Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 323 of 356
Found at i:104541870 original size:29 final size:28
Alignment explanation
Indices: 104541803--104541872 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
104541793 TCTTACGACG
*
104541803 TTATAAAATTTTATAATTTGTTTATATTT
1 TTATAAAATTTTATAATTTG-TTAGATTT
* *
104541832 CTAT-ATATTTTATAAATTTG-TACGATTT
1 TTATAAAATTTTAT-AATTTGTTA-GATTT
104541860 TTATAAAATTTTA
1 TTATAAAATTTTA
104541873 ACAAATTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
27 2 0.06
28 15 0.45
29 16 0.48
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (28 bp):
TTATAAAATTTTATAATTTGTTAGATTT
Found at i:104541892 original size:21 final size:21
Alignment explanation
Indices: 104541868--104541910 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
104541858 TTTTATAAAA
*
104541868 TTTTAACAAATTT-TTTATATT
1 TTTTAAC-AATTTATATATATT
*
104541889 TTTTTACAATTTATATATATT
1 TTTTAACAATTTATATATATT
104541910 T
1 T
104541911 CTATTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTAACAATTTATATATATT
Found at i:104541958 original size:35 final size:35
Alignment explanation
Indices: 104541917--104541985 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
104541907 ATTTCTATTT
*
104541917 TTTAATAAT-TTTTTA-ATATTTGAATTTTTAATAAA
1 TTTAATAATATTTATAGAT-TTT-AATTTTTAATAAA
*
104541952 TTTAATAATATTTATAGATTTTAATTTTTTATAA
1 TTTAATAATATTTATAGATTTTAATTTTTAATAA
104541986 TTTTTTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 20 0.67
36 8 0.27
37 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (35 bp):
TTTAATAATATTTATAGATTTTAATTTTTAATAAA
Found at i:104542238 original size:94 final size:91
Alignment explanation
Indices: 104541995--104542272 Score: 345
Period size: 92 Copynumber: 3.0 Consensus size: 91
104541985 ATTTTTTAAT
*
104541995 AAAAGTAGGGGCTTAATTG-TTTTTTTGAAAAAGTTTGAGGGTTTTTTTGATGCATTTTGAAAGT
1 AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGA-GGCTTTTTTGATGCATTTTGAAAGT
*
104542059 TCAAGTAC-CTAATTAAGTGC---AAAA
65 TCAAGTACTC-AATTGAGTGCAAAAAAA
* *
104542083 AAAAGTAGGGGCTTAATTTCTTTTTTTTTTGAAAAAGTTTGAGCGCTTTTTTGATGTATTTTGAA
1 AAAAGTAGGGGCTTAATTGC---TTTTTTTGAAAAAGTTTGAG-GCTTTTTTGATGCATTTTGAA
104542148 AGTTCAAGTACTCAATTGAGTGCAAAAAAA
62 AGTTCAAGTACTCAATTGAGTGCAAAAAAA
*
104542178 GAAGAAGTAGGGGCTTAATTGCTTTTTTTG-AAAAGATTTGAGGACCTTTTTGATGCATTTTGAA
1 -AA-AAGTAGGGGCTTAATTGCTTTTTTTGAAAAAG-TTTGAGG-CTTTTTTGATGCATTTTGAA
* *
104542242 AGCTCAAGTACGT-AAATGAGTGCAAAAAAA
62 AGTTCAAGTAC-TCAATTGAGTGCAAAAAAA
104542272 A
1 A
104542273 GGGGCTTAAT
Statistics
Matches: 167, Mismatches: 9, Indels: 23
0.84 0.05 0.12
Matches are distributed among these distances:
88 18 0.11
91 1 0.01
92 58 0.35
93 8 0.05
94 58 0.35
95 5 0.03
96 2 0.01
97 17 0.10
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (91 bp):
AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTGAGGCTTTTTTGATGCATTTTGAAAGTT
CAAGTACTCAATTGAGTGCAAAAAAA
Found at i:104545285 original size:40 final size:39
Alignment explanation
Indices: 104545153--104545289 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 39
104545143 CTCGAGAATA
* * *
104545153 TAAAGTGGATAGGATTCATTCCTGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTATTCCTGATTCACTA-AGTAACT
* * * * * *
104545193 CAAAGTGGATAGAATTTGTTCCTGATTCACCATCGTAATT
1 TAAAGTGGATAGGATTTATTCCTGATTCACTA-AGTAACT
*
104545233 TAAAGTGAATAGGATTTATTCCTGATTCACTAAGGTAACT
1 TAAAGTGGATAGGATTTATTCCTGATTCACTAA-GTAACT
* *
104545273 TAAGGCGGATAGGATTT
1 TAAAGTGGATAGGATTT
104545290 GACCTGAAAA
Statistics
Matches: 77, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (39 bp):
TAAAGTGGATAGGATTTATTCCTGATTCACTAAGTAACT
Found at i:104565055 original size:46 final size:46
Alignment explanation
Indices: 104565005--104565093 Score: 178
Period size: 46 Copynumber: 1.9 Consensus size: 46
104564995 TATTTTTTTT
104565005 AAAATGGGTTAGCATTTTTTACATTTAATATTTAAAATTTGATTTA
1 AAAATGGGTTAGCATTTTTTACATTTAATATTTAAAATTTGATTTA
104565051 AAAATGGGTTAGCATTTTTTACATTTAATATTTAAAATTTGAT
1 AAAATGGGTTAGCATTTTTTACATTTAATATTTAAAATTTGAT
104565094 CTTGTTTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.47
Consensus pattern (46 bp):
AAAATGGGTTAGCATTTTTTACATTTAATATTTAAAATTTGATTTA
Found at i:104571705 original size:18 final size:18
Alignment explanation
Indices: 104571682--104571771 Score: 126
Period size: 18 Copynumber: 5.0 Consensus size: 18
104571672 CCCAACTACT
*
104571682 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
**
104571700 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACC
*
104571718 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
* *
104571736 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
104571754 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
104571772 ATAAACGGTC
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:104571734 original size:36 final size:36
Alignment explanation
Indices: 104571680--104571771 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
104571670 ATCCCAACTA
*
104571680 CTGTATACGTGAACAGTACCGTATACGTGAATAGTG
1 CTGTATACGTGAATAGTACCGTATACGTGAATAGTG
*
104571716 -TCGTATACGTAAATAGTACCGTATACGTGAATAGTG
1 CT-GTATACGTGAATAGTACCGTATACGTGAATAGTG
104571752 CTGTATACGTGAATAGTACC
1 CTGTATACGTGAATAGTACC
104571772 ATAAACGGTC
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
35 1 0.02
36 49 0.96
37 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (36 bp):
CTGTATACGTGAATAGTACCGTATACGTGAATAGTG
Found at i:104579087 original size:51 final size:51
Alignment explanation
Indices: 104579016--104579225 Score: 348
Period size: 51 Copynumber: 4.1 Consensus size: 51
104579006 CTGATCACAT
104579016 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* *
104579067 TTATCACTTGTCATTGATCAGATAAGTGTACCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
104579118 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * * *
104579169 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
104579220 TGATCA
1 TTATCA
104579226 GAAGTACTCA
Statistics
Matches: 149, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 149 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:104582257 original size:31 final size:31
Alignment explanation
Indices: 104582222--104582298 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
104582212 ACTACTTAAG
*
104582222 TTGGTGTTTATCTTATAGGTATCCTTAACAA
1 TTGGTGTTTATCTTATAGGTATCCTGAACAA
*
104582253 TTGGTGTTTATCTTATATGTATCCTGAACAA
1 TTGGTGTTTATCTTATAGGTATCCTGAACAA
104582284 TTGGTGTTTATCTTA
1 TTGGTGTTTATCTTA
104582299 GTTAGGTTGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.48
Consensus pattern (31 bp):
TTGGTGTTTATCTTATAGGTATCCTGAACAA
Found at i:104582371 original size:22 final size:23
Alignment explanation
Indices: 104582328--104582371 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
104582318 TCCAAGTATG
*
104582328 CTTCTGAAGTTTATAATAATTTA
1 CTTCTGAAGTTGATAATAATTTA
*
104582351 CTTCTTAAGTTGAT-ATAATTT
1 CTTCTGAAGTTGATAATAATTT
104582372 CTTTTGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (23 bp):
CTTCTGAAGTTGATAATAATTTA
Found at i:104605724 original size:18 final size:19
Alignment explanation
Indices: 104605703--104605755 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
104605693 TTTTTGAATT
104605703 TTTTATAAA-TATTTTAA-A
1 TTTTA-AAATTATTTTAATA
*
104605721 TTTTAAAAATTATTTAAATA
1 TTTT-AAAATTATTTTAATA
104605741 TTTTAAAATTATTTT
1 TTTTAAAATTATTTT
104605756 TATTTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 7 0.23
19 18 0.60
20 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTAAAATTATTTTAATA
Found at i:104605724 original size:19 final size:19
Alignment explanation
Indices: 104605702--104605764 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 19
104605692 TTTTTTGAAT
104605702 TTTTTATAAATATTTTAAA
1 TTTTTATAAATATTTTAAA
*
104605721 -TTTTAAAAAT-TATTTAAA
1 TTTTTATAAATAT-TTTAAA
*
104605739 TATTTTA-AAATTATTTT-TA
1 T-TTTTATAAA-TATTTTAAA
104605758 TTTTTAT
1 TTTTTAT
104605765 TTTGTAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
17 1 0.03
18 20 0.56
19 5 0.14
20 9 0.25
21 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTATAAATATTTTAAA
Found at i:104610994 original size:23 final size:23
Alignment explanation
Indices: 104610968--104611016 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
104610958 TTTAAGTTGA
* *
104610968 TTTTCGAA-AGTGATTTTGAAATG
1 TTTTCGAAGAGTG-CTTTGAAAAG
*
104610991 TTTTTGAAGAGTGCTTTGAAAAG
1 TTTTCGAAGAGTGCTTTGAAAAG
104611014 TTT
1 TTT
104611017 GGTTTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.45
Consensus pattern (23 bp):
TTTTCGAAGAGTGCTTTGAAAAG
Found at i:104617617 original size:488 final size:488
Alignment explanation
Indices: 104616701--104617681 Score: 1899
Period size: 488 Copynumber: 2.0 Consensus size: 488
104616691 TCTACCTCCG
*
104616701 GGAAAGTTCCCAATTGGCTGTAAATGGGTCTATAAGATCATGTACGAGGCATCTGGTGAGGTAGA
1 GGAAAGTTCCCAATTGGCTGTAAATGGGTCTATAAGATCATGTACAAGGCATCTGGTGAGGTAGA
*
104616766 ACGATTTAAGGCTCGCCTTGTAGCCAAAGGTTATAGTCAGAAGGAGGGTGTGGACTATGGGGACA
66 ACGATTTAAGGCTCGCCTTGTAGCCAAAGGTTATAGTCAGAAGGAGGGTATGGACTATGGGGACA
104616831 CTTTCTCTCCTGTTGCTAAACTGGTAACTGTGAGAGCTGTTTTGGCATTGGCTTCTATTTTTCAT
131 CTTTCTCTCCTGTTGCTAAACTGGTAACTGTGAGAGCTGTTTTGGCATTGGCTTCTATTTTTCAT
*
104616896 TGGCTCTTATTTCAGATGGATGTCTTCAATGCCTTCCTCCAAGGTGATTTGTGTGAGGAGGTTTA
196 TGGCTCGTATTTCAGATGGATGTCTTCAATGCCTTCCTCCAAGGTGATTTGTGTGAGGAGGTTTA
104616961 TATGGAGTTGCCTACTGGTTTTTGCAGTCAAGAGGGAACACTGTTTGTAGATTTCAAAAGTCTCT
261 TATGGAGTTGCCTACTGGTTTTTGCAGTCAAGAGGGAACACTGTTTGTAGATTTCAAAAGTCTCT
*
104617026 TTATGGGTTGAAGCAGGCGTCCAGGTAATGGAATCTGAAGTTGACACAAGCATTGGTTTCTGCTA
326 TTATGGGTTGAAGCAGGCGTCCAGGCAATGGAATCTGAAGTTGACACAAGCATTGGTTTCTGCTA
* *
104617091 GATTTCAGCAAAGTAAGTATGATTACTCTTTGTTTACAAAACGACAAGGAGGTAATATAGTTTTG
391 GATTTCAGCAAAGTAAGTATGATTACTCTTCGTTTACAAAACAACAAGGAGGTAATATAGTTTTG
104617156 TTACTCATTTATGTTGATGATTTGGTCATAACT
456 TTACTCATTTATGTTGATGATTTGGTCATAACT
104617189 GGAAAGTTCCCAATTGGCTGTAAATGGGTCTATAAGATCATGTACAAGGCATCTGGTGAGGTAGA
1 GGAAAGTTCCCAATTGGCTGTAAATGGGTCTATAAGATCATGTACAAGGCATCTGGTGAGGTAGA
104617254 ACGATTTAAGGCTCGCCTTGTAGCCAAAGGTTATAGTCAGAAGGAGGGTATGGACTATGGGGACA
66 ACGATTTAAGGCTCGCCTTGTAGCCAAAGGTTATAGTCAGAAGGAGGGTATGGACTATGGGGACA
104617319 CTTTCTCTCCTGTTGCTAAACTGGTAACTGTGAGAGCTGTTTTGGCATTGGCTTCTATTTTTCAT
131 CTTTCTCTCCTGTTGCTAAACTGGTAACTGTGAGAGCTGTTTTGGCATTGGCTTCTATTTTTCAT
104617384 TGGCTCGTATTTCAGATGGATGTCTTCAATGCCTTCCTCCAAGGTGATTTGTGTGAGGAGGTTTA
196 TGGCTCGTATTTCAGATGGATGTCTTCAATGCCTTCCTCCAAGGTGATTTGTGTGAGGAGGTTTA
104617449 TATGGAGTTGCCTACTGGTTTTTGCAGTCAAGAGGGAACACTGTTTGTAGATTTCAAAAGTCTCT
261 TATGGAGTTGCCTACTGGTTTTTGCAGTCAAGAGGGAACACTGTTTGTAGATTTCAAAAGTCTCT
104617514 TTATGGGTTGAAGCAGGCGTCCAGGCAATGGAATCTGAAGTTGACACAAGCATTGGTTTCTGCTA
326 TTATGGGTTGAAGCAGGCGTCCAGGCAATGGAATCTGAAGTTGACACAAGCATTGGTTTCTGCTA
*
104617579 GATTTCAGCAAAGTAAGTATGATTACTCTTCGTTTACAAAACAACAAGGAGGTAATGTAGTTTTG
391 GATTTCAGCAAAGTAAGTATGATTACTCTTCGTTTACAAAACAACAAGGAGGTAATATAGTTTTG
104617644 TTACTCATTTATGTTGATGATTTGGTCATAACT
456 TTACTCATTTATGTTGATGATTTGGTCATAACT
104617677 GGAAA
1 GGAAA
104617682 TGATGAGGTT
Statistics
Matches: 486, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
488 486 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (488 bp):
GGAAAGTTCCCAATTGGCTGTAAATGGGTCTATAAGATCATGTACAAGGCATCTGGTGAGGTAGA
ACGATTTAAGGCTCGCCTTGTAGCCAAAGGTTATAGTCAGAAGGAGGGTATGGACTATGGGGACA
CTTTCTCTCCTGTTGCTAAACTGGTAACTGTGAGAGCTGTTTTGGCATTGGCTTCTATTTTTCAT
TGGCTCGTATTTCAGATGGATGTCTTCAATGCCTTCCTCCAAGGTGATTTGTGTGAGGAGGTTTA
TATGGAGTTGCCTACTGGTTTTTGCAGTCAAGAGGGAACACTGTTTGTAGATTTCAAAAGTCTCT
TTATGGGTTGAAGCAGGCGTCCAGGCAATGGAATCTGAAGTTGACACAAGCATTGGTTTCTGCTA
GATTTCAGCAAAGTAAGTATGATTACTCTTCGTTTACAAAACAACAAGGAGGTAATATAGTTTTG
TTACTCATTTATGTTGATGATTTGGTCATAACT
Found at i:104628641 original size:38 final size:38
Alignment explanation
Indices: 104628585--104628685 Score: 148
Period size: 38 Copynumber: 2.7 Consensus size: 38
104628575 ATTGCTATTC
* *
104628585 GCTTTGTGCCTAGCAGGCTTTGTGTCGGAGTTATTTAG
1 GCTTTGTGCCTAGCAGGCTTTGTGCCAGAGTTATTTAG
* * *
104628623 GCTTTGTACCTAGTAGGCTTTGTGCCAGTGTTATTTAG
1 GCTTTGTGCCTAGCAGGCTTTGTGCCAGAGTTATTTAG
*
104628661 GCTTTGTGCCTAGCAGGCTTAGTGC
1 GCTTTGTGCCTAGCAGGCTTTGTGC
104628686 AGGTATATTA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 55 1.00
ACGTcount: A:0.14, C:0.18, G:0.30, T:0.39
Consensus pattern (38 bp):
GCTTTGTGCCTAGCAGGCTTTGTGCCAGAGTTATTTAG
Found at i:104636031 original size:14 final size:15
Alignment explanation
Indices: 104636000--104636035 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
104635990 TGTTTTACTT
104636000 AAAATAATTTTCTCA
1 AAAATAATTTTCTCA
*
104636015 AAAATAATTTT-TTA
1 AAAATAATTTTCTCA
104636029 AAAATAA
1 AAAATAA
104636036 ATTATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATAATTTTCTCA
Found at i:104636102 original size:23 final size:25
Alignment explanation
Indices: 104636061--104636126 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
104636051 AAAAAGTGAG
* *
104636061 ATTTAAAAAAATAAATAATCTTT-AT
1 ATTTATAAAAA-AATTAATCTTTAAT
* * *
104636086 TTTTAT-TAAAAATTAATTTTTAAT
1 ATTTATAAAAAAATTAATCTTTAAT
104636110 ATTTATAAAAAAATTAA
1 ATTTATAAAAAAATTAA
104636127 ATAAAATAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
23 9 0.28
24 10 0.31
25 13 0.41
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATTTATAAAAAAATTAATCTTTAAT
Found at i:104637452 original size:15 final size:14
Alignment explanation
Indices: 104637432--104637483 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 14
104637422 GTTTATGAAC
104637432 TTTAATTTGGTTAAT
1 TTTAATTT-GTTAAT
104637447 TTTAATTT-TTATATTT
1 TTTAATTTGTTA-A--T
104637463 TTTGAATTTGTTAAT
1 TTT-AATTTGTTAAT
104637478 TTTAAT
1 TTTAAT
104637484 ATTTTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
13 3 0.09
14 4 0.12
15 12 0.38
16 4 0.12
17 6 0.19
18 3 0.09
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (14 bp):
TTTAATTTGTTAAT
Found at i:104637479 original size:17 final size:16
Alignment explanation
Indices: 104637446--104637503 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
104637436 ATTTGGTTAA
104637446 TTTTAATTTTTATATT
1 TTTTAATTTTTATATT
104637462 TTTTGAATTTGTTA-A--
1 TTTT-AATTT-TTATATT
104637477 TTTTAATATTTT-TATT
1 TTTTAAT-TTTTATATT
104637493 TTTTAAATTTT
1 TTTT-AATTTT
104637504 GAAATTTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
14 6 0.17
15 6 0.17
16 11 0.31
17 9 0.26
18 3 0.09
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTAATTTTTATATT
Found at i:104637493 original size:31 final size:32
Alignment explanation
Indices: 104637435--104637502 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 32
104637425 TATGAACTTT
*
104637435 AATTTGGTTAATTTTAATTTTTATATTTTTTG
1 AATTTGGTTAATTTTAATTTTTATATTTTTTA
104637467 AATTT-GTTAATTTTAATATTTT-TATTTTTTA
1 AATTTGGTTAATTTTAAT-TTTTATATTTTTTA
104637498 AATTT
1 AATTT
104637503 TGAAATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 25 0.74
32 9 0.26
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (32 bp):
AATTTGGTTAATTTTAATTTTTATATTTTTTA
Found at i:104637510 original size:31 final size:31
Alignment explanation
Indices: 104637435--104637512 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
104637425 TATGAACTTT
* *
104637435 AATTTGGTTAATTTTAATTTTTATATTTTTTG
1 AATTT-GTAAATTTTAATTTTTATATTTTTTA
*
104637467 AATTTGTTAATTTTAATATTTT-TATTTTTTA
1 AATTTGTAAATTTTAAT-TTTTