4458272 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4458229 GGAATTCATT
* *
4458239 AAAAGAAAAAGAGGA
1 AAAAGAAAAAAAAGA
4458254 AAAAGAAAAAAAAGA
1 AAAAGAAAAAAAAGA
4458269 AAAA
1 AAAA
4458273 AAATTAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAAGA
Found at i:4458903 original size:18 final size:18
Alignment explanation
Indices: 4458872--4458907 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4458862 GGAAAGGTCG
*
4458872 TGAAAGAGAAGAAAAAAA
1 TGAAAAAGAAGAAAAAAA
*
4458890 TGAAAAAGAGGAAAAAAA
1 TGAAAAAGAAGAAAAAAA
4458908 GAGGGAAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (18 bp):
TGAAAAAGAAGAAAAAAA
Found at i:4459396 original size:112 final size:111
Alignment explanation
Indices: 4459183--4459389 Score: 256
Period size: 112 Copynumber: 1.8 Consensus size: 111
4459173 AGAATATCAA
* * *** *
4459183 ATTTATTTAATTTTCAAATAAATTCATGTTTTATACATCTTGATCCATTTGTGCCTAAGGAAATA
1 ATTTACTTAATTTTCAAAGAAATTCACACTTTATACATCTTGATCCATTCGTGCCTAAGGAAATA
* **
4459248 GGCAAGTATCTTGTCATTTTCAATCTTTTTAAGCCCTACAATGTCAG
66 GGCAAGTATCTTATCATTTGAAATC-TTTTAAGCCCTACAATGTCAG
* *
4459295 ATTTACTTGATTTTCAAAGAAATTCACACTTTATACATTTTGATCCATTCGTGCCT-AGGAAATA
1 ATTTACTTAATTTTCAAAGAAATTCACACTTTATACATCTTGATCCATTCGTGCCTAAGGAAATA
4459359 GAGCACA-TATCTTATCAGTTTGGAAATCTTT
66 G-GCA-AGTATCTTATCA-TTT-GAAATCTTT
4459390 GAGCCCTGCA
Statistics
Matches: 80, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
111 9 0.11
112 60 0.75
113 7 0.09
114 4 0.05
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (111 bp):
ATTTACTTAATTTTCAAAGAAATTCACACTTTATACATCTTGATCCATTCGTGCCTAAGGAAATA
GGCAAGTATCTTATCATTTGAAATCTTTTAAGCCCTACAATGTCAG
Found at i:4460621 original size:90 final size:89
Alignment explanation
Indices: 4460412--4460637 Score: 265
Period size: 90 Copynumber: 2.5 Consensus size: 89
4460402 TTCTTAGCTC
* * * * * *
4460412 CTAGATGGTATTGATGCATCACAAAGTCTAATTTCCATGGGACAACGTGCAGCCCCCACATTCCC
1 CTAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTGGGGCAA-GTGCAACCCACACATTCCC
* ** *
4460477 AATCGTATCCCCTTTTTCTCAACGA
65 AATCATATCCCCTTCGTCTCAACCA
* * *
4460502 TTAGATGGTATTGATGCATTACAAAGCCTGATTTCCTTTGGGGCAAGTTGCAACCCATACATTCC
1 CTAGATGGTATTGATGCATCACAAAGCCTGATTTCC-TTGGGGCAAG-TGCAACCCACACATTCC
*
4460567 CAATCATATCCCCTTCGTC-CAGCCA
64 CAATCATATCCCCTTCGTCTCAACCA
* * *
4460592 CTATATGGTATTGATGCATCACAAAGCCTGATATCCTTAGGGCAAG
1 CTAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTGGGGCAAG
4460638 GATATCATGA
Statistics
Matches: 115, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
89 9 0.08
90 69 0.60
91 37 0.32
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (89 bp):
CTAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTGGGGCAAGTGCAACCCACACATTCCCA
ATCATATCCCCTTCGTCTCAACCA
Found at i:4461002 original size:48 final size:48
Alignment explanation
Indices: 4460928--4461032 Score: 129
Period size: 48 Copynumber: 2.2 Consensus size: 48
4460918 ACTGTATCCT
* ***
4460928 GTCAAACTCTTCTCATCCCTTGTTTGACTATATTGGCGTTAGGGCCTA
1 GTCAAACTCTTCACATCCCCCATTTGACTATATTGGCGTTAGGGCCTA
* * * * *
4460976 GTTAAACTCTTCACATCCCCCATTTGACTGTTTTGGTGTTAGGGCCTG
1 GTCAAACTCTTCACATCCCCCATTTGACTATATTGGCGTTAGGGCCTA
4461024 GTCAAACTC
1 GTCAAACTC
4461033 CTCTTTCTCC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (48 bp):
GTCAAACTCTTCACATCCCCCATTTGACTATATTGGCGTTAGGGCCTA
Found at i:4461362 original size:41 final size:42
Alignment explanation
Indices: 4461312--4461406 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 42
4461302 CAAACTTGAG
*
4461312 AGACTTCTTTACCTTTTGTCTGC-C-TATGACTTTGACTCGAA
1 AGACTTCTTTACCTTTTGTCTACTCATA-GACTTTGACTCGAA
* **
4461353 AGACTTCTTTATCTTTTGTCTACTCATAGACTTTGACTCGGG
1 AGACTTCTTTACCTTTTGTCTACTCATAGACTTTGACTCGAA
4461395 AGACTTCCTTTA
1 AGACTT-CTTTA
4461407 TCAATTGTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 21 0.45
42 19 0.40
43 7 0.15
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (42 bp):
AGACTTCTTTACCTTTTGTCTACTCATAGACTTTGACTCGAA
Found at i:4461399 original size:42 final size:40
Alignment explanation
Indices: 4461311--4461461 Score: 149
Period size: 43 Copynumber: 3.6 Consensus size: 40
4461301 TCAAACTTGA
* *
4461311 GAGACTTCTTTACCTTTTGTCTGCCTATGACTTTGACTCGA
1 GAGACTTCTTTATCTTTTGTCTGCCTA-GACTTTGACTCGG
* *
4461352 AAGACTTCTTTATCTTTTGTCTACTCATAGACTTTGACTCGG
1 GAGACTTCTTTATCTTTTGTCTGC-C-TAGACTTTGACTCGG
** * * *
4461394 GAGACTTCCTTTATCAATTGTCTGCCCGTCGGCTTAGACTCGG
1 GAGACTT-CTTTATCTTTTGTCTG-CC-TAGACTTTGACTCGG
* *
4461437 GAGACTTCTTCATCTTTTATCTGCC
1 GAGACTTCTTTATCTTTTGTCTGCC
4461462 CATTGGCTCA
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 23 0.26
42 31 0.34
43 35 0.39
44 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (40 bp):
GAGACTTCTTTATCTTTTGTCTGCCTAGACTTTGACTCGG
Found at i:4461452 original size:85 final size:85
Alignment explanation
Indices: 4461353--4461874 Score: 356
Period size: 85 Copynumber: 6.2 Consensus size: 85
4461343 TTGACTCGAA
* * * * * * ** *
4461353 AGACTTCTTTATCTTTTGTCTACTCATAGACTTTGACTCGGGAGACTTCCTTTATCAATTGTCTG
1 AGACTTCTTCATCTTTTGTCTGCCCGTCGACTTAGACTCGGGAGACTTCCTTTATCAACCGTCTA
*
4461418 CCCGTCGGCTTAGACTCGGG
66 CCCGTCAGCTTAGACTCGGG
* * * * * * ** * *
4461438 AGACTTCTTCATCTTTTATCTGCCCATTGGCTCAGACTAGGGAGAC-TCCTTTATCATTCATCTG
1 AGACTTCTTCATCTTTTGTCTGCCCGTCGACTTAGACTCGGGAGACTTCCTTTATCAACCGTCTA
* * *
4461502 CCCATCAGCTCA-AATCAGGG
66 CCCGTCAGCTTAGACTC-GGG
* * * * * * * * * *
4461522 AGACTCCTTTATCGTTCGTCTACCCGTCGGCTTAAACCCGAGAGACTTCCTTTATCAACCATCTA
1 AGACTTCTTCATCTTTTGTCTGCCCGTCGACTTAGACTCGGGAGACTTCCTTTATCAACCGTCTA
* *
4461587 CCCGT-TGACTTAGACTTGGG
66 CCCGTCAG-CTTAGACTCGGG
*** * * * *
4461607 AGACTTCTTCATCCACTATCTGCCCGTCGACTTAGGGCT-AGGAGACTTCCTTTATGAACCGTCT
1 AGACTTCTTCATCTTTTGTCTGCCCGTCGACTTA-GACTCGGGAGACTTCCTTTATCAACCGTCT
* *
4461671 ACCCATCAGCTTAGACTTGGG
65 ACCCGTCAGCTTAGACTCGGG
* * * * * *
4461692 AGACTTCTTCATTTTTTGTCTGCTCGTTGCCTCAGA-TCTGGGAGATTTCCTTTATCAACCGTCT
1 AGACTTCTTCATCTTTTGTCTGCCCGTCGACTTAGACTC-GGGAGACTTCCTTTATCAACCGTCT
* * *
4461756 ACCCGTCAACTTAGACCCAGG
65 ACCCGTCAGCTTAGACTCGGG
* * * * * * * *
4461777 AGACTTCTTCATCTTTCGTTTGCCCATCGGCTTAGTCTCGGGAGACTT-CTTCATCCACCGTCTG
1 AGACTTCTTCATCTTTTGTCTGCCCGTCGACTTAGACTCGGGAGACTTCCTTTATCAACCGTCTA
* * * *
4461841 CCCATCGGCTCAAACTCGGG
66 CCCGTCAGCTTAGACTCGGG
*
4461861 CA-ACTTTTTCATCT
1 -AGACTTCTTCATCT
4461875 CTTTATTTGC
Statistics
Matches: 333, Mismatches: 94, Indels: 21
0.74 0.21 0.05
Matches are distributed among these distances:
83 4 0.01
84 99 0.30
85 224 0.67
86 6 0.02
ACGTcount: A:0.20, C:0.29, G:0.18, T:0.33
Consensus pattern (85 bp):
AGACTTCTTCATCTTTTGTCTGCCCGTCGACTTAGACTCGGGAGACTTCCTTTATCAACCGTCTA
CCCGTCAGCTTAGACTCGGG
Found at i:4461475 original size:42 final size:42
Alignment explanation
Indices: 4461387--4461534 Score: 154
Period size: 42 Copynumber: 3.5 Consensus size: 42
4461377 CATAGACTTT
* * * *
4461387 GACTCGGGAGACTTCCTTTATCAATTGTCTGCCCGTCGGCTTA
1 GACTCGGGAGACTT-CTTTATCATTTATCTGCCCATCGGCTCA
* * *
4461430 GACTCGGGAGACTTCTTCATCTTTTATCTGCCCATTGGCTCA
1 GACTCGGGAGACTTCTTTATCATTTATCTGCCCATCGGCTCA
* * * *
4461472 GACTAGGGAGACTCCTTTATCATTCATCTGCCCATCAGCTCA
1 GACTCGGGAGACTTCTTTATCATTTATCTGCCCATCGGCTCA
* *
4461514 -AATCAGGGAGACTCCTTTATC
1 GACTC-GGGAGACTTCTTTATC
4461535 GTTCGTCTAC
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
41 2 0.02
42 72 0.82
43 14 0.16
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (42 bp):
GACTCGGGAGACTTCTTTATCATTTATCTGCCCATCGGCTCA
Found at i:4461567 original size:42 final size:42
Alignment explanation
Indices: 4461479--4461589 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
4461469 TCAGACTAGG
* * *
4461479 GAGACTCCTTTATCATTCATCTGCCCATCAGCTCAAATCAGG
1 GAGACTCCTTTATCATTCATCTACCCATCAGCTCAAACCAGA
* * * * * *
4461521 GAGACTCCTTTATCGTTCGTCTACCCGTCGGCTTAAACCCGA
1 GAGACTCCTTTATCATTCATCTACCCATCAGCTCAAACCAGA
**
4461563 GAGACTTCCTTTATCAACCATCTACCC
1 GAGAC-TCCTTTATCATTCATCTACCC
4461590 GTTGACTTAG
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 38 0.69
43 17 0.31
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (42 bp):
GAGACTCCTTTATCATTCATCTACCCATCAGCTCAAACCAGA
Found at i:4461639 original size:42 final size:43
Alignment explanation
Indices: 4461540--4461703 Score: 138
Period size: 43 Copynumber: 3.9 Consensus size: 43
4461530 TTATCGTTCG
* * ** * *
4461540 TCTACCCGTCGGCTTAAACCCGAGAGACTTCCTTTATCAACCA
1 TCTACCCGTCGACTTAGACTTGGGAGACTTCCTTCATCAACCA
* * *
4461583 TCTACCCGTTGACTTAGACTTGGGAGACTT-CTTCATCCACTA
1 TCTACCCGTCGACTTAGACTTGGGAGACTTCCTTCATCAACCA
* * * * * *
4461625 TCTGCCCGTCGACTTAGGGC-TAGGAGACTTCCTTTATGAACCG
1 TCTACCCGTCGACTTA-GACTTGGGAGACTTCCTTCATCAACCA
*
4461668 TCTACCCATC-AGCTTAGACTTGGGAGACTT-CTTCAT
1 TCTACCCGTCGA-CTTAGACTTGGGAGACTTCCTTCAT
4461704 TTTTTGTCTG
Statistics
Matches: 94, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
42 40 0.43
43 54 0.57
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (43 bp):
TCTACCCGTCGACTTAGACTTGGGAGACTTCCTTCATCAACCA
Found at i:4461859 original size:42 final size:42
Alignment explanation
Indices: 4461775--4461873 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 42
4461765 CTTAGACCCA
*** * * **
4461775 GGAGACTTCTTCATCTTTCGTTTGCCCATCGGCTTAGTCTCG
1 GGAGACTTCTTCATCCACCGTCTGCCCATCGGCTCAAACTCG
4461817 GGAGACTTCTTCATCCACCGTCTGCCCATCGGCTCAAACTCG
1 GGAGACTTCTTCATCCACCGTCTGCCCATCGGCTCAAACTCG
*
4461859 GGCA-ACTTTTTCATC
1 GG-AGACTTCTTCATC
4461874 TCTTTATTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 47 0.98
43 1 0.02
ACGTcount: A:0.16, C:0.32, G:0.19, T:0.32
Consensus pattern (42 bp):
GGAGACTTCTTCATCCACCGTCTGCCCATCGGCTCAAACTCG
Found at i:4462263 original size:20 final size:19
Alignment explanation
Indices: 4462209--4462264 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
4462199 AAAACCCTTA
*
4462209 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
4462229 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
4462249 AATGTATCGATACATG
1 AAAGTATCGATACATG
4462265 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:4464634 original size:13 final size:13
Alignment explanation
Indices: 4464616--4464641 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4464606 TACAGCAAGT
4464616 ATGTATCGATACA
1 ATGTATCGATACA
4464629 ATGTATCGATACA
1 ATGTATCGATACA
4464642 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4466892 original size:21 final size:21
Alignment explanation
Indices: 4466859--4466903 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4466849 TTGCAAGTTG
*
4466859 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
4466881 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
4466901 AAA
1 AAA
4466904 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:4469901 original size:13 final size:13
Alignment explanation
Indices: 4469883--4469908 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4469873 ACATTTTTCT
4469883 TTGTATCGATACA
1 TTGTATCGATACA
4469896 TTGTATCGATACA
1 TTGTATCGATACA
4469909 GGGTGATTAT
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:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4472474 original size:13 final size:13
Alignment explanation
Indices: 4472456--4472481 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4472446 TACAGCAAGT
4472456 ATGTATCGATACA
1 ATGTATCGATACA
4472469 ATGTATCGATACA
1 ATGTATCGATACA
4472482 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4475446 original size:15 final size:15
Alignment explanation
Indices: 4475426--4475456 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4475416 TAAAAATATC
*
4475426 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
4475441 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
4475456 C
1 C
4475457 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:4477556 original size:13 final size:13
Alignment explanation
Indices: 4477538--4477575 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
4477528 CATTTTTCTT
4477538 TGTATCGATACAA
1 TGTATCGATACAA
*
4477551 TGTATCGATACAC
1 TGTATCGATACAA
4477564 TGTATCGATACA
1 TGTATCGATACA
4477576 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4479227 original size:23 final size:21
Alignment explanation
Indices: 4479185--4479228 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
4479175 GTTTAAAGTT
**
4479185 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
4479206 TTTGCATTGTACTTTGAATTTTA
1 TTTGC-TTG-ACTTTGAATTTTA
4479229 ATCTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:4480051 original size:20 final size:19
Alignment explanation
Indices: 4479997--4480052 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
4479987 AAAACCCTTA
*
4479997 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
4480017 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
4480037 AATGTATCGATACATG
1 AAAGTATCGATACATG
4480053 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:4480140 original size:13 final size:13
Alignment explanation
Indices: 4480122--4480147 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4480112 TACACAAAAT
4480122 ATGTATCGATACA
1 ATGTATCGATACA
4480135 ATGTATCGATACA
1 ATGTATCGATACA
4480148 CAAAAAAAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4480169 original size:35 final size:32
Alignment explanation
Indices: 4480104--4480169 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
4480094 TAGCCAAACT
*
4480104 TGTATCGATACACAAAATATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
4480136 TGTATCGATACACAAAAAAAATTGTATCGATACA
1 TGTATCGATACAC--AAAAAA-TGTATCGATACA
4480170 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.43
34 5 0.17
35 12 0.40
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:4481202 original size:167 final size:168
Alignment explanation
Indices: 4480925--4481253 Score: 448
Period size: 167 Copynumber: 2.0 Consensus size: 168
4480915 ATCCCCGGTA
4480925 AACCCATTACCCTTATGGTAACCTATCAACTCACTCTCCGATCAACCTTCATCCATTATTTACCT
1 AACCCATTACCCTTATGGTAACCTATCAACTCACTCTCCGATCAACCTTCATCCATTATTTACCT
* * * *
4480990 GTCAGCTCAATCCACGATAAGCCCATTACGCTTATGGTGACCTGTCAGCT-AGTCTCCAGTTAAC
66 GTCAGCTCAATCCACGATAAGCCCATTACCCTTATGGTCACCTGTCAGCTCAATCTCCAGTCAAC
*
4481054 CCTCATCCATTAGTTACTTGTCGGCTCAGTCCCTAGTC
131 CCTCATCCATTAGTTACCTGTCGGCTCAGTCCCTAGTC
* * * * * *
4481092 AACCCATTACCCTTATGGTGACC-AGTCAGCTTAGTCTTCGGTCAACCTTCATCCATTATTTACC
1 AACCCATTACCCTTATGGTAACCTA-TCAACTCACTCTCCGATCAACCTTCATCCATTATTTACC
* * * * *
4481156 TAT-TGACTCAGTCCCCGGTAAGCCCATTACCCTTATGGTCACCTGTCAGCTCAATCTCCAGTCA
65 TGTCAG-CTCAATCCACGATAAGCCCATTACCCTTATGGTCACCTGTCAGCTCAATCTCCAGTCA
* * *
4481220 GCCTTCATCCATTATTTACCTGTCGGCTCAGTCC
129 ACCCTCATCCATTAGTTACCTGTCGGCTCAGTCC
4481254 TTCGTAAACC
Statistics
Matches: 140, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
166 2 0.01
167 98 0.70
168 40 0.29
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.31
Consensus pattern (168 bp):
AACCCATTACCCTTATGGTAACCTATCAACTCACTCTCCGATCAACCTTCATCCATTATTTACCT
GTCAGCTCAATCCACGATAAGCCCATTACCCTTATGGTCACCTGTCAGCTCAATCTCCAGTCAAC
CCTCATCCATTAGTTACCTGTCGGCTCAGTCCCTAGTC
Found at i:4481250 original size:84 final size:84
