Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 209 of 295
Found at i:66695783 original size:30 final size:29
Alignment explanation
Indices: 66695710--66695785 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
66695700 CTCGCAAGAC
*
66695710 TTTTCACTTTTTTTTTTAACTTGATTTTT
1 TTTTCACTTTTTTTTTTAACTCGATTTTT
* * *
66695739 TTGGTCACCCTTTTTTTTT-GCTCGATTTTT
1 TT-TTCA-CTTTTTTTTTTAACTCGATTTTT
*
66695769 TTTTCACTTATTTTTTT
1 TTTTCACTTTTTTTTTT
66695786 GAATTTTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
28 9 0.24
29 5 0.13
30 14 0.37
31 10 0.26
ACGTcount: A:0.11, C:0.14, G:0.07, T:0.68
Consensus pattern (29 bp):
TTTTCACTTTTTTTTTTAACTCGATTTTT
Found at i:66695794 original size:12 final size:12
Alignment explanation
Indices: 66695763--66695835 Score: 67
Period size: 13 Copynumber: 5.8 Consensus size: 12
66695753 TTTTTGCTCG
*
66695763 ATTTTTTTTTCA
1 ATTTTTTTTTGA
*
66695775 CTTATTTTTTTGA
1 ATT-TTTTTTTGA
*
66695788 ATTTTTTTTTCA
1 ATTTTTTTTTGA
66695800 ATCAATTTTTTTTCGA
1 AT---TTTTTTTT-GA
66695816 ATTTTTTTTTG-
1 ATTTTTTTTTGA
66695827 ATTTTTTTT
1 ATTTTTTTT
66695836 GTTACTCCAA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
11 9 0.18
12 13 0.25
13 18 0.35
15 8 0.16
16 3 0.06
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.73
Consensus pattern (12 bp):
ATTTTTTTTTGA
Found at i:66695795 original size:28 final size:28
Alignment explanation
Indices: 66695763--66695825 Score: 87
Period size: 25 Copynumber: 2.4 Consensus size: 28
66695753 TTTTTGCTCG
* *
66695763 ATTTTTTTTTCACT-TA-TTTTTTT-GA
1 ATTTTTTTTTCAATCAATTTTTTTTCGA
66695788 ATTTTTTTTTCAATCAATTTTTTTTCGA
1 ATTTTTTTTTCAATCAATTTTTTTTCGA
66695816 ATTTTTTTTT
1 ATTTTTTTTT
66695826 GATTTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 13 0.39
26 1 0.03
27 7 0.21
28 12 0.36
ACGTcount: A:0.17, C:0.08, G:0.03, T:0.71
Consensus pattern (28 bp):
ATTTTTTTTTCAATCAATTTTTTTTCGA
Found at i:66699293 original size:12 final size:12
Alignment explanation
Indices: 66699278--66699308 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
66699268 TTCTTTTTGC
*
66699278 TTTTCAAAGGCT
1 TTTTCAAACGCT
66699290 TTTTCAAACGCT
1 TTTTCAAACGCT
66699302 TTTTCAA
1 TTTTCAA
66699309 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (12 bp):
TTTTCAAACGCT
Found at i:66699395 original size:108 final size:108
Alignment explanation
Indices: 66699261--66699599 Score: 633
Period size: 108 Copynumber: 3.1 Consensus size: 108
66699251 TCAATTTCTT
* *
66699261 TTTCATTTTCTTTTTGCTTTTCAAAGGCTTTTTCAAACGCTTTTTCAAGTTCTCTCAAGATTCGC
1 TTTCATTTTCTTTTTGCTTTTTAAAGGCTTTTTCAAAGGCTTTTTCAAGTTCTCTCAAGATTCGC
*
66699326 TCGTTTTCTCTCTTACTTGCCTCTTGCCTCTCTTTTCTTTTTA
66 TCATTTTCTCTCTTACTTGCCTCTTGCCTCTCTTTTCTTTTTA
66699369 TTTCATTTTCTTTTTGCTTTTTAAAGGCTTTTTCAAAGGCTTTTTCAAGTTCTCTCAAGATTCGC
1 TTTCATTTTCTTTTTGCTTTTTAAAGGCTTTTTCAAAGGCTTTTTCAAGTTCTCTCAAGATTCGC
*
66699434 TCATTTTCTCTCTTACTTGCCTCTTGCCTCTCTTTTCTTTCTA
66 TCATTTTCTCTCTTACTTGCCTCTTGCCTCTCTTTTCTTTTTA
66699477 TTTCATTTTCTTTTTGCTTTTTAAAGGCTTTTTCAAAGGCTTTTTCAAGTTCTCTCAAGATTCGC
1 TTTCATTTTCTTTTTGCTTTTTAAAGGCTTTTTCAAAGGCTTTTTCAAGTTCTCTCAAGATTCGC
66699542 TCATTTTCTCTCTTACTTGCCTCTTGCCTCTCTTTTCTTTTTA
66 TCATTTTCTCTCTTACTTGCCTCTTGCCTCTCTTTTCTTTTTA
*
66699585 TTTCTTTTTCTTTTT
1 TTTCATTTTCTTTTT
66699600 CTTCTTTTGC
Statistics
Matches: 225, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
108 225 1.00
ACGTcount: A:0.13, C:0.24, G:0.09, T:0.55
Consensus pattern (108 bp):
TTTCATTTTCTTTTTGCTTTTTAAAGGCTTTTTCAAAGGCTTTTTCAAGTTCTCTCAAGATTCGC
TCATTTTCTCTCTTACTTGCCTCTTGCCTCTCTTTTCTTTTTA
Found at i:66699401 original size:12 final size:12
Alignment explanation
Indices: 66699384--66699416 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
66699374 TTTTCTTTTT
66699384 GCTTTTT-AAAG
1 GCTTTTTCAAAG
66699395 GCTTTTTCAAAG
1 GCTTTTTCAAAG
66699407 GCTTTTTCAA
1 GCTTTTTCAA
66699417 GTTCTCTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.45
Consensus pattern (12 bp):
GCTTTTTCAAAG
Found at i:66699509 original size:12 final size:12
Alignment explanation
Indices: 66699492--66699524 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
66699482 TTTTCTTTTT
66699492 GCTTTTT-AAAG
1 GCTTTTTCAAAG
66699503 GCTTTTTCAAAG
1 GCTTTTTCAAAG
66699515 GCTTTTTCAA
1 GCTTTTTCAA
66699525 GTTCTCTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.45
Consensus pattern (12 bp):
GCTTTTTCAAAG
Found at i:66699582 original size:5 final size:5
Alignment explanation
Indices: 66699572--66699628 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
66699562 CTCTTGCCTC
*
66699572 TCTTT TCTTT T-TATT TCTTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
66699619 TCTTT TCTTT
1 TCTTT TCTTT
66699629 GTTTCCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:66699592 original size:15 final size:14
Alignment explanation
Indices: 66699572--66699628 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
66699562 CTCTTGCCTC
66699572 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-TT
*
66699587 TCTTTTTCTTTTTCT
1 TC-TTTTCTTTTTTT
66699602 TCTTTTGCTTTTTCTTT
1 TCTTTT-C-TTTT-TTT
66699619 TCTTTTCTTT
1 TCTTTTCTTT
66699629 GTTTCCTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 4 0.11
15 9 0.25
16 15 0.42
17 8 0.22
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (14 bp):
TCTTTTCTTTTTTT
Found at i:66699604 original size:25 final size:25
Alignment explanation
Indices: 66699576--66699624 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
66699566 TGCCTCTCTT
66699576 TTCTTTT-TATTTCTTTTTCTTTTTC
1 TTCTTTTCTATTTC-TTTTCTTTTTC
*
66699601 TTCTTTTGCTTTTTCTTTTCTTTT
1 TTCTTTT-CTATTTCTTTTCTTTT
66699625 CTTTGTTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 9 0.43
27 5 0.24
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (25 bp):
TTCTTTTCTATTTCTTTTCTTTTTC
Found at i:66700566 original size:11 final size:11
Alignment explanation
Indices: 66700552--66700592 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
66700542 TTTTTTTTTC
66700552 TTTTTGAATTT
1 TTTTTGAATTT
66700563 TTTTTGAATTTT
1 TTTTTGAA-TTT
* *
66700575 TTTTTCAAATT
1 TTTTTGAATTT
66700586 TTTTTGA
1 TTTTTGA
66700593 CTTGTATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (11 bp):
TTTTTGAATTT
Found at i:66702297 original size:30 final size:30
Alignment explanation
Indices: 66702263--66702359 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
66702253 TAAACTAAAA
* *
66702263 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* * * * * *
66702293 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* *
66702323 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGATTTAGCTCGTGAGCT-AAAGT
66702353 TGAGCTA
1 TGAGCTA
66702360 GGAATGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
30 47 0.94
31 3 0.06
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
Found at i:66709219 original size:13 final size:14
Alignment explanation
Indices: 66709201--66709236 Score: 65
Period size: 13 Copynumber: 2.6 Consensus size: 14
66709191 TTGTAGATTC
66709201 AAAAAAAAATCGA-
1 AAAAAAAAATCGAG
66709214 AAAAAAAAATCGAG
1 AAAAAAAAATCGAG
66709228 AAAAAAAAA
1 AAAAAAAAA
66709237 ATTTTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.81, C:0.06, G:0.08, T:0.06
Consensus pattern (14 bp):
AAAAAAAAATCGAG
Found at i:66713698 original size:7 final size:7
Alignment explanation
Indices: 66713678--66713708 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
66713668 ATTTGTAAAG
66713678 GACTTTT
1 GACTTTT
66713685 GGACTTTT
1 -GACTTTT
66713693 GACTTTT
1 GACTTTT
66713700 GACTTTT
1 GACTTTT
66713707 GA
1 GA
66713709 TCATTTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.16, C:0.13, G:0.19, T:0.52
Consensus pattern (7 bp):
GACTTTT
Found at i:66716702 original size:18 final size:18
Alignment explanation
Indices: 66716681--66716719 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
66716671 GATTGAGAGT
*
66716681 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAACA
* *
66716699 GAAAAGAAATTTGAAATA
1 GAAAAGAAATGTGAAACA
66716717 GAA
1 GAA
66716720 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.23, T:0.15
Consensus pattern (18 bp):
GAAAAGAAATGTGAAACA
Found at i:66720650 original size:20 final size:21
Alignment explanation
Indices: 66720615--66720653 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
66720605 CAGGTCGTTG
66720615 AGCTCAATTCAGCTCATTTCC
1 AGCTCAATTCAGCTCATTTCC
*
66720636 AGCTC-ATTGAGCTCATTT
1 AGCTCAATTCAGCTCATTT
66720654 GCTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (21 bp):
AGCTCAATTCAGCTCATTTCC
Found at i:66721062 original size:13 final size:13
Alignment explanation
Indices: 66721044--66721069 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66721034 TGTGTCCTAA
66721044 TATGAATTAAATT
1 TATGAATTAAATT
66721057 TATGAATTAAATT
1 TATGAATTAAATT
66721070 GCTTTCAGGT
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TATGAATTAAATT
Found at i:66722519 original size:21 final size:21
Alignment explanation
Indices: 66722474--66722536 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
66722464 TTTGAACCAT
* *
66722474 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
66722496 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
*
66722517 TACCATTTCGTAACAATTCC
1 TACCATTTCGTACCAATTCC
66722537 CAAATACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 24 0.67
22 12 0.33
ACGTcount: A:0.35, C:0.32, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:66722868 original size:13 final size:13
Alignment explanation
Indices: 66722852--66722882 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
66722842 AAGGAGTTCG
66722852 AAAAAAAATTGAA
1 AAAAAAAATTGAA
66722865 AAAAAAAATTGAA
1 AAAAAAAATTGAA
66722878 AAAAA
1 AAAAA
66722883 TGCATACGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (13 bp):
AAAAAAAATTGAA
Found at i:66725110 original size:22 final size:20
Alignment explanation
Indices: 66725068--66725123 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
66725058 GAATGAACAA
* *
66725068 AAAAAGAAATTGAGAAAGATT
1 AAAAAGAAA-AGAAAAAGATT
66725089 GAAAAAGAAAAGAAAAATGATT
1 -AAAAAGAAAAGAAAAA-GATT
*
66725111 CAAAAGAAAAGAA
1 AAAAAGAAAAGAA
66725124 TCGAGATTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.68, C:0.02, G:0.18, T:0.12
Consensus pattern (20 bp):
AAAAAGAAAAGAAAAAGATT
Found at i:66733426 original size:19 final size:19
Alignment explanation
Indices: 66733381--66733426 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
66733371 ATTAACACAC
*
66733381 AATTAATTAAAATATAACT
1 AATTAATAAAAATATAACT
*
66733400 -ATTCATAAAAATTATAA-T
1 AATTAATAAAAA-TATAACT
66733418 AATTAATAA
1 AATTAATAA
66733427 TTAAACAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTAATAAAAATATAACT
Found at i:66733653 original size:10 final size:10
Alignment explanation
Indices: 66733640--66733674 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
66733630 AAGCTCGGTT
66733640 GAGCTCAAAC
1 GAGCTCAAAC
*
66733650 GAGCTGAAAC
1 GAGCTCAAAC
*
66733660 GAGCTCAAAT
1 GAGCTCAAAC
66733670 GAGCT
1 GAGCT
66733675 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:66733683 original size:20 final size:20
Alignment explanation
Indices: 66733637--66733684 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
66733627 AGTAAGCTCG
66733637 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** *
66733657 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
66733677 GTTGAGCT
1 GTTGAGCT
66733685 GGACGGAGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:66735130 original size:20 final size:20
Alignment explanation
Indices: 66735107--66735160 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
66735097 AGTTTTTCCC
*
66735107 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
66735127 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
66735147 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
66735161 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:66735142 original size:30 final size:30
Alignment explanation
Indices: 66735107--66735180 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
66735097 AGTTTTTCCC
66735107 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
66735137 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
66735167 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
66735181 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:66735170 original size:20 final size:20
Alignment explanation
Indices: 66735107--66735171 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
66735097 AGTTTTTCCC
* * * *
66735107 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
66735127 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
66735146 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
66735167 AGCTC
1 AGCTC
66735172 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:66736722 original size:13 final size:12
Alignment explanation
Indices: 66736704--66736736 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
66736694 TTCGTAATGT
66736704 AAAAAAAAAAGTC
1 AAAAAAAAAA-TC
66736717 AAAAAAAAAATC
1 AAAAAAAAAATC
66736729 AAAAAAAA
1 AAAAAAAA
66736737 TTGAGTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.85, C:0.06, G:0.03, T:0.06
Consensus pattern (12 bp):
AAAAAAAAAATC
Found at i:66736825 original size:12 final size:11
Alignment explanation
Indices: 66736795--66736823 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
66736785 TTGGAGTAAC
66736795 AAAAAAATCGA
1 AAAAAAATCGA
66736806 AAAAAAATCGA
1 AAAAAAATCGA
66736817 AAAAAAA
1 AAAAAAA
66736824 ATTGATTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAAAAATCGA
Found at i:66737828 original size:15 final size:16
Alignment explanation
Indices: 66737808--66737839 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
66737798 AGAAAATGAA
66737808 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
66737823 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
66737839 A
1 A
66737840 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:66737954 original size:17 final size:18
Alignment explanation
Indices: 66737922--66737955 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66737912 AAAAGAGAGT
*
66737922 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
66737940 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
66737956 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:66739244 original size:20 final size:20
Alignment explanation
Indices: 66739221--66739274 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
66739211 AGTTTTTCCC
*
66739221 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
66739241 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
66739261 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
66739275 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:66739256 original size:30 final size:30
Alignment explanation
Indices: 66739221--66739294 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
66739211 AGTTTTTCCC
66739221 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
66739251 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
66739281 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
66739295 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:66739284 original size:20 final size:20
Alignment explanation
Indices: 66739221--66739285 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
66739211 AGTTTTTCCC
* * * *
66739221 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
66739241 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
66739260 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
66739281 AGCTC
1 AGCTC
66739286 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:66741133 original size:13 final size:14
Alignment explanation
Indices: 66741115--66741149 Score: 56
Period size: 12 Copynumber: 2.6 Consensus size: 14
66741105 CGTAGCTTCG
66741115 AAAAAAAAAG-TT-
1 AAAAAAAAAGTTTC
66741127 AAAAAAAAAGTTTC
1 AAAAAAAAAGTTTC
66741141 AAAAAAAAA
1 AAAAAAAAA
66741150 AATCCGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.48
13 2 0.10
14 9 0.43
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (14 bp):
AAAAAAAAAGTTTC
Found at i:66741952 original size:15 final size:15
Alignment explanation
Indices: 66741920--66741953 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
66741910 GTTCAACGAA
*
66741920 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
66741935 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
66741950 GAGG
1 GAGG
66741954 GAGGTTCGAT
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:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:66749553 original size:49 final size:49
Alignment explanation
Indices: 66749499--66749724 Score: 292
Period size: 49 Copynumber: 4.6 Consensus size: 49
66749489 CTGGTACGCA
* *
66749499 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
*
66749548 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* ** * * *
66749597 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATAGACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * * *
66749647 TAGTAGCCTGC-CTTAGTACTACACATGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAATTATCCGGTACACG
66749697 TAGTAGCCTGCACTTAGTACTACACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
66749725 CAACCTCACA
Statistics
Matches: 155, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
49 97 0.63
50 41 0.26
51 17 0.11
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:66759500 original size:16 final size:17
Alignment explanation
Indices: 66759470--66759506 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
66759460 CTCTCTTTTG
*
66759470 TTTTCTTTTTCTTATTT
1 TTTTCTTCTTCTTATTT
66759487 TTTTCTTCTT-TTATTT
1 TTTTCTTCTTCTTATTT
66759503 TTTT
1 TTTT
66759507 ACAATCTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTCTTCTTCTTATTT
Found at i:66761328 original size:44 final size:44
Alignment explanation
Indices: 66761278--66761366 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
66761268 CACTCGAAAA
66761278 GAAAGAGGAATTTCACTCACGCTCGTGTTTACGCTCGAGAATAG
1 GAAAGAGGAATTTCACTCACGCTCGTGTTTACGCTCGAGAATAG
66761322 GAAAGAGGAATTTCACTCACGCTCGTGTTTACGCTCGAGAATAG
1 GAAAGAGGAATTTCACTCACGCTCGTGTTTACGCTCGAGAATAG
66761366 G
1 G
66761367 CTTTTATCTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (44 bp):
GAAAGAGGAATTTCACTCACGCTCGTGTTTACGCTCGAGAATAG
Found at i:66761659 original size:10 final size:10
Alignment explanation
Indices: 66761644--66761699 Score: 60
Period size: 10 Copynumber: 5.7 Consensus size: 10
66761634 TTCTAGTTTC
66761644 AATTTTTTTT
1 AATTTTTTTT
*
66761654 AA-TTTTTTA
1 AATTTTTTTT
*
66761663 AATTTTTTTC
1 AATTTTTTTT
**
66761673 AAAATTTTTT
1 AATTTTTTTT
*
66761683 GATTTTTTTT
1 AATTTTTTTT
66761693 AATTTTT
1 AATTTTT
66761700 CGATTTTTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
9 8 0.22
10 28 0.78
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (10 bp):
AATTTTTTTT
Found at i:66761661 original size:9 final size:9
Alignment explanation
Indices: 66761647--66761699 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
66761637 TAGTTTCAAT
66761647 TTTTTTTAA
1 TTTTTTTAA
*
66761656 TTTTTTAAA
1 TTTTTTTAA
66761665 TTTTTTTCAAAA
1 TTTTTTT---AA
* *
66761677 TTTTTTGAT
1 TTTTTTTAA
66761686 TTTTTTTAA
1 TTTTTTTAA
66761695 TTTTT
1 TTTTT
66761700 CGATTTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
9 27 0.77
12 8 0.23
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:66761721 original size:39 final size:39
Alignment explanation
Indices: 66761645--66761721 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
66761635 TCTAGTTTCA
* *
66761645 ATTTTTTTTAATTTTTTAAATTTTTTTCAAAATTTTTTG
1 ATTTTTTTTAATTTTTCAAATTTTTTTCAAAACTTTTTG
* * **
66761684 ATTTTTTTTAATTTTTCGATTTTTTTTTGAAACTTTTT
1 ATTTTTTTTAATTTTTCAAATTTTTTTCAAAACTTTTT
66761722 TTTCACTTAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (39 bp):
ATTTTTTTTAATTTTTCAAATTTTTTTCAAAACTTTTTG
Found at i:66763172 original size:12 final size:13
Alignment explanation
Indices: 66763155--66763184 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
66763145 TGCAAAGCTG
66763155 AAAAAT-AAAATA
1 AAAAATAAAAATA
66763167 AAAAATAAAAATA
1 AAAAATAAAAATA
66763180 AAAAA
1 AAAAA
66763185 AGTTCAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:66773685 original size:18 final size:19
Alignment explanation
Indices: 66773662--66773700 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
66773652 TTTATCTCAA
*
66773662 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
66773680 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
66773699 TT
1 TT
66773701 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:66773739 original size:18 final size:18
Alignment explanation
Indices: 66773718--66773761 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
66773708 AAACTCTTTT
66773718 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
66773736 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
66773754 TCAATCTC
1 TCATTCTC
66773762 AATCACTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.16, C:0.30, G:0.00, T:0.55
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:66773746 original size:30 final size:30
Alignment explanation
Indices: 66773712--66773779 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
66773702 TCTCTCAAAC
* ** * *
66773712 TCTTTTTCATTCTCTTTTTCAATCTCATTT
1 TCTTTTTCACTCTCAATCTCAATCACATTT
*
66773742 TCTTTTTCACTCTCAATCTCAATCACTTTT
1 TCTTTTTCACTCTCAATCTCAATCACATTT
66773772 TCTTTTTC
1 TCTTTTTC
66773780 TTTCATTTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.15, C:0.26, G:0.00, T:0.59
Consensus pattern (30 bp):
TCTTTTTCACTCTCAATCTCAATCACATTT
Found at i:66773757 original size:24 final size:24
Alignment explanation
Indices: 66773693--66773762 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
66773683 CTTGTTCACA
* *
66773693 TTCTTTTTCTCTCTCAAACTCTTT
1 TTCTTTTTCTCTCTCAATCTCATT
* * * *
66773717 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTTTCTCTCTCAATCTCATT
*
66773741 TTCTTTTTCACTCTCAATCTCA
1 TTCTTTTTCTCTCTCAATCTCA
66773763 ATCACTTTTT
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.16, C:0.29, G:0.00, T:0.56
Consensus pattern (24 bp):
TTCTTTTTCTCTCTCAATCTCATT
Found at i:66776244 original size:10 final size:10
Alignment explanation
Indices: 66776231--66776265 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
66776221 AAGCTCGGTT
66776231 GAGCTCAAAC
1 GAGCTCAAAC
*
66776241 GAGCTGAAAC
1 GAGCTCAAAC
*
66776251 GAGCTCAAAT
1 GAGCTCAAAC
66776261 GAGCT
1 GAGCT
66776266 AAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:66776274 original size:20 final size:21
Alignment explanation
Indices: 66776228--66776275 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
66776218 AGTAAGCTCG
66776228 GTTGAGCTCAAACGAGCTGAA
1 GTTGAGCTCAAACGAGCTGAA
** *
66776249 -ACGAGCTCAAATGAGCT-AA
1 GTTGAGCTCAAACGAGCTGAA
66776268 GTTGAGCT
1 GTTGAGCT
66776276 GGACGGAGCT
Statistics
Matches: 21, Mismatches: 5, Indels: 3
0.72 0.17 0.10
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (21 bp):
GTTGAGCTCAAACGAGCTGAA
Found at i:66780040 original size:20 final size:20
Alignment explanation
Indices: 66780017--66780063 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
66780007 GGGTTAAGAT
*
66780017 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
66780037 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
66780057 TGAGCTG
1 TGAGCTG
66780064 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:66781790 original size:48 final size:48
Alignment explanation
Indices: 66781735--66781840 Score: 146
Period size: 48 Copynumber: 2.2 Consensus size: 48
66781725 TTGTCTTTTC
*
66781735 TTTCTTTTTCGATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCGATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
*
66781783 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCGATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
66781831 TTTCTTTTTC
1 TTTCTTTTTC
66781841 TATGACACTC
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
48 41 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.13, C:0.25, G:0.03, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCGATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:66782618 original size:71 final size:71
Alignment explanation
Indices: 66782502--66782643 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
66782492 GCAGATTCAT
66782502 GCATGAAGATTCAATGGATGTGAAGATGCATGCATGTTGGGTTCAATGCACCAAATGATACATGC
1 GCATGAAGATTCAATGGATGTGAAGATGCATGCATGTTGGGTTCAATGCACCAAATGATACATGC
66782567 ATGGAC
66 ATGGAC
66782573 GCATGAAGATTCAATGGATGTGAAGATGCATGCATGTTGGGTTCAATGCACCAAATGATACATGC
1 GCATGAAGATTCAATGGATGTGAAGATGCATGCATGTTGGGTTCAATGCACCAAATGATACATGC
66782638 ATGGAC
66 ATGGAC
66782644 TATATTAAAG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.25
Consensus pattern (71 bp):
GCATGAAGATTCAATGGATGTGAAGATGCATGCATGTTGGGTTCAATGCACCAAATGATACATGC
ATGGAC
Found at i:66796261 original size:46 final size:44
Alignment explanation
Indices: 66796207--66796383 Score: 185
Period size: 46 Copynumber: 3.9 Consensus size: 44
66796197 ATATTTGGGC
66796207 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
*** * *
66796251 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGA
* *
66796300 ATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * *
66796344 ACACCCAAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 A-TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66796384 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 17, Indels: 16
0.76 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 4 0.04
46 62 0.58
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:66796363 original size:93 final size:93
Alignment explanation
Indices: 66796204--66796375 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
66796194 AGGATATTTG
* ** *
66796204 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATCACCCAACTCGTTGAG
66796269 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
66796297 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA-CACCCAAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATCACCCAA-CTCGTTGA
*
66796361 GTTGAGTCTGAGTTC
65 GTTGAGTCCGAGTTC
66796376 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATCACCCAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:66801740 original size:20 final size:20
Alignment explanation
Indices: 66801717--66801770 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
66801707 AGTTTTTCCC
*
66801717 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
66801737 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
66801757 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
66801771 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:66801752 original size:30 final size:30
Alignment explanation
Indices: 66801717--66801790 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
66801707 AGTTTTTCCC
66801717 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
66801747 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
66801777 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
66801791 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:66801780 original size:20 final size:20
Alignment explanation
Indices: 66801717--66801781 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
66801707 AGTTTTTCCC
* * * *
66801717 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
66801737 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
66801756 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
66801777 AGCTC
1 AGCTC
66801782 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:66805234 original size:45 final size:45
Alignment explanation
Indices: 66805170--66805392 Score: 236
Period size: 45 Copynumber: 5.0 Consensus size: 45
66805160 TAGGATTCCG
* * * * *
66805170 ATATGTGTTTTTC-TATAAGACCATGTCTAAGACGTCGACATTGAT
1 ATATGTG-TTTTCGTGTAAGACCATGTCTAGGACGTTGGCATCGAT
* *
66805215 ATATGTGTTTTCGTGTAAGACCATGTCTGGGACGTTGGCGTCGAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTAGGACGTTGGCATCGAT
* **
66805260 ATATATGTTTTCGTGTAAGACCACATC-AGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTA-GGACGTTGGCATCGAT
* * * * *
66805305 ATATCTATTTTCGTGTAAGACCATGTTTGGGACATTGGCATCGAT
1 ATATGTGTTTTCGTGTAAGACCATGTCTAGGACGTTGGCATCGAT
* * *
66805350 ATATGTGGTTAT-GTGTAAGACCATGTCTAGGACATCGGCATCG
1 ATATGT-GTTTTCGTGTAAGACCATGTCTAGGACGTTGGCATCG
66805393 TATTGATTCA
Statistics
Matches: 149, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
44 5 0.03
45 141 0.95
46 3 0.02
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCATGTCTAGGACGTTGGCATCGAT
Found at i:66805462 original size:16 final size:17
Alignment explanation
Indices: 66805431--66805469 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
66805421 ACTATAACGC
66805431 CCCAAAAATCCCGAAA-
1 CCCAAAAATCCCGAAAT
**
66805447 CCCAAAAATCTTGAAAT
1 CCCAAAAATCCCGAAAT
66805464 CCCAAA
1 CCCAAA
66805470 CTTTCTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.49, C:0.33, G:0.05, T:0.13
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAT
Found at i:66807055 original size:29 final size:29
Alignment explanation
Indices: 66807023--66807109 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 29
66807013 TTTATAAATA
66807023 TGATTTGGGCTTAATGGGCCATATACAGG
1 TGATTTGGGCTTAATGGGCCATATACAGG
* * **
66807052 TGATTTGGGCCTAATAGGCCATATGA-ATA
1 TGATTTGGGCTTAATGGGCCATAT-ACAGG
*
66807081 TGA-TTGGGCTTAATGGGCCAGATACAGG
1 TGATTTGGGCTTAATGGGCCATATACAGG
66807109 T
1 T
66807110 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 1 0.02
28 19 0.40
29 26 0.55
30 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
TGATTTGGGCTTAATGGGCCATATACAGG
Found at i:66818799 original size:192 final size:190
Alignment explanation
Indices: 66818466--66818839 Score: 500
Period size: 192 Copynumber: 2.0 Consensus size: 190
66818456 CAAATAAAGT
* * * *
66818466 GCCAATGCCATGTCCCTGACATGGTCTTACATGAATTCACATATCTTCGTTGATGCCAAGTCCCA
1 GCCAATGCCATGTCCCAGACATGGCCTTACATGAA-TCACATATCATCGCTGATGCCAAGTCCCA
** * * **
66818531 GACATGGTCTTACACTGGCACACATATCATCGCTGATGCCATGTCCCAAACATGGTTTACATTGG
65 GACATAATCTTACACAGGCACACATATCATCGCCGATGCCATGTCCCAAACATGGTTTACACAGG
* *
66818596 CACACATATCATCATCGATGCCTTTATCCCAGACATGGTCTTACACAGGCACACATATCATC
130 CACACATATCATCACCGATGCC-ATATCCCAGACATGGTCTTACACAGGCACACATATCATC
* * * *
66818658 GCCAATGCCATGTCCCAGACATGGCCTTACATAGGCA-CACATATCATCGCTGCTGCTATGTCCC
1 GCCAATGCCATGTCCCAGACATGGCCTTACAT--GAATCACATATCATCGCTGATGCCAAGTCCC
* * *
66818722 AGACATAATCTTACACAGGCACACATATCA-CGCCGATGTCATGTCCCAGACTTGGTCTTACACA
64 AGACATAATCTTACACAGGCACACATATCATCGCCGATGCCATGTCCCAAACATGGT-TTACACA
* *
66818786 GGCACATATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACA
128 GGCACACATATCATCACCGATGCCATATCCCAGACATGGTCTTACACAGGCACA
66818840 TTCAGCACAA
Statistics
Matches: 158, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
191 50 0.32
192 106 0.67
194 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (190 bp):
GCCAATGCCATGTCCCAGACATGGCCTTACATGAATCACATATCATCGCTGATGCCAAGTCCCAG
ACATAATCTTACACAGGCACACATATCATCGCCGATGCCATGTCCCAAACATGGTTTACACAGGC
ACACATATCATCACCGATGCCATATCCCAGACATGGTCTTACACAGGCACACATATCATC
Found at i:66818840 original size:48 final size:48
Alignment explanation
Indices: 66818470--66818839 Score: 433
Period size: 48 Copynumber: 7.7 Consensus size: 48
66818460 TAAAGTGCCA
* * * * **
66818470 ATGCCATGTCCCTGACATGGTCTT--ACATGAATTCACATATCTTCGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCA--CACATATCATCGCCG
* * *
66818518 ATGCCAAGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCG
* ** **
66818566 ATGCCATGTCCCAAACATGGT-TTACATTGGCACACATATCATCATCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCG
* * *
66818613 ATGCCTTTATCCCAGACATGGTCTTACACAGGCACACATATCATCGCCA
1 ATGCC-ATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCG
* * *
66818662 ATGCCATGTCCCAGACATGGCCTTACATAGGCACACATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCG
* * **
66818710 CTGCTATGTCCCAGACATAATCTTACACAGGCACACATATCA-CGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCG
* * * *
66818757 ATGTCATGTCCCAGACTTGGTCTTACACAGGCACATATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCG
66818805 ATGCCATGTCCCAGACATGGTCTTACACAGGCACA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACA
66818840 TTCAGCACAA
Statistics
Matches: 273, Mismatches: 44, Indels: 10
0.83 0.13 0.03
Matches are distributed among these distances:
47 66 0.24
48 177 0.65
49 26 0.10
50 4 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCG
Found at i:66821902 original size:30 final size:30
Alignment explanation
Indices: 66821856--66821916 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
66821846 TTTCCGAGCC
66821856 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
66821886 TAGGGGCAAAATTGTAATTGTGCCAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
66821916 T
1 T
66821917 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.07, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:66822501 original size:68 final size:66
Alignment explanation
Indices: 66822426--66822633 Score: 187
Period size: 67 Copynumber: 3.2 Consensus size: 66
66822416 CATCATGTGT
*
66822426 ACAAGAGAGCTACGAGACATTATGATATAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACGAGA-A-TATGATATAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
66822491 TAG
64 TAG
* * * * * * *
66822494 ACAAGAGAGCTACGGGATATATG-TA-A-CTAGGTCGCATGCGTGGTTCCAGGTGAAGGACAACA
1 ACAAGAGAGCTACGAGA-ATATGATATAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCA
66822556 TGTAG
62 TGTAG
* * * * *
66822561 ACAAGAGAGCTACGAG-ATA-GA-CTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-
1 ACAAGAGAGCTACGAGAATATGATATAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTA
66822622 G
66 G
66822623 TACAAGAGAGC
1 -ACAAGAGAGC
66822634 CAAAATTATG
Statistics
Matches: 112, Mismatches: 21, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
62 1 0.01
63 18 0.16
64 20 0.18
65 4 0.04
66 22 0.20
67 30 0.27
68 17 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGAGAATATGATATAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTA
G
Found at i:66824087 original size:27 final size:26
Alignment explanation
Indices: 66824047--66824150 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 26
66824037 AGGAAGCGTC
* *
66824047 CTGGTGGCTATGCCACAATTATTTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
66824074 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
66824101 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
66824129 CTGGTGACTCTGTCACATTATC
1 CTGGTGGCTCTGCCACATTATC
66824151 CGTTCTGGCA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.03
27 48 0.73
28 16 0.24
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:66824156 original size:54 final size:54
Alignment explanation
Indices: 66824047--66824158 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
66824037 AGGAAGCGTC
* * *
66824047 CTGGTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCCGTT
* * * *
66824101 CTGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCCGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCCGTT
66824155 CTGG
1 CTGG
66824159 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCCGTT
Found at i:66825159 original size:30 final size:30
Alignment explanation
Indices: 66825115--66825203 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
66825105 CAAAGATAAC
*
66825115 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
66825144 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
66825174 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
66825204 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:66825163 original size:15 final size:14
Alignment explanation
Indices: 66825115--66825197 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
66825105 CAAAGATAAC
*
66825115 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
66825129 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
66825144 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
66825159 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
66825174 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
66825189 AAGAAACCC
1 AAGAAACCC
66825198 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:66825203 original size:15 final size:15
Alignment explanation
Indices: 66825126--66825203 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
66825116 AGAAAACCGA
66825126 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
66825141 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
66825155 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
66825170 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
66825186 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
66825201 ATA
1 ATA
66825204 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:66828268 original size:46 final size:45
Alignment explanation
Indices: 66828128--66828268 Score: 146
Period size: 46 Copynumber: 3.0 Consensus size: 45
66828118 GCCCATAAGC
* *
66828128 GAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACATC-CTAGT
* *
66828175 GAACTCGGACTCAACTCAACGAGTTCGGACGTTC-ACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCC-T-AGT
66828221 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CATCCTAGT
66828267 GA
1 GA
66828269 CATGTCACTT
Statistics
Matches: 81, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
42 1 0.01
43 6 0.07
46 37 0.46
47 31 0.38
48 6 0.07
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCCTAGT
Found at i:66829687 original size:42 final size:41
Alignment explanation
Indices: 66829638--66829773 Score: 132
Period size: 42 Copynumber: 3.2 Consensus size: 41
66829628 ATGAGTTACG
* *
66829638 TGTAAGACCATACCTGGGATATGACATCGTTATGAGATTTCA
1 TGTAAGACCATACCTGGG-TATGGCATCGATATGAGATTTCA
** * *
66829680 TGTAAGACCATGTCTAGGGCATGGCATCGATATGAGA-ATCA
1 TGTAAGACCATACCT-GGGTATGGCATCGATATGAGATTTCA
* **
66829721 TGTAA-AGCCATAGCTGGGCTATTGGCATCGATATGAGATCCCA
1 TGTAAGA-CCATACCTGGG-TA-TGGCATCGATATGAGATTTCA
66829764 TGTAAGACCA
1 TGTAAGACCA
66829774 CATCTTGGAT
Statistics
Matches: 77, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
40 4 0.05
41 15 0.19
42 44 0.57
43 13 0.17
44 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (41 bp):
TGTAAGACCATACCTGGGTATGGCATCGATATGAGATTTCA
Found at i:66831813 original size:68 final size:69
Alignment explanation
Indices: 66831693--66831823 Score: 192
Period size: 68 Copynumber: 1.9 Consensus size: 69
66831683 AAAAATTAAT
* * * * * *
66831693 CACTTTAATATTAAATTAATATAATACTTATCGAGATAAATATTATATTAAATTTAATATTAAGA
1 CACTTTAACATTAAATTAACAAAATACTTATCAAGATAAATATTAAACTAAATTTAATATTAAGA
66831758 TAAC
66 TAAC
*
66831762 CACTTTAACATTAAATTAACAAAATA-TTATCAAGATAAGTATTAAACTAAATTTAATATTAA
1 CACTTTAACATTAAATTAACAAAATACTTATCAAGATAAATATTAAACTAAATTTAATATTAA
66831824 ATCTATTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
68 32 0.58
69 23 0.42
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (69 bp):
CACTTTAACATTAAATTAACAAAATACTTATCAAGATAAATATTAAACTAAATTTAATATTAAGA
TAAC
Found at i:66834824 original size:21 final size:22
Alignment explanation
Indices: 66834798--66834848 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
66834788 CCTGTAGCAT
**
66834798 GGGCGTGTCCC-GGGGTCACAC
1 GGGCGTGTCCCTGGGACCACAC
*
66834819 GGGCGTGTCCCTTGGACCACAC
1 GGGCGTGTCCCTGGGACCACAC
66834841 GGGCGTGT
1 GGGCGTGT
66834849 AAACCCTGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.10, C:0.31, G:0.41, T:0.18
Consensus pattern (22 bp):
GGGCGTGTCCCTGGGACCACAC
Found at i:66836726 original size:79 final size:82
Alignment explanation
Indices: 66836615--66836799 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
66836605 GCTACTCGTT
* *
66836615 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
66836678 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* ***
66836695 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTTCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
66836758 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
66836775 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66836800 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:66836732 original size:39 final size:40
Alignment explanation
Indices: 66836615--66836799 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
66836605 GCTACTCGTT
*
66836615 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
66836655 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
66836695 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
** * * * *
66836734 CAAATGCCTTC-GGATCTTAGTTCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
66836775 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66836800 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 77 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:66844586 original size:40 final size:39
Alignment explanation
Indices: 66844542--66844725 Score: 221
Period size: 40 Copynumber: 4.7 Consensus size: 39
66844532 GCTACTCGTT
* * *
66844542 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCCCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
66844582 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
*
66844622 CAAATGCCTTC-GGACTTAACCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * * *
66844660 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
66844701 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66844726 CATCATTCAA
Statistics
Matches: 129, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
38 27 0.21
39 24 0.19
40 66 0.51
41 12 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:66844666 original size:78 final size:81
Alignment explanation
Indices: 66844542--66844725 Score: 234
Period size: 78 Copynumber: 2.3 Consensus size: 81
66844532 GCTACTCGTT
* *
66844542 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCCCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCCCACAAATGCCTTC-GGATCTTAACCCG
* *
66844606 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* * **
66844622 CAAATGCCTTC-GGACTTAACCCGGAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCCCACAAATGCCTTCGGATCTTAACCCGG
* *
66844685 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
66844701 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66844726 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
77 3 0.03
78 43 0.48
79 33 0.37
80 11 0.12
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCCCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:66860546 original size:40 final size:40
Alignment explanation
Indices: 66860502--66860763 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
66860492 GCTCCTCGTT
* *
66860502 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
66860542 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
66860582 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
66860621 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
66860660 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
66860699 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
66860740 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66860764 CATCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 127 0.63
40 63 0.31
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:66862640 original size:37 final size:37
Alignment explanation
Indices: 66862584--66862662 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
66862574 CCGAGCTCTA
* *
66862584 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
66862621 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
66862658 AAGAC
1 AAGAC
66862663 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:66866151 original size:40 final size:40
Alignment explanation
Indices: 66866119--66866506 Score: 582
Period size: 40 Copynumber: 9.7 Consensus size: 40
66866109 CCAGCATGAT
* * * *
66866119 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
66866159 TGCTCTTCGAGG-TTTAGCACGGATATATTACTAGCACGAA
1 TGCTCTTCG-GGACTTAGCCCGGATACATCACTAGCACGAA
* *
66866199 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** *
66866239 TGCTCTTCGGGACTTAGTTCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
66866279 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
66866319 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
66866359 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
66866399 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
66866439 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
66866479 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
66866507 GTCGAGACCT
Statistics
Matches: 319, Mismatches: 27, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
39 5 0.02
40 312 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:66868682 original size:39 final size:40
Alignment explanation
Indices: 66868560--66868742 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
66868550 GCTACTCGTT
*
66868560 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
66868600 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
66868640 CAAATGCCTTCGGG-CTTAGCCTGGAATTAGTATCTCAG-A
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTC-GCA
* * * * *
66868679 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
66868720 CAAA-GCCTTCGAGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
66868743 TACATCATTC
Statistics
Matches: 120, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 78 0.65
41 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:66868704 original size:79 final size:80
Alignment explanation
Indices: 66868560--66868742 Score: 187
Period size: 79 Copynumber: 2.3 Consensus size: 80
66868550 GCTACTCGTT
* *
66868560 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
66868625 ATTTAGTAAC-TCGCA
65 ATATAGTAACTTAGCA
* * **
66868640 CAAATGCCTTCGGGCTTAGCCTGGA-ATTAGTATCTCAG-ACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTC-GCACAAATGCCTTCGGGA-CTTAACCC
* *
66868702 GGATATGGTCACTTAGCA
63 GGATATAGTAACTTAGCA
*
66868720 CAAA-GCCTTCGAGACTTAGCCCG
1 CAAATGCCTTCG-GGCTTAGCCCG
66868743 TACATCATTC
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
78 4 0.05
79 50 0.58
80 32 0.37
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCA
Found at i:66877395 original size:27 final size:26
Alignment explanation
Indices: 66877347--66877406 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
66877337 GCGAAGTTGC
*
66877347 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
66877374 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
66877400 CATATAT
1 CAGATAT
66877407 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:66878573 original size:27 final size:27
Alignment explanation
Indices: 66878543--66878723 Score: 177
Period size: 27 Copynumber: 6.7 Consensus size: 27
66878533 ATATTGAGCC
* * *
66878543 CGCACACTCAGTGCTATATAATCATCT
1 CGCACACTTAGTGCTATATAGTCATAT
* * *
66878570 CGCACACTTAGTGCTATGTAATCAAAT
1 CGCACACTTAGTGCTATATAGTCATAT
* *
66878597 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTATATAGTCATA-T
*** *
66878625 CGCACACTTAGTGCCGCATGGTCA-ATT
1 CGCACACTTAGTGCTATATAGTCATA-T
* *
66878652 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTAT-ATAGTCATAT
* *
66878679 CGCACACTTAGTGCAACATAGTCATAT
1 CGCACACTTAGTGCTATATAGTCATAT
66878706 CGCACACTTAGTGCTATA
1 CGCACACTTAGTGCTATA
66878724 CAATTTAATC
Statistics
Matches: 129, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAGTCATAT
Found at i:66878682 original size:82 final size:81
Alignment explanation
Indices: 66878569--66878719 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
66878559 TATAATCATC
* *
66878569 TCGCACACTTAGTGCTATGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTATATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
66878634 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* ** *
66878651 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCATATCGCACACTT
1 TCGCACACTTAGTGCTAT-ATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
66878715 AGTGC
65 AGTGC
66878720 TATACAATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 17 0.27
82 45 0.73
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCTATATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAAT
Found at i:66879285 original size:13 final size:13
Alignment explanation
Indices: 66879267--66879291 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66879257 TACTAAATTT
66879267 TCATGGATTCAAG
1 TCATGGATTCAAG
66879280 TCATGGATTCAA
1 TCATGGATTCAA
66879292 TATACCATTA
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:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:66882597 original size:19 final size:20
Alignment explanation
Indices: 66882573--66882610 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
66882563 GGTACCACCA
66882573 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
66882592 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
66882611 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:66882906 original size:46 final size:46
Alignment explanation
Indices: 66882839--66883003 Score: 181
Period size: 46 Copynumber: 3.6 Consensus size: 46
66882829 TGCCCCTAAG
* *
66882839 TGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCATTAGCATCCATAAA
* * **
66882885 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-TTAG-TTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--GCATTAGCATCCAT-AAA
* * * * * *
66882932 CGAACTCAGACTCAACTCAATGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCATTAGCATCCATAAA
66882978 TGAACTCGGACTCAACTCAACGAGTT
1 TGAACTCGGACTCAACTCAACGAGTT
66883004 TGGATGCTCA
Statistics
Matches: 95, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 58 0.61
47 34 0.36
48 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCATTAGCATCCATAAA
Found at i:66882951 original size:93 final size:93
Alignment explanation
Indices: 66882840--66883011 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
66882830 GCCCCTAAGT
* *
66882840 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
66882905 CGAGTTCGGATGCTTAGTTACATCTCAC
66 CGAGTTCGGATGCTTAGTTACATCTCAC
* * * *
66882933 GAACTCAGACTCAACTCAATGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
66882998 CGAGTTTGGATGCT
66 CGAGTTCGGATGCT
66883012 CAACCATCCA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCTTAGTTACATCTCAC
Found at i:66883463 original size:30 final size:29
Alignment explanation
Indices: 66883429--66883487 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
66883419 ATTTAATACG
66883429 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTT-CCCCTA
*** *
66883459 AACTTTTGCATAATTACACTTTTCCCCTA
1 AACTTTAAAAAAATTACACTTTTCCCCTA
66883488 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.37
Consensus pattern (29 bp):
AACTTTAAAAAAATTACACTTTTCCCCTA
Found at i:66890182 original size:19 final size:20
Alignment explanation
Indices: 66890158--66890195 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
66890148 GGTACCACCA
66890158 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
66890177 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
66890196 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:66890585 original size:46 final size:46
Alignment explanation
Indices: 66890420--66890588 Score: 164
Period size: 46 Copynumber: 3.7 Consensus size: 46
66890410 AACCTGCCCC
* * * *
66890420 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * * *
66890466 TAAATGAACTTGGACTCAACTCAACGAGTTCAGATGCTTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--C--ATTTGCATCCA
* *
66890514 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
**
66890559 TAAGTGAACTCAAACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
66890589 TGGATGCTCA
Statistics
Matches: 97, Mismatches: 19, Indels: 14
0.75 0.15 0.11
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 3 0.03
46 52 0.54
47 27 0.28
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:66891049 original size:30 final size:30
Alignment explanation
Indices: 66891015--66891074 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
66891005 ATTTAATATG
66891015 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** * *
66891045 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
66891075 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:66893084 original size:46 final size:46
Alignment explanation
Indices: 66893031--66893121 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
66893021 TATATATACA
* * *
66893031 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
66893077 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
66893122 ATACACTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:66893166 original size:47 final size:47
Alignment explanation
Indices: 66893131--66893426 Score: 421
Period size: 47 Copynumber: 6.3 Consensus size: 47
66893121 TATACACTTC
*
66893131 CACATTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
* * *
66893178 CACATTTATCACATTGGCCATTCGGCTTTATCACATATGTGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
* *
66893225 CATATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
* *
66893272 CACATTCATCACATTGGCCATTCGGCCTTATCACATATGTACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
* * *
66893319 CTCATTCATCACATTGGCCATTCGGCCTTATCACACAAATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
** * * * **
66893366 CACATTCATCACATTTTCCATTCGGCCTTAGCTCATATATACACATT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
*
66893413 CACATCCATCACAT
1 CACATTCATCACAT
66893427 AAAATCCTAA
Statistics
Matches: 220, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 220 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTT
Found at i:66893210 original size:22 final size:22
Alignment explanation
Indices: 66893182--66893259 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
66893172 CATGTTCACA
66893182 TTTATCACATTGGCCATTCGGC
1 TTTATCACATTGGCCATTCGGC
***
66893204 TTTATCACATATGTG-CATGTTCATA
1 TTTATCACAT-TG-GCCA--TTCGGC
*
66893229 TTCATCACATTGGCCATTCGGC
1 TTTATCACATTGGCCATTCGGC
*
66893251 CTTATCACA
1 TTTATCACA
66893260 CATATGCATG
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
22 20 0.48
23 5 0.12
24 5 0.12
25 12 0.29
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
TTTATCACATTGGCCATTCGGC
Found at i:66897416 original size:21 final size:22
Alignment explanation
Indices: 66897384--66897427 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
66897374 CTTACAGAAG
66897384 ATAAATAAAGATAA-AAGTAAAA
1 ATAAATAAAGATAATAA-TAAAA
66897406 ATAAA-AAAGATAATAATAAAA
1 ATAAATAAAGATAATAATAAAA
66897427 A
1 A
66897428 AAAGTTCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (22 bp):
ATAAATAAAGATAATAATAAAA
Found at i:66899460 original size:28 final size:27
Alignment explanation
Indices: 66899416--66899502 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
66899406 GAGGAAGCGG
* *
66899416 TCTGGTGGCTATGCCACAAATATCTGTT
1 TCTGGTGGCTCTACCAC-AATATCTGTT
*
66899444 TCTGGTGGCTCTACCACAATATCTGTA
1 TCTGGTGGCTCTACCACAATATCTGTT
* *
66899471 TCTGGTGACTCTATCACAATATCTG-T
1 TCTGGTGGCTCTACCACAATATCTGTT
66899497 TCTGGT
1 TCTGGT
66899503 AGCCATGCTG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 6 0.11
27 32 0.60
28 15 0.28
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTACCACAATATCTGTT
Found at i:66905733 original size:40 final size:40
Alignment explanation
Indices: 66905650--66905830 Score: 215
Period size: 40 Copynumber: 4.5 Consensus size: 40
66905640 ACCCAAGTAT
* * * *
66905650 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGT
1 CTTCGAGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
66905689 CTTCGAGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
66905729 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
66905769 CTTC-AGGACTTAGCCCAGATATAGTAACTTGCACAAATGC
1 CTTCGA-GACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
66905809 CTTCGAAACTTAGCCCGGATAT
1 CTTCGAGACTTAGCCCGGATAT
66905831 CATTCGAATA
Statistics
Matches: 121, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 10 0.08
40 109 0.90
41 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (40 bp):
CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:66915660 original size:9 final size:9
Alignment explanation
Indices: 66915643--66915681 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
66915633 GCTGTGAATA
66915643 GGCCAAATG
1 GGCCAAATG
*
66915652 GGCCGAATG
1 GGCCAAATG
*
66915661 GGCTAAATG
1 GGCCAAATG
66915670 GGCCAAATG
1 GGCCAAATG
66915679 GGC
1 GGC
66915682 TGGTGGGCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.28, C:0.21, G:0.38, T:0.13
Consensus pattern (9 bp):
GGCCAAATG
Found at i:66915818 original size:57 final size:57
Alignment explanation
Indices: 66915756--66915897 Score: 144
Period size: 57 Copynumber: 2.5 Consensus size: 57
66915746 GCATGAACAT
* * * * *
66915756 AATGTGATTTGGGCCAGATAGGCTATATAAATG-AGATTGGGCCTAATGGGCCATATG
1 AATGTGA-TTGGGCCAGATAGGCCATATAAACGTAAATTGGGCCGAATGGGCCATATA
* * * *
66915813 AATGTGAATTGGGCCTGATGGGCCATATGAACGTAAATTGGGCCGGATGGGCCATATA
1 AATGTG-ATTGGGCCAGATAGGCCATATAAACGTAAATTGGGCCGAATGGGCCATATA
* *
66915871 AATGAGATTGGGCCTAG-TGGGCCATAT
1 AATGTGATTGGGCC-AGATAGGCCATAT
66915898 GCATGTATGT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
57 44 0.62
58 27 0.38
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (57 bp):
AATGTGATTGGGCCAGATAGGCCATATAAACGTAAATTGGGCCGAATGGGCCATATA
Found at i:66915827 original size:29 final size:29
Alignment explanation
Indices: 66915756--66915903 Score: 140
Period size: 29 Copynumber: 5.2 Consensus size: 29
66915746 GCATGAACAT
* * * *
66915756 AATGTGATTTGGGCC-AGATAGGCTATATA
1 AATGTGAATTGGGCCTA-ATGGGCCATATG
*
66915785 AATGAG-ATTGGGCCTAATGGGCCATATG
1 AATGTGAATTGGGCCTAATGGGCCATATG
*
66915813 AATGTGAATTGGGCCTGATGGGCCATATG
1 AATGTGAATTGGGCCTAATGGGCCATATG
* * ** *
66915842 AACGTAAATTGGGCCGGATGGGCCATATA
1 AATGTGAATTGGGCCTAATGGGCCATATG
* *
66915871 AATGAG-ATTGGGCCTAGTGGGCCATATG
1 AATGTGAATTGGGCCTAATGGGCCATATG
*
66915899 CATGT
1 AATGT
66915904 ATGTAGGGGT
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
28 42 0.43
29 55 0.57
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (29 bp):
AATGTGAATTGGGCCTAATGGGCCATATG
Found at i:66920439 original size:29 final size:29
Alignment explanation
Indices: 66920355--66920497 Score: 121
Period size: 29 Copynumber: 5.0 Consensus size: 29
66920345 GCATAAACAT
* * * *
66920355 AATGTGATTTGGGCCAGATGGGCAATATA
1 AATGTGAATTGGGCCTGATGGGCCATATG
* * * * *
66920384 AATGAG-ATTAGGCTTAATGGGCTATATG
1 AATGTGAATTGGGCCTGATGGGCCATATG
66920412 AATGTGAATTGGGCCTGATGGGCCATATG
1 AATGTGAATTGGGCCTGATGGGCCATATG
* * * *
66920441 AACGTGAATTGGGCCAGATAGGCCATATA
1 AATGTGAATTGGGCCTGATGGGCCATATG
* *
66920470 AATGAG-ATTGGGCCT-AGTGAGCCATATG
1 AATGTGAATTGGGCCTGA-TGGGCCATATG
66920498 CGTGTATGTA
Statistics
Matches: 89, Mismatches: 23, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
27 1 0.01
28 36 0.40
29 52 0.58
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.27
Consensus pattern (29 bp):
AATGTGAATTGGGCCTGATGGGCCATATG
Found at i:66943250 original size:30 final size:32
Alignment explanation
Indices: 66943189--66943253 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
66943179 TTCAATTTCA
66943189 ACATATACTGGGCCGAAGCCTCTTCATAATTC
1 ACATATACTGGGCCGAAGCCTCTTCATAATTC
* *
66943221 ACAT-TACTGGGCTGAAGCCT-TTTATAATTC
1 ACATATACTGGGCCGAAGCCTCTTCATAATTC
66943251 ACA
1 ACA
66943254 ACTCATATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 12 0.39
31 15 0.48
32 4 0.13
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (32 bp):
ACATATACTGGGCCGAAGCCTCTTCATAATTC
Found at i:66943527 original size:25 final size:25
Alignment explanation
Indices: 66943499--66943594 Score: 158
Period size: 25 Copynumber: 3.9 Consensus size: 25
66943489 CTCTTTTAAT
*
66943499 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGGTA
66943524 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
* *
66943549 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
66943574 AACTGGGGCAAAG-CCTTTTTG
1 AACTGGGGCAAAGCCCTTTTTG
66943595 CACTTCCTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
24 7 0.11
25 59 0.89
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGGTA
Found at i:66943666 original size:20 final size:21
Alignment explanation
Indices: 66943641--66943688 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
66943631 AAATGAATAC
*
66943641 ATCATGTGCATAACATAT-AT
1 ATCATGTGCATAACATATCAA
*
66943661 ATCATGTGCATATCATATCAA
1 ATCATGTGCATAACATATCAA
66943682 ATCATGT
1 ATCATGT
66943689 ATATCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (21 bp):
ATCATGTGCATAACATATCAA
Found at i:66950941 original size:24 final size:25
Alignment explanation
Indices: 66950914--66950996 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
66950904 CTGGAGGCCT
* *
66950914 AGCCTCTTTTAATAATC-GGGGTAA
1 AGCCTCTTTTAATAAACTGGGGCAA
* *
66950938 AGCCTTTTTTGATAAACTGGGGCAA
1 AGCCTCTTTTAATAAACTGGGGCAA
*
66950963 AGCC-CTTTTCGATAAACTGGGGCAA
1 AGCCTCTTTT-AATAAACTGGGGCAA
66950988 AGCC-CTTTT
1 AGCCTCTTTT
66950997 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
24 18 0.35
25 34 0.65
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (25 bp):
AGCCTCTTTTAATAAACTGGGGCAA
Found at i:66950965 original size:25 final size:25
Alignment explanation
Indices: 66950931--66950996 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
66950921 TTTAATAATC
* *
66950931 GGGGTAAAGCCTTTTTTGATAAACT
1 GGGGCAAAGCCCTTTTTGATAAACT
*
66950956 GGGGCAAAGCCCTTTTCGATAAACT
1 GGGGCAAAGCCCTTTTTGATAAACT
66950981 GGGGCAAAGCCCTTTT
1 GGGGCAAAGCCCTTTT
66950997 GCACTTCCTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (25 bp):
GGGGCAAAGCCCTTTTTGATAAACT
Found at i:66958904 original size:28 final size:29
Alignment explanation
Indices: 66958867--66958962 Score: 131
Period size: 29 Copynumber: 3.3 Consensus size: 29
66958857 AAGTCTACAT
* *
66958867 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
66958895 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
** *
66958924 ACATTCATGCGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
66958953 ACATTCATAT
1 ACATTCATAT
66958963 ACATGCTTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
28 21 0.36
29 37 0.64
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:66962666 original size:29 final size:29
Alignment explanation
Indices: 66962622--66962692 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
66962612 TGAGCATGAC
* * *
66962622 TATAAATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTGATTTGGGCCTAATAGGCCA
66962651 TATAAATGTGATTTGGGCCTAATAGGCCA
1 TATAAATGTGATTTGGGCCTAATAGGCCA
66962680 TATAAATGTGATT
1 TATAAATGTGATT
66962693 AGGCCTAGTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.32
Consensus pattern (29 bp):
TATAAATGTGATTTGGGCCTAATAGGCCA
Found at i:66962708 original size:28 final size:27
Alignment explanation
Indices: 66962622--66962711 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 27
66962612 TGAGCATGAC
66962622 TATAAATGTGAATTGGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-T-GGCCA
*
66962651 TATAAATGTGATTTGGGCCTAATAGGCCA
1 TATAAATGTGA-TTGGGCCTAGT-GGCCA
*
66962680 TATAAATGTGATTAGGCCTAGTGGCCCA
1 TATAAATGTGATTGGGCCTAGTGG-CCA
66962708 TATA
1 TATA
66962712 CAGGTATGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
27 2 0.04
28 17 0.31
29 35 0.65
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (27 bp):
TATAAATGTGATTGGGCCTAGTGGCCA
Found at i:66977540 original size:79 final size:81
Alignment explanation
Indices: 66977404--66977588 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
66977394 TTGAATGATG
* * *
66977404 TCCGGGCTAAGTCCCGAAGGC-TTTGTGATAAGTGACCATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGACAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
66977468 TGTGCCAGATACTA-A
66 TGTGCCAGATACTATA
* * * **
66977483 TTCCGGGCTAAG-CCCGAAGGCATTTGTG-CGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGACAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
66977545 TTTGTGCGAGTTACTATA
64 TTTGTGCCAGATACTATA
* *
66977563 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66977589 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGACAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCCAGATACTATA
Found at i:66977595 original size:40 final size:40
Alignment explanation
Indices: 66977404--66977588 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
66977394 TTGAATGATG
** * * *
66977404 TCCGGGCTAAGTCCCGAAGGC-TTTGTGATAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-CGAGTTACTAAA
* * * * *
66977444 TCCGGACTAAGAT-CCGAAGGTATTTGTGCCAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
66977484 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
66977523 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
66977564 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66977589 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 33 0.27
40 81 0.66
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:66977610 original size:79 final size:79
Alignment explanation
Indices: 66977457--66977611 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
66977447 GGACTAAGAT
* * **
66977457 CCGAAGGTATTTGTGCCAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCCAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
66977522 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
66977536 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCCAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
66977599 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
66977612 ATTTCGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.58
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCCAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:66983425 original size:39 final size:40
Alignment explanation
Indices: 66983330--66983591 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
66983320 TTGAATGATG
*
66983330 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
66983368 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
66983409 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
66983448 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
66983487 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
66983526 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
66983565 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
66983592 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:66988695 original size:40 final size:39
Alignment explanation
Indices: 66988651--66988727 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
66988641 AGTGACCATA
*
66988651 TCCGGACTAAGATCCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCAAAGGCATTTGTGCGAGATACTAAT
* * *
66988691 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGGACTAAGCCCAAAGGCATTTGTGCGAGATACTA
66988728 TAACCGGGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
39 23 0.70
40 10 0.30
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCAAAGGCATTTGTGCGAGATACTAAT
Found at i:66988715 original size:39 final size:40
Alignment explanation
Indices: 66988611--66988774 Score: 160
Period size: 40 Copynumber: 4.1 Consensus size: 40
66988601 TTGAATGATG
* *
66988611 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
* *
66988651 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
66988690 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
66988730 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
66988770 TCCGG
1 TCCGG
66988775 TTAAATTCCG
Statistics
Matches: 104, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
39 35 0.34
40 58 0.56
41 10 0.10
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:66988774 original size:79 final size:80
Alignment explanation
Indices: 66988611--66988761 Score: 182
Period size: 79 Copynumber: 1.9 Consensus size: 80
66988601 TTGAATGATG
*
66988611 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCAAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCAAAGGCATTT
**
66988676 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * * *
66988691 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCAAAGGCAT
66988753 TTGAACGAG
64 TTGAACGAG
66988762 TAGCTATATC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.02
79 41 0.68
80 18 0.30
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCAAAGGCATTT
GAACGAGATACTAAT
Found at i:66996155 original size:78 final size:81
Alignment explanation
Indices: 66996020--66996203 Score: 234
Period size: 78 Copynumber: 2.3 Consensus size: 81
66996010 TTGAATGATG
* *
66996020 TCCGGGCTATGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTATGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
66996084 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
66996099 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 TCCGGGCTATGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
*
66996161 TTGTGCGAGTTACTATA
65 TTGTGCGAGATACTATA
*
66996178 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTATGTCCCGAAGGCATTTG
66996204 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
77 1 0.01
78 48 0.53
79 27 0.30
80 14 0.16
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTATGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:66996165 original size:40 final size:40
Alignment explanation
Indices: 66996020--66996203 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
66996010 TTGAATGATG
* * * * *
66996020 TCCGGGCTATGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
66996060 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
66996099 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
66996138 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
66996179 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66996204 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 23 0.19
39 23 0.19
40 68 0.55
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:67004041 original size:39 final size:40
Alignment explanation
Indices: 67003937--67004121 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
67003927 TTGAATGATG
* * *
67003937 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
67003976 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
67004017 TCCGGGCTAAG-CCCGAAGGTATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
67004056 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
67004095 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
67004122 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Done.