Alignment explanation
Indices: 4480916--4481253 Score: 403
Period size: 84 Copynumber: 4.0 Consensus size: 84
4480906 GCTTTCACAA
* * * * *
4480916 TCCCCGGTAAACCCATTACCCTTATGGTAACCTATCAACTCACTCTCC-GATCAACCTTCATCCA
1 TCCCCGGTAAGCCCATTACCCTTATGGTGACCTGTCAGCTCAGTCTCCAG-TCAACCTTCATCCA
* *
4480980 TTATTTACCTGTCAGCTCAA
65 TTATTTACCTGTCGGCTCAG
* * * * *
4481000 TCCACGATAAGCCCATTACGCTTATGGTGACCTGTCAGCT-AGTCTCCAGTTAACCCTCATCCAT
1 TCCCCGGTAAGCCCATTACCCTTATGGTGACCTGTCAGCTCAGTCTCCAGTCAACCTTCATCCAT
* *
4481064 TAGTTACTTGTCGGCTCAG
66 TATTTACCTGTCGGCTCAG
** * * * *
4481083 TCCCTAGTCAA-CCCATTACCCTTATGGTGACCAGTCAGCTTAGTCTTCGGTCAACCTTCATCCA
1 TCCCCGGT-AAGCCCATTACCCTTATGGTGACCTGTCAGCTCAGTCTCCAGTCAACCTTCATCCA
* * *
4481147 TTATTTACCTATTGACTCAG
65 TTATTTACCTGTCGGCTCAG
* * *
4481167 TCCCCGGTAAGCCCATTACCCTTATGGTCACCTGTCAGCTCAATCTCCAGTCAGCCTTCATCCAT
1 TCCCCGGTAAGCCCATTACCCTTATGGTGACCTGTCAGCTCAGTCTCCAGTCAACCTTCATCCAT
4481232 TATTTACCTGTCGGCTCAG
66 TATTTACCTGTCGGCTCAG
4481251 TCC
1 TCC
4481254 TTCGTAAACC
Statistics
Matches: 209, Mismatches: 41, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
83 67 0.32
84 142 0.68
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.31
Consensus pattern (84 bp):
TCCCCGGTAAGCCCATTACCCTTATGGTGACCTGTCAGCTCAGTCTCCAGTCAACCTTCATCCAT
TATTTACCTGTCGGCTCAG
Found at i:4483161 original size:157 final size:152
Alignment explanation
Indices: 4482799--4483215 Score: 405
Period size: 157 Copynumber: 2.7 Consensus size: 152
4482789 AATTACGGGG
* * * * ** * *
4482799 TTTTCTTCTCCATAATTTTTTTGAGAGGATTTTTCTTAATTTTTAATTTTTAAAATTCATAAAAC
1 TTTTCTACTCCGTAAATTTTTTGAGAGGATTTTTCATGGTTTTAAATTTTTAAAATTCATCAAAC
* * * ** ** * * *
4482864 ATTATCAATTATTCCATTC-AA---AAAATTCATTCATTTCA-TGAGTTTTTGATTTTTTTTCTT
66 ATTATCATTTATTTCATACTAATTCAACCTTCA-AAAATTCATTCA-TTTTTGATTTTTTTCCTT
* *
4482924 AAATTTTTTTTTTGAAATATAGTG
129 AAATTTTTTTTTTGAAATAGAGTA
* * *
4482948 TTTTCTACTCCGTAAATTTTTTTAGAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAAC
1 TTTTCTACTCCGTAAATTTTTTGAGAGGATTTTTCATGGTTTTAAATTTTTAAAATTCATCAAAC
* * * *
4483013 ATTATCATTTATTTCATATTAGTTCAACCTTCAAAATTTCATTCATTTTTTATTTTTTTCCTTGA
66 ATTATCATTTATTTCATACTAATTCAACCTTCAAAAATTCATTCATTTTTGATTTTTTTCCTT-A
4483078 AATTTCTCTTTTTTTGAAATACGA-TA
130 AA-TT-T-TTTTTTTGAAATA-GAGTA
*** *
4483104 TTTTCTACTTTTTAAATTTTTCTGAGGGGATTTTTCATGGTTTTAAATTTTTAAAATTCATCAAA
1 TTTTCTACTCCGTAAATTTTT-TGAGAGGATTTTTCATGGTTTTAAATTTTTAAAATTCATCAAA
* ***
4483169 CATTATTATTTATTTCATACTAATTCATTTTTCAAAAATTCATTCAT
65 CATTATCATTTATTTCATACTAATTCAACCTTCAAAAATTCATTCAT
4483216 CTTCATGAGT
Statistics
Matches: 222, Mismatches: 35, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
149 73 0.33
150 1 0.00
152 22 0.10
153 11 0.05
154 2 0.01
155 1 0.00
156 32 0.14
157 80 0.36
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (152 bp):
TTTTCTACTCCGTAAATTTTTTGAGAGGATTTTTCATGGTTTTAAATTTTTAAAATTCATCAAAC
ATTATCATTTATTTCATACTAATTCAACCTTCAAAAATTCATTCATTTTTGATTTTTTTCCTTAA
ATTTTTTTTTTGAAATAGAGTA
Found at i:4484354 original size:195 final size:194
Alignment explanation
Indices: 4484023--4484412 Score: 717
Period size: 195 Copynumber: 2.0 Consensus size: 194
4484013 GCTGCTGTTT
*
4484023 TATGCATCTTTTAATCCATATCAGCATGTGTATTTATTATGTTTTCAATTTTATTTGATTATGGA
1 TATGCATCTTTTAATCCATATCAGCATGTGTATTTATTATGTTTTCAAGTTTATTTGATTATGGA
*
4484088 TGAACAAATGTGAATATACTTAGGTTTATGGGTTTGTTTATAGTGTTTATTGCATGTTCTTCATG
66 TGAACAAATGTGAATATACTTAGGTTTATAGGTTTGTTTATAGTGTTTATTGCATGTTCTTCATG
*
4484153 ATTTTTGCTTCATGATCACATTTTATTGGAATAATCATGCTGGACGAATGTTTTGGGATGATGA
131 ATTTTTGCTTCATGATCACATTTTATTGGAATAATCATGCTGGACAAATGTTTTGGGATGATGA
*
4484217 TATGCATCTTTTAATCCATATCAGCATGTGTATTTATTGTGTTTTCAAGTTTATTTGATTATGTG
1 TATGCATCTTTTAATCCATATCAGCATGTGTATTTATTATGTTTTCAAGTTTATTTGATTATG-G
*
4484282 ATGAACAAATGTGAATATACTTAGGTTTATAGGTTTGTTTATAGTGTTTGTTGCATGTTCTTCAT
65 ATGAACAAATGTGAATATACTTAGGTTTATAGGTTTGTTTATAGTGTTTATTGCATGTTCTTCAT
*
4484347 GATTTTTGCTTCATTATCACATTTTATTGGAATAATCATGCTGGACAAATGTTTTGGGATGATGA
130 GATTTTTGCTTCATGATCACATTTTATTGGAATAATCATGCTGGACAAATGTTTTGGGATGATGA
4484412 T
1 T
4484413 CAGCTTGTTC
Statistics
Matches: 189, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
194 61 0.32
195 128 0.68
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (194 bp):
TATGCATCTTTTAATCCATATCAGCATGTGTATTTATTATGTTTTCAAGTTTATTTGATTATGGA
TGAACAAATGTGAATATACTTAGGTTTATAGGTTTGTTTATAGTGTTTATTGCATGTTCTTCATG
ATTTTTGCTTCATGATCACATTTTATTGGAATAATCATGCTGGACAAATGTTTTGGGATGATGA
Found at i:4485177 original size:127 final size:128
Alignment explanation
Indices: 4484909--4485257 Score: 490
Period size: 127 Copynumber: 2.7 Consensus size: 128
4484899 TAACTATTAT
* ** *
4484909 TTTTTAATCTTATATATTCCTATGGGTATTCGTAGGGGTATGTAAGATTCCAAAAAACTTTTCGT
1 TTTTTAATCTTTTATATTCCTATGGGTATTCGTAGGGGTATAAAAGATTTC-AAAAACTTTTCGT
* *
4484974 ATCTTTTCGGGTATCCATTAAGGTACGAAA-TGTTTTTTTCCAAACATAAATAAATATTAATCA
65 ATCTTTTCGGGTATCCATTAAGGTACGAAATTATTTTTTTCCAAAAATAAATAAATATTAATCA
* * *
4485037 TTTTTAATTTTTTAAATTCCTATGGGTATTCGTAGGGGTATAAAAGATTTCAAAAACTTTTCATA
1 TTTTTAATCTTTTATATTCCTATGGGTATTCGTAGGGGTATAAAAGATTTCAAAAACTTTTCGTA
*
4485102 T-TTTTCGGGTATCCATTAAGGTACGAAATTATTTTTTTCCAAAAATAAATAAATATTAATCG
66 TCTTTTCGGGTATCCATTAAGGTACGAAATTATTTTTTTCCAAAAATAAATAAATATTAATCA
* * * *
4485164 TTTTTAATCTTTTATATTCCTATGGGTATCCATAGGGGTATTAAAAAATTTC--AAATTTTTCGT
1 TTTTTAATCTTTTATATTCCTATGGGTATTCGTAGGGGTA-TAAAAGATTTCAAAAACTTTTCGT
** * *
4485227 ATCTTGGCGGGTCTCCATCAAGGTACGAAAT
65 ATCTTTTCGGGTATCCATTAAGGTACGAAAT
4485258 GACTCATTTT
Statistics
Matches: 197, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
126 38 0.19
127 104 0.53
128 55 0.28
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (128 bp):
TTTTTAATCTTTTATATTCCTATGGGTATTCGTAGGGGTATAAAAGATTTCAAAAACTTTTCGTA
TCTTTTCGGGTATCCATTAAGGTACGAAATTATTTTTTTCCAAAAATAAATAAATATTAATCA
Found at i:4488756 original size:52 final size:52
Alignment explanation
Indices: 4488686--4488806 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
4488676 GAAAATTTAT
*
4488686 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
4488738 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
4488790 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
4488807 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:4488819 original size:52 final size:51
Alignment explanation
Indices: 4488686--4488826 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
4488676 GAAAATTTAT
4488686 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
4488738 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
4488790 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
4488827 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:4488833 original size:13 final size:13
Alignment explanation
Indices: 4488815--4488839 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4488805 CAAAGATCAG
4488815 TGTATCGATACAA
1 TGTATCGATACAA
4488828 TGTATCGATACA
1 TGTATCGATACA
4488840 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4488923 original size:13 final size:13
Alignment explanation
Indices: 4488905--4488929 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4488895 CAAAAAAATA
4488905 TGTATCGATACAT
1 TGTATCGATACAT
4488918 TGTATCGATACA
1 TGTATCGATACA
4488930 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4488925 original size:33 final size:33
Alignment explanation
Indices: 4488883--4488949 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4488873 AGTAGCTTAA
4488883 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
4488916 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
4488949 A
1 A
4488950 GATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:4489592 original size:156 final size:155
Alignment explanation
Indices: 4489316--4489599 Score: 410
Period size: 156 Copynumber: 1.8 Consensus size: 155
4489306 CCGAGTCTGC
* * * *
4489316 TTTTATGCCGAATATGGGTATTTAGGATAAGTTTATTCCTTTTATAGTCCTTTTTAAGTCTTTTA
1 TTTTATGCCGAAGATGGATATTTAGGATAAGTTCATCCCTTTTATAGTCCTTTTTAAGTCTTTTA
* *
4489381 GGGGTACCGAGATACTTTCCCGTCGAAGGTATCGCCTAAGGGCATTTTCGTATTTTTTTAGAATC
66 GGGGTACCGAGATACTTTCACGTCGAAGGTATCGCCTAAAGGCATTTTCGTA-TTTTTTAGAATC
4489446 GAGTCCTAGGTTATTATCGGGTCCGT
130 GAGTCCTAGGTTATTATCGGGTCCGT
* * * *
4489472 TTTTATGCTGAAGGTGGATATTTAGGATAAGTTCA-CCGCTTTTATAGTCTTTTTTAAGTTTTTT
1 TTTTATGCCGAAGATGGATATTTAGGATAAGTTCATCC-CTTTTATAGTCCTTTTTAAGTCTTTT
** *
4489536 AGGGGTACCGAGATACTTTCACGTCGAAGGTATC-TTTAAAGGCATTTTTGTAATTTTTTAGAAT
65 AGGGGTACCGAGATACTTTCACGTCGAAGGTATCGCCTAAAGGCATTTTCGT-ATTTTTTAGAAT
4489600 GGGGATATGT
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
155 25 0.22
156 88 0.78
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (155 bp):
TTTTATGCCGAAGATGGATATTTAGGATAAGTTCATCCCTTTTATAGTCCTTTTTAAGTCTTTTA
GGGGTACCGAGATACTTTCACGTCGAAGGTATCGCCTAAAGGCATTTTCGTATTTTTTAGAATCG
AGTCCTAGGTTATTATCGGGTCCGT
Found at i:4491925 original size:57 final size:57
Alignment explanation
Indices: 4491864--4492248 Score: 356
Period size: 57 Copynumber: 6.6 Consensus size: 57
4491854 CAAATTTTAA
* *
4491864 ACCTTAGCAAATGGTTGAGTTCTCAAGCCTTTAGCAATGATGAGATAATAATTTTGG
1 ACCTTAGCAAATGGTTGAGTCCTCAAGCCTTTAGCAATGGTGAGATAATAATTTTGG
** *
4491921 ACCTTAGCAAATCATTAAGTCCTCAAGCCTTTAGCAATGGTGAGATAATAATTTTGG
1 ACCTTAGCAAATGGTTGAGTCCTCAAGCCTTTAGCAATGGTGAGATAATAATTTTGG
* * * * ** * * ** *
4491978 ACTTTTGCAAATAGTTAAGTTTTCAAGCCTTTGGCGATGGCCAGATAATAATTTCGG
1 ACCTTAGCAAATGGTTGAGTCCTCAAGCCTTTAGCAATGGTGAGATAATAATTTTGG
** * * *
4492035 ACCTTAGCAAACAGTTGAGTTCTCAAGCCTTTGGCCACAGCAAGGGCAATGGTAAATAATAATTT
1 ACCTTAGCAAATGGTTGAGTCCTCAAGCCTTT------AGCAATGG---T-G-AGATAATAATTT
*
4492100 TGT
55 TGG
* ** * * *
4492103 ACCTTAGTAAATGGCCGAGTCCTCAAGCCTTTGGCAATGGTAAGATAATAATTTTAG
1 ACCTTAGCAAATGGTTGAGTCCTCAAGCCTTTAGCAATGGTGAGATAATAATTTTGG
* * * *
4492160 ACCTTAGCAAATGGTCGAGTCCTCAAGCCTTTTGCAATGGTAAGTTAATAATTTTGG
1 ACCTTAGCAAATGGTTGAGTCCTCAAGCCTTTAGCAATGGTGAGATAATAATTTTGG
* **
4492217 ACCTTAGTAAATGGTCAAGTCCTCAAGCCTTT
1 ACCTTAGCAAATGGTTGAGTCCTCAAGCCTTT
4492249 GCTAGGTCAA
Statistics
Matches: 269, Mismatches: 48, Indels: 22
0.79 0.14 0.06
Matches are distributed among these distances:
57 219 0.81
59 1 0.00
62 6 0.02
63 5 0.02
68 38 0.14
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (57 bp):
ACCTTAGCAAATGGTTGAGTCCTCAAGCCTTTAGCAATGGTGAGATAATAATTTTGG
Found at i:4491989 original size:139 final size:138
Alignment explanation
Indices: 4491726--4491978 Score: 350
Period size: 139 Copynumber: 1.8 Consensus size: 138
4491716 ATAGTTTTGG
* * *
4491726 ACCTTAGCACATGGTCGAGTTCTCAAGCCTTTATAATGGAGAGATAATAATTTTAGACTTTAGAA
1 ACCTTAGCAAATGGTCGAGTTCTCAAGCCTTTACAATGGAGAGATAATAATTTTAGACCTTAGAA
** *
4491791 AACGATAGAGTTTTCAAGCCTTTAGCAATGGCAAGATAATACTTTTGGATCTTAGCAAATGGTCA
66 AACGATAGAGTCCTCAAGCCTTTAGCAATGGCAAGATAATAATTTTGGATCTTAGCAAATGGTCA
4491856 AATTTTAA
131 AATTTTAA
* *
4491864 ACCTTAGCAAATGGTTGAGTTCTCAAGCCTTTAGCAAT-GATGAGATAATAATTTTGGACCTTAG
1 ACCTTAGCAAATGGTCGAGTTCTCAAGCCTTTA-CAATGGA-GAGATAATAATTTTAGACCTTAG
* **
4491928 CAAATC-ATTA-AGTCCTCAAGCCTTTAGCAATGGTGAGATAATAATTTTGGA
64 -AAAACGA-TAGAGTCCTCAAGCCTTTAGCAATGGCAAGATAATAATTTTGGA
4491979 CTTTTGCAAA
Statistics
Matches: 100, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
138 33 0.33
139 61 0.61
140 6 0.06
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (138 bp):
ACCTTAGCAAATGGTCGAGTTCTCAAGCCTTTACAATGGAGAGATAATAATTTTAGACCTTAGAA
AACGATAGAGTCCTCAAGCCTTTAGCAATGGCAAGATAATAATTTTGGATCTTAGCAAATGGTCA
AATTTTAA
Found at i:4503551 original size:20 final size:20
Alignment explanation
Indices: 4503526--4503650 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
4503516 TTTTAACTAG
*
4503526 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTAAAAA
4503546 ATGTATCGATACATCAGGATAAAACA
1 ATGTATCGATACAT-----TAAAA-A
* *
4503572 ATAGAATGTATCGATACATTGAAGA
1 AT-G--T--ATCGATACATTAAAAA
* * * *
4503597 ATGTATCAATACATTCATAC
1 ATGTATCGATACATTAAAAA
4503617 ATGTATCGATACATTAAAAA
1 ATGTATCGATACATTAAAAA
*
4503637 ATGTAGCGATACAT
1 ATGTATCGATACAT
4503651 CTGGGTAAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
20 54 0.67
22 1 0.01
24 1 0.01
25 7 0.09
26 6 0.07
27 1 0.01
29 1 0.01
31 10 0.12
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTAAAAA
Found at i:4503699 original size:90 final size:91
Alignment explanation
Indices: 4503526--4503699 Score: 251
Period size: 91 Copynumber: 1.9 Consensus size: 91
4503516 TTTTAACTAG
* * *
4503526 ATGTATCGATACATTGAAAAATGTATCGATACATCAGGATAAAACAATAGAATGTATCGATACAT
1 ATGTATCGATACATTAAAAAATGTAGCGATACATCAGGATAAAACAACAGAATGTATCGATACAT
*
4503591 TGAAGAATGTATCAATACATTCATAC
66 TGAAAAATGTATCAATACATTCATAC
* * * **
4503617 ATGTATCGATACATTAAAAAATGTAGCGATACATCTGGGTAAAA-GACAGAATGTATCGATGTAT
1 ATGTATCGATACATTAAAAAATGTAGCGATACATCAGGATAAAACAACAGAATGTATCGATACAT
*
4503681 TGAAAAATGTATCGATACA
66 TGAAAAATGTATCAATACA
4503700 ACTAGTAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
90 33 0.45
91 40 0.55
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (91 bp):
ATGTATCGATACATTAAAAAATGTAGCGATACATCAGGATAAAACAACAGAATGTATCGATACAT
TGAAAAATGTATCAATACATTCATAC
Found at i:4510474 original size:155 final size:155
Alignment explanation
Indices: 4510077--4510620 Score: 505
Period size: 156 Copynumber: 3.5 Consensus size: 155
4510067 TTATTTATCA
* * * * *
4510077 TTTTAAGTCCTTTAGGGGTACAGGGATACTTTCACTTCGAAAGTAT-CCCCTAGGGGCATTTTCA
1 TTTTAAGTCCTTTAAGGGTACAGGGATACTTTCACGTCGAAGGTATACCCATAAGGGCATTTTCA
* * * ** **
4510141 TAATTTTTCAGAATCGAGTCTTAGGTTGTCATCGGGTCCGCTTTTATGTTGAAGATGGGCATTTA
66 TAATTTTT-AAAATCGAGTCCTAAGTCATCATCGGGTCCGCTTTTATGCAGAAG-TGGGCATTTA
4510206 GGATAGGTTCACCTCA-TTTATAGTCTT
129 GGATAGGTTCACC-CATTTTATAGTCTT
* * * * * **
4510233 TCTTAAGTCCTTT-AGTGGTACAAGGATACTTTCACGTTGAAGGTATTCCC-TTAGGATATTTTC
1 TTTTAAGTCCTTTAAG-GGTACAGGGATACTTTCACGTCGAAGGTATACCCATAAGGGCATTTTC
* * ** * * *
4510296 GTAATTTTTTAAAATCGAGTCCTAAGTCATCACCATGTCCGTTTTTATGCCGAATGTGGGTATTT
65 ATAA-TTTTTAAAATCGAGTCCTAAGTCATCATCGGGTCCGCTTTTATGCAGAA-GTGGGCATTT
*
4510361 AGGATAGGCTCACCCATTTTATA-TCTT
128 AGGATAGGTTCACCCATTTTATAGTCTT
** *
4510388 TTTTAAGTCCTTTAAGGGTATTGGGATACTTTCAGGTCGAAGGTATACCCATAAGGGCATTTTCA
1 TTTTAAGTCCTTTAAGGGTACAGGGATACTTTCACGTCGAAGGTATACCCATAAGGGCATTTTCA
* * * * * * * * * *
4510453 TAATTTTTATAACCAACTCCTATGTCATCATTGGGTCCACTTTCATGCAGAAGGTGGGCACTCAG
66 TAATTTTTAAAATCGAGTCCTAAGTCATCATCGGGTCCGCTTTTATGCAGAA-GTGGGCATTTAG
* *
4510518 GATAGGTTCATCCTTTTTATGAGTC-T
130 GATAGGTTCACCCATTTTAT-AGTCTT
* * * *
4510544 TTTTAAGTCCTTTAAGATTGT-CA-GG--ACTTTTACGTCGAAGGTATACCCATAGGGGTATTTT
1 TTTTAAGTCCTTTAAG--GGTACAGGGATACTTTCACGTCGAAGGTATACCCATAAGGGCATTTT
4510605 CATAATTTCTTAAAAT
64 CATAATTT-TTAAAAT
4510621 TAAGTCCTTT
Statistics
Matches: 312, Mismatches: 64, Indels: 25
0.78 0.16 0.06
Matches are distributed among these distances:
154 40 0.13
155 114 0.37
156 145 0.46
157 11 0.04
158 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (155 bp):
TTTTAAGTCCTTTAAGGGTACAGGGATACTTTCACGTCGAAGGTATACCCATAAGGGCATTTTCA
TAATTTTTAAAATCGAGTCCTAAGTCATCATCGGGTCCGCTTTTATGCAGAAGTGGGCATTTAGG
ATAGGTTCACCCATTTTATAGTCTT
Found at i:4510630 original size:74 final size:75
Alignment explanation
Indices: 4510546--4510688 Score: 200
Period size: 76 Copynumber: 1.9 Consensus size: 75
4510536 ATGAGTCTTT
* *
4510546 TTAAGTCCTTTAAGATTG-TCAGG-ACTTTTACGTCGAAGGTATACCCATAGGGGTATTTTCATA
1 TTAAGTCCTTTAAGATTGCT-AGGAACTTTCACGTCGAAGGTATACCCATAGGGGCATTTTCATA
4510609 ATTTCTTAAAA
65 ATTTCTTAAAA
* * * *
4510620 TTAAGTCCTTTATGGTTGCTAGGATACTTTCACGTCGAAGGTATACCTATAGTGGCATTTTCATA
1 TTAAGTCCTTTAAGATTGCTAGGA-ACTTTCACGTCGAAGGTATACCCATAGGGGCATTTTCATA
4510685 ATTT
65 ATTT
4510689 TTTAGAACCA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
74 19 0.32
75 1 0.02
76 40 0.67
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (75 bp):
TTAAGTCCTTTAAGATTGCTAGGAACTTTCACGTCGAAGGTATACCCATAGGGGCATTTTCATAA
TTTCTTAAAA
Found at i:4513416 original size:17 final size:17
Alignment explanation
Indices: 4513394--4513429 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4513384 CATTTCATAT
* *
4513394 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTCTTTCTTC
4513411 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
4513428 TT
1 TT
4513430 CATCTTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:4514726 original size:32 final size:32
Alignment explanation
Indices: 4514677--4515790 Score: 2006
Period size: 32 Copynumber: 34.8 Consensus size: 32
4514667 AAAATGGTGA
* * *
4514677 TTTGAAAAGGGTTGCCACTGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
4514709 TTTTAAATGGGTTGCCACCGACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
4514741 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
**
4514773 TTTGAAAAAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
4514805 TTTGAAATGGGTTGCCACCTACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
4514837 TTT-AGAATGGGTTGCCACCGACCTGTGTGGGC
1 TTTGA-AATGGGTTGCCACCGACTTGTGTGGGC
4514869 TTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 -TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4514902 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4514934 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4514966 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4514998 TTTGAAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
4515031 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4515063 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4515095 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4515127 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4515159 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
4515191 TTTGAAATGGGTTGCCACCTACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
4515223 TTT-AGAATGGGTTGCCACCGACCTGTGTGGGC
1 TTTGA-AATGGGTTGCCACCGACTTGTGTGGGC
4515255 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4515287 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4515319 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4515351 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4515383 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4515415 TTTGAAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
4515448 -TTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4515479 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4515511 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4515543 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
4515575 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4515607 TTTG-AATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4515638 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4515670 TTTGAAATGGGTTGCCA-CGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4515701 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4515733 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
4515765 TTTGAAATGGG-TGCCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
4515791 GATTTAAAAG
Statistics
Matches: 1052, Mismatches: 20, Indels: 21
0.96 0.02 0.02
Matches are distributed among these distances:
31 105 0.10
32 856 0.81
33 90 0.09
34 1 0.00
ACGTcount: A:0.16, C:0.19, G:0.34, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:4515807 original size:27 final size:27
Alignment explanation
Indices: 4515773--4516482 Score: 1168
Period size: 27 Copynumber: 26.0 Consensus size: 27
4515763 GCTTTGAAAT
* *
4515773 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
4515800 GTATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4515827 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4515854 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
4515882 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4515909 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
4515936 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4515963 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
4515991 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
4516018 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4516045 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
4516072 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4516099 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
4516127 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
4516154 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
4516182 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4516209 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
4516236 GGGTGCCACGGAGTTGTGGTCTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
4516264 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
4516291 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4516318 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
4516345 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
4516372 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
4516399 GGGTGCCACAGAGTTGTGGACTAAAAAA
1 GGGTGCCACGGAGTTGTGGACT-TAAAA
* *
4516427 GGGTGCCACAGAGTTGTGGACTTTAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
4516454 GGATGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
4516482 G
1 G
4516483 AAAATGCCAC
Statistics
Matches: 644, Mismatches: 32, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
27 485 0.75
28 159 0.25
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:4515896 original size:82 final size:81
Alignment explanation
Indices: 4515773--4516482 Score: 1177
Period size: 82 Copynumber: 8.7 Consensus size: 81
4515763 GCTTTGAAAT
* * ** *
4515773 GGGTGCCACAGAGTTGTGGATTTAAAAGTATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGG
4515838 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
4515854 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACG
4515919 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
4515936 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACG
4516001 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * *
4516018 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGG
*
4516083 AGTTGTGGACTAAAAA
66 AGTTGTGGACTTAAAA
*
4516099 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCAC
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAG-GGTGCCAC
*
4516164 GGAGTTATGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
*
4516182 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGG
*
4516247 AGTTGTGGTCTTTAAAA
66 AGTTGTGGAC-TTAAAA
4516264 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGG
4516329 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
*
4516345 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGG
*
4516410 AGTTGTGGACTAAAAAA
66 AGTTGTGGACT-TAAAA
* * *
4516427 GGGTGCCACAGAGTTGTGGACTTTAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGAC-TTAAAAG
4516483 AAAATGCCAC
Statistics
Matches: 596, Mismatches: 26, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
81 195 0.33
82 351 0.59
83 50 0.08
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.23
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:4515964 original size:109 final size:108
Alignment explanation
Indices: 4515773--4516482 Score: 1168
Period size: 109 Copynumber: 6.5 Consensus size: 108
4515763 GCTTTGAAAT
* * **
4515773 GGGTGCCACAGAGTTGTGGATTTAAAAGTATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
4515838 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
66 AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGAC-TTAAAA
*
4515882 GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
4515947 AGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAAGGG-TGCCACAGAGTTGTGGACTTAAAA
*
4515991 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
4516056 AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAA
66 AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
* *
4516099 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCAC
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
* *
4516164 GGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
*
4516209 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
4516274 GAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
*
4516318 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
4516383 AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAA
66 AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACT-TAAAA
* * * *
4516427 GGGTGCCACAGAGTTGTGGACTTTAAAGGATGCCACAGAGTTGTGGACTTTAAAAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAG
4516483 AAAATGCCAC
Statistics
Matches: 568, Mismatches: 27, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
108 97 0.17
109 369 0.65
110 102 0.18
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.23
Consensus pattern (108 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
Found at i:4517553 original size:12 final size:11
Alignment explanation
Indices: 4517532--4517565 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
4517522 GGTGAAAAGG
4517532 GTTTTTTTTTT
1 GTTTTTTTTTT
4517543 GTTTTTGTTTTT
1 GTTTTT-TTTTT
4517555 GTTTTTTTTTT
1 GTTTTTTTTTT
4517566 TAGGATTGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:4517566 original size:6 final size:6
Alignment explanation
Indices: 4517532--4517565 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
4517522 GGTGAAAAGG
4517532 GTTTTT -TTTTT GTTTTT GTTTTT GTTTTT -TTTTT
1 GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT
4517566 TAGGATTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (6 bp):
GTTTTT
Found at i:4517837 original size:23 final size:23
Alignment explanation
Indices: 4517809--4517860 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
4517799 CATGTCCTCG
* *
4517809 TTTTTTATTTTTCTTGTT-CTCTT
1 TTTTTTATTTTGCTT-TTGCACTT
4517832 TTTTTTATTTTGCTTTTGCACTT
1 TTTTTTATTTTGCTTTTGCACTT
4517855 TTTTTT
1 TTTTTT
4517861 TCTTTTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.77
Consensus pattern (23 bp):
TTTTTTATTTTGCTTTTGCACTT
Found at i:4523924 original size:2 final size:2
Alignment explanation
Indices: 4523917--4523957 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
4523907 GATTTTCAAA
*
4523917 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4523958 AATAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4524325 original size:12 final size:13
Alignment explanation
Indices: 4524308--4524342 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
4524298 CCATTTCATA
4524308 TTTTTTCTTTTT-
1 TTTTTTCTTTTTC
4524320 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
4524333 TTTCTTTCTT
1 TTT-TTTCTT
4524343 CTTCATCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 3 0.14
14 6 0.29
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:4527400 original size:20 final size:20
Alignment explanation
Indices: 4527375--4527429 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
4527365 AAAATGCTTG
4527375 AATGTATCGATACATTGAGA
1 AATGTATCGATACATTGAGA
*
4527395 AATGTATCGATAAATTGAGA
1 AATGTATCGATACATTGAGA
4527415 AATGTATCGATACAT
1 AATGTATCGATACAT
4527430 CTGGATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTGAGA
Found at i:4527503 original size:30 final size:30
Alignment explanation
Indices: 4527467--4527538 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
4527457 TAATGAAGAG
4527467 TGTATCGATACATCTAGGTAAAACCTAGAA
1 TGTATCGATACATCTAGGTAAAACCTAGAA
* *
4527497 TGTATCGATACATCTAGGTAAAGCTTAGAA
1 TGTATCGATACATCTAGGTAAAACCTAGAA
4527527 TGTATCGATACA
1 TGTATCGATACA
4527539 AATTCTGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (30 bp):
TGTATCGATACATCTAGGTAAAACCTAGAA
Found at i:4528229 original size:21 final size:21
Alignment explanation
Indices: 4528178--4528239 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
4528168 CTCCAGTGAA
* *
4528178 ATTAGTTACCGTAGTGATGAG
1 ATTAGATATCGTAGTGATGAG
*
4528199 ATTAGGTATCGTAGTGATGAG
1 ATTAGATATCGTAGTGATGAG
*
4528220 ATT-GAATATCGTAATGATGA
1 ATTAG-ATATCGTAGTGATGA
4528240 TATCAAAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
20 1 0.03
21 35 0.97
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.34
Consensus pattern (21 bp):
ATTAGATATCGTAGTGATGAG
Found at i:4528479 original size:36 final size:36
Alignment explanation
Indices: 4528346--4528485 Score: 90
Period size: 37 Copynumber: 3.8 Consensus size: 36
4528336 GTGTATATAT
* * *
4528346 AATAA-ATAATTAAAAGTTATATCTATAGT--AAATA
1 AATAATATAATTATAA-TTATATTTATATTAAAAATA
* *
4528380 AATAAAATATAAATAATAATTATATTTATCTTAAACAATA
1 AAT--AATAT-AATTATAATTATATTTATATTAAA-AATA
* * * **
4528420 AATTAAAATTATTAAAAGCATATTT-TATTAAAAATA
1 AA-TAATATAATTATAATTATATTTATATTAAAAATA
*
4528456 AATAATTATAATTATAATTATATTCATATT
1 AATAA-TATAATTATAATTATATTTATATT
4528486 TATATTTATA
Statistics
Matches: 78, Mismatches: 18, Indels: 17
0.69 0.16 0.15
Matches are distributed among these distances:
34 3 0.04
35 3 0.04
36 21 0.27
37 22 0.28
38 17 0.22
39 5 0.06
40 6 0.08
41 1 0.01
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (36 bp):
AATAATATAATTATAATTATATTTATATTAAAAATA
Found at i:4528524 original size:17 final size:17
Alignment explanation
Indices: 4528502--4528551 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 17
4528492 TATATGAATT
4528502 AATAAATATATATTAAA
1 AATAAATATATATTAAA
4528519 AATAAAT-TAATAATATAAA
1 AATAAATAT-AT-AT-TAAA
4528538 AATTAAA-ATATATT
1 AA-TAAATATATATT
4528552 TTTTAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
16 1 0.04
17 10 0.36
18 4 0.14
19 8 0.29
20 5 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AATAAATATATATTAAA
Found at i:4528539 original size:20 final size:21
Alignment explanation
Indices: 4528506--4528544 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
4528496 TGAATTAATA
*
4528506 AATATATATTAAAAATAAATT
1 AATATATATAAAAAATAAATT
*
4528527 AATA-ATATAAAAATTAAA
1 AATATATATAAAAAATAAA
4528545 ATATATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AATATATATAAAAAATAAATT
Found at i:4533948 original size:23 final size:22
Alignment explanation
Indices: 4533914--4533959 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
4533904 TGAGTTCATT
* *
4533914 AATTTTACATATTTTATTAGTAA
1 AATTTTAAATATCTTATT-GTAA
4533937 AATTTTAAATATCTTATTGTAA
1 AATTTTAAATATCTTATTGTAA
4533959 A
1 A
4533960 TTTATTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (22 bp):
AATTTTAAATATCTTATTGTAA
Found at i:4538714 original size:17 final size:17
Alignment explanation
Indices: 4538692--4538727 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4538682 ATTTCATATT
* *
4538692 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTCTTTCTTC
4538709 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
4538726 TT
1 TT
4538728 CTTCATCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:4540135 original size:32 final size:32
Alignment explanation
Indices: 4539979--4540492 Score: 614
Period size: 32 Copynumber: 15.7 Consensus size: 32
4539969 AAAATGGTGA
* * *
4539979 TTTGAAAAGGGTTGCCACTGAAC-TGCGTGGGC
1 TTTGAAATGGGTTGCCACCG-ACTTGTGTGGGC
* *
4540011 TTTTTACATATGGGTTGCCA-CGACTTGCGTGGGC
1 -TTTGA-A-ATGGGTTGCCACCGACTTGTGTGGGC
* * *
4540045 TTTTAACTGGGTTGCCAACCGACTTGTGTGGCC
1 TTTGAAATGGGTTGCC-ACCGACTTGTGTGGGC
**
4540078 TTTGGAAAAAGGTTGCCACCGACTTGTGTGGGC
1 TTT-GAAATGGGTTGCCACCGACTTGTGTGGGC
* *
4540111 TTTGAAATGGGTTGACACCTACTTGTGTTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTG-TGGGC
* *
4540144 TTAG-AAT--GTTGCCACCGACCTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4540173 TTTTGAAATATGGGGTTGCCACCGACTTGTGTGGGC
1 -TTTG-AA-AT-GGGTTGCCACCGACTTGTGTGGGC
4540209 TTT-AAATTGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAA-TGGGTTGCCACCGACTTGTGTGGGC
4540241 TTTGAAATGGGTTGCCACCGACTTGTTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTG-TGTGGGC
*
4540274 TTTGGAATGGG-TGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4540305 TTTGAAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTG-AAATGGGTTGCCACCGACTTGTGTGGGC
4540338 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
4540370 TTTGAAATGGGTTGCCACCGACTTGTGTGTGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTG-GGC
* *
4540403 TTTGAACATGGTTTGGCACC-ACTTGTGTGGGC
1 TTTGAA-ATGGGTTGCCACCGACTTGTGTGGGC
*
4540435 TTTTGAGAATGGGTGGCCACCGAACTCTGATGT-GGC
1 -TTTGA-AATGGGTTGCCACCG-ACT-TG-TGTGGGC
4540471 TTTGAAATGGGTTGCCACCGAC
1 TTTGAAATGGGTTGCCACCGAC
4540493 GGGCTGAGTT
Statistics
Matches: 425, Mismatches: 29, Indels: 54
0.84 0.06 0.11
Matches are distributed among these distances:
29 5 0.01
30 17 0.04
31 20 0.05
32 151 0.36
33 136 0.32
34 46 0.11
35 21 0.05
36 26 0.06
37 3 0.01
ACGTcount: A:0.17, C:0.19, G:0.32, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:4540566 original size:31 final size:32
Alignment explanation
Indices: 4540504--4540879 Score: 422
Period size: 31 Copynumber: 11.5 Consensus size: 32
4540494 GGCTGAGTTC
4540504 ACTTGTGT-GGCTTTTGATAATGGGTTG-CACCG
1 ACTTGTGTGGGC-TTTGA-AATGGGTTGCCACCG
4540536 AC-TG-GTGGGCTTTGAAATGGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAAT-GGGTTGCCACCG
4540567 ACTTGT-TGTGGCTTTGAAAAT-GGTTGCCACCG
1 ACTTGTGTG-GGCTTTG-AAATGGGTTGCCACCG
*
4540599 ACTTGTGTGGGCTTTG-AACGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
*
4540630 ACTTGTGGGGGCTTTGAAAATGGG-TGCCCACCG
1 ACTTGTGTGGGCTTTG-AAATGGGTTG-CCACCG
*
4540663 ACTTGTTGTGGGCTTGAAGCTTTAAATGGGTTGCCACCG
1 ACTTG-TGTGGGC-T-----TTGAAATGGGTTGCCACCG
4540702 ACTTGTGTGGGCTCTTTTGAAACTGGGTTGCCACCGTG
1 ACTTGTGTGGG--C-TTTGAAA-TGGGTTGCCACC--G
4540740 AC-TGTGT-GGCTTTG-AATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
4540769 ACTTGTGTGGGC-TTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
4540800 ACTTGTGT-GGCTTTG-AA-GGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
4540829 ACTTGTGTGGGCTTTTGAAAATGGGTTGCCACCG
1 ACTTGTGTGGGC-TTTG-AAATGGGTTGCCACCG
4540863 ACTTGTGTGGGCTTTGA
1 ACTTGTGTGGGCTTTGA
4540880 TGTGTCACGA
Statistics
Matches: 304, Mismatches: 6, Indels: 68
0.80 0.02 0.18
Matches are distributed among these distances:
29 26 0.09
30 31 0.10
31 83 0.27
32 35 0.12
33 35 0.12
34 35 0.12
35 6 0.02
36 14 0.05
37 5 0.02
38 9 0.03
39 18 0.06
40 7 0.02
ACGTcount: A:0.16, C:0.19, G:0.34, T:0.32
Consensus pattern (32 bp):
ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
Found at i:4540593 original size:108 final size:112
Alignment explanation
Indices: 4540395--4540600 Score: 277
Period size: 108 Copynumber: 1.9 Consensus size: 112
4540385 CACCGACTTG
*
4540395 TGTGTGGCTTTGAACATGGTTTGGCACCACTTGTGTGGGCTTTTGAGAATGGGTGGCCACCGAAC
1 TGTGTGGCTTTGAACATGGGTTGGCACCACTTGTGTGGGCTTTTGAGAATGGGTGGCCACCGAAC
4540460 TCTGATGTGGCTTTGAAATGGGTTGCCACCGACGGGCTGAGTTCACT
66 TCTGATGTGGCTTTGAAATGGGTTGCCACCGACGGGCTGAGTTCACT
*
4540507 TGTGTGGCTTTTGATA-ATGGGTT-GCACCGAC-TG-GTGGGC-TTTGA-AATGGGGTTGCCACC
1 TGTGTGGC-TTTGA-ACATGGGTTGGCACC-ACTTGTGTGGGCTTTTGAGAAT-GGGTGGCCACC
*
4540566 G-ACT-TGTTGTGGCTTTGAAAAT-GGTTGCCACCGAC
62 GAACTCTGATGTGGCTTTG-AAATGGGTTGCCACCGAC
4540601 TTGTGTGGGC
Statistics
Matches: 86, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
108 25 0.29
109 10 0.12
110 16 0.19
111 6 0.07
112 15 0.17
113 13 0.15
114 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.33, T:0.31
Consensus pattern (112 bp):
TGTGTGGCTTTGAACATGGGTTGGCACCACTTGTGTGGGCTTTTGAGAATGGGTGGCCACCGAAC
TCTGATGTGGCTTTGAAATGGGTTGCCACCGACGGGCTGAGTTCACT
Found at i:4540622 original size:63 final size:63
Alignment explanation
Indices: 4540504--4541043 Score: 551
Period size: 63 Copynumber: 8.6 Consensus size: 63
4540494 GGCTGAGTTC
*
4540504 ACTTGTGT-GGCTTTTGATAATGGGTTG-CACCGAC-TG-GTGGGCTTTGAAATGGGGTTGCCAC
1 ACTTGTGTGGGC-TTTGAAAAT-GGTTGCCACCGACTTGTGTGGGCTTTG-AAT-GGGTTGCCAC
4540565 CG
62 CG
*
4540567 ACTTGT-TGTGGCTTTGAAAATGGTTGCCACCGACTTGTGTGGGCTTTGAACGGGTTGCCACCG
1 ACTTGTGTG-GGCTTTGAAAATGGTTGCCACCGACTTGTGTGGGCTTTGAATGGGTTGCCACCG
* * *
4540630 ACTTGTGGGGGCTTTGAAAATGGGTGCCCACCGACTTGTTGTGGGCTTGAAGCTTTAAATGGGTT
1 ACTTGTGTGGGCTTTGAAAATGGTTG-CCACCGACTTG-TGT--G---G--GCTTTGAATGGGTT
4540695 GCCACCG
57 GCCACCG
*
4540702 ACTTGTGTGGGCTCTTTTGAAACTGGGTTGCCACCGTGAC-TGTGT-GGCTTTGAATGGGTTGCC
1 ACTTGTGTGGG--C-TTTGAAAAT-GGTTGCCACC--GACTTGTGTGGGCTTTGAATGGGTTGCC
4540765 ACCG
60 ACCG
4540769 ACTTGTGTGGGC-TTG-AAATGGGTTGCCACCGACTTGTGT-GGCTTTGAA-GGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAAAT-GGTTGCCACCGACTTGTGTGGGCTTTGAATGGGTTGCCACCG
*
4540829 ACTTGTGTGGGCTTTTGAAAATGGGTTGCCACCGACTTGTGTGGGCTTTG-AT--G-TGTCA-CG
1 ACTTGTGTGGGC-TTTGAAAAT-GGTTGCCACCGACTTGTGTGGGCTTTGAATGGGTTGCCACCG
** *
4540889 AC-T-T-TGGG---TG-AATGGGTTGCCACG-ACTTGTGTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAAATGGTTGCCACCGACTTGTGTGGGCTTTG-AATGGGTTGCCACCG
4540945 ACTTGTGTGGGCTTTG-AAATGGTTGCCACCGACTTGTGT-GGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAAATGGTTGCCACCGACTTGTGTGGGCTTTG-AATGGGTTGCCACCG
* *
4541007 ACTTGTGTGGGCTTTG-AAATGG-TGCCACAGAGTTGTG
1 ACTTGTGTGGGCTTTGAAAATGGTTGCCACCGACTTGTG
4541044 GATTTAAAAG
Statistics
Matches: 416, Mismatches: 21, Indels: 82
0.80 0.04 0.16
Matches are distributed among these distances:
50 16 0.04
51 9 0.02
52 4 0.01
53 2 0.00
54 1 0.00
55 4 0.01
56 4 0.01
57 5 0.01
58 2 0.00
59 5 0.01
60 31 0.07
61 31 0.07
62 82 0.20
63 91 0.22
64 26 0.06
65 14 0.03
67 32 0.08
69 1 0.00
70 1 0.00
72 29 0.07
74 1 0.00
75 16 0.04
76 6 0.01
77 3 0.01
ACGTcount: A:0.16, C:0.19, G:0.34, T:0.32
Consensus pattern (63 bp):
ACTTGTGTGGGCTTTGAAAATGGTTGCCACCGACTTGTGTGGGCTTTGAATGGGTTGCCACCG
Found at i:4540934 original size:31 final size:32
Alignment explanation
Indices: 4540899--4541028 Score: 239
Period size: 31 Copynumber: 4.2 Consensus size: 32
4540889 ACTTTGGGTG
4540899 AATGGGTTGCCA-CGACTTGTGTGGGCTTTGA
1 AATGGGTTGCCACCGACTTGTGTGGGCTTTGA
4540930 AATGGGTTGCCACCGACTTGTGTGGGCTTTGA
1 AATGGGTTGCCACCGACTTGTGTGGGCTTTGA
4540962 AAT-GGTTGCCACCGACTTGTGT-GGCTTTGA
1 AATGGGTTGCCACCGACTTGTGTGGGCTTTGA
4540992 AATGGGTTGCCACCGACTTGTGTGGGCTTTGA
1 AATGGGTTGCCACCGACTTGTGTGGGCTTTGA
4541024 AATGG
1 AATGG
4541029 TGCCACAGAG
Statistics
Matches: 96, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
30 11 0.11
31 50 0.52
32 35 0.36
ACGTcount: A:0.17, C:0.18, G:0.34, T:0.32
Consensus pattern (32 bp):
AATGGGTTGCCACCGACTTGTGTGGGCTTTGA
Found at i:4541029 original size:62 final size:63
Alignment explanation
Indices: 4540903--4541043 Score: 243
Period size: 62 Copynumber: 2.3 Consensus size: 63
4540893 TGGGTGAATG
4540903 GGTTGCCA-CGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
4540965 GGTTGCCACCGACTTGTGT-GGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
* *
4541027 GG-TGCCACAGAGTTGTG
1 GGTTGCCACCGACTTGTG
4541044 GATTTAAAAG
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
61 13 0.17
62 53 0.70
63 10 0.13
ACGTcount: A:0.16, C:0.18, G:0.34, T:0.31
Consensus pattern (63 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
Found at i:4541087 original size:28 final size:27
Alignment explanation
Indices: 4541027--4541740 Score: 1092
Period size: 27 Copynumber: 26.0 Consensus size: 27
4541017 GCTTTGAAAT
* *
4541027 GGTGCCACAGAGTTGTGGATTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
**
4541054 TATGCCACGGAGTTGTGGACCTTAAAAG
1 GGTGCCACGGAGTTGTGGA-CTTAAAAG
4541082 GGTGCCACGGAGTTGTGGACCTTAAAAG
1 GGTGCCACGGAGTTGTGGA-CTTAAAAG
4541110 GGTGCCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACGGAGTTGTGGAC-TTAAAAG
*
4541138 GGTGCCACAGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
4541165 GGTGCCACGGAGTT-TGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
4541191 GGTGCCACGGAGTTGTGGTCTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
4541218 GGATGCCACGGAGTTGTGGACTCTTAAAAG
1 GG-TGCCACGGAGTTGTGGA--CTTAAAAG
4541248 GGTTGCCACGGAGTTGTGGACTTAAAAG
1 GG-TGCCACGGAGTTGTGGACTTAAAAG
*
4541276 GGTGCCACGGAGTTGTGGTCTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
4541303 GGTGCCACGGAGTTTGTGGACTTAAAAG
1 GGTGCCACGGAG-TTGTGGACTTAAAAG
*
4541331 GGTGCCACAGAGTTGTGGAC-TAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
4541357 GGTGCCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACGGAGTTGTGGAC-TTAAAAG
*
4541385 GGTGCCACAGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
* *
4541412 AGATGCCACGGAGTTATGGACTTAAAAG
1 -GGTGCCACGGAGTTGTGGACTTAAAAG
4541440 GGTGCCACGGAGTTGTGGACTT-AAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
4541466 GGTGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
4541493 GGTGCCACGGAGTTGTGGTCTTTAAAAG
1 GGTGCCACGGAGTTGTGGAC-TTAAAAG
4541521 GGTGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
4541548 GGTGCCACAGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
4541575 GGTGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
4541602 GGTGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
4541629 GGTTGCCACAGAGTTGTGGACTTAAAAG
1 GG-TGCCACGGAGTTGTGGACTTAAAAG
* *
4541657 GGTGCCACAGAGTTGTGGACTAAAAAAAG
1 GGTGCCACGGAGTTGTGGACT--TAAAAG
* *
4541686 GGTGCCACAGAGTTGTGGACTTTAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
* *
4541713 GATGCCACAGAGTTGTGGACTTTAAAAG
1 GGTGCCACGGAGTTGTGGAC-TTAAAAG
4541741 AAAATGCCAC
Statistics
Matches: 640, Mismatches: 31, Indels: 31
0.91 0.04 0.04
Matches are distributed among these distances:
26 77 0.12
27 274 0.43
28 236 0.37
29 26 0.04
30 27 0.04
ACGTcount: A:0.27, C:0.15, G:0.34, T:0.24
Consensus pattern (27 bp):
GGTGCCACGGAGTTGTGGACTTAAAAG
Found at i:4541237 original size:109 final size:109
Alignment explanation
Indices: 4541012--4541740 Score: 1092
Period size: 109 Copynumber: 6.6 Consensus size: 109
4541002 CACCGACTTG
* * * * * **
4541012 TGTGGGCTTTGAAATGGTGCCACAGAGTTGTGGATTTAAAAGTATGCCACGGAGTTGTGGACCTT
1 TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA-CTT
*
4541077 AAAAGGGTGCCACGGAGTTGTGGACCTTAAAAGGGTGCCACGGAGT
65 AAAAGGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACAGAGT
*
4541123 TGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTT-TGGACTTA
1 TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
* *
4541187 AAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGT
66 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACAGAGT
*
4541232 TGTGGACTCTTAAAAGGGTTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCT
1 TGTGGACT-TTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACT
4541297 TAAAAGGGTGCCACGGAGTTTGTGGACTTAAAAGGGTGCCACAGAGT
64 TAAAAGGGTGCCACGGAG-TTGTGGACTTAAAAGGGTGCCACAGAGT
*
4541344 TGTGGAC--TAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTT
1 TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT
* * *
4541407 AAAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGT
65 AAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
*
4541453 TGTGGAC-TT-AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTT
1 TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TT
4541516 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
65 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
4541561 TGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
1 TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
*
4541625 AAAGGGTTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
66 AAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
** * * * *
4541670 TGTGGACTAAAAAAAGGGTGCCACAGAGTTGTGGACTTTAAAGGATGCCACAGAGTTGTGGACTT
1 TGTGGACT-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-T
4541735 TAAAAG
64 TAAAAG
4541741 AAAATGCCAC
Statistics
Matches: 575, Mismatches: 29, Indels: 27
0.91 0.05 0.04
Matches are distributed among these distances:
108 108 0.19
109 243 0.42
110 25 0.04
111 136 0.24
112 47 0.08
113 16 0.03
ACGTcount: A:0.27, C:0.15, G:0.34, T:0.24
Consensus pattern (109 bp):
TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
Found at i:4542809 original size:6 final size:6
Alignment explanation
Indices: 4542794--4542827 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
4542784 GGTGAAAAGG
4542794 GTTTTT -TTTTT GTTTTT GTTTTT GTTTTT -TTTTT
1 GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT
4542828 AGGATTGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (6 bp):
GTTTTT
Found at i:4542815 original size:12 final size:11
Alignment explanation
Indices: 4542794--4542827 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
4542784 GGTGAAAAGG
4542794 GTTTTTTTTTT
1 GTTTTTTTTTT
4542805 GTTTTTGTTTTT
1 GTTTTT-TTTTT
4542817 GTTTTTTTTTT
1 GTTTTTTTTTT
4542828 AGGATTGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:4543098 original size:23 final size:23
Alignment explanation
Indices: 4543070--4543121 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
4543060 CATGTCCTCG
* *
4543070 TTTTTTATTTTTCTTGTT-CTCTT
1 TTTTTTATTTTGCTT-TTGCACTT
4543093 TTTTTTATTTTGCTTTTGCACTT
1 TTTTTTATTTTGCTTTTGCACTT
4543116 TTTTTT
1 TTTTTT
4543122 TCTTTTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.77
Consensus pattern (23 bp):
TTTTTTATTTTGCTTTTGCACTT
Found at i:4549580 original size:12 final size:13
Alignment explanation
Indices: 4549563--4549597 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
4549553 CCATTTCATA
4549563 TTTTTTCTTTTT-
1 TTTTTTCTTTTTC
4549575 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
4549588 TTTCTTTCTT
1 TTT-TTTCTT
4549598 CTTCATCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 3 0.14
14 6 0.29
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Done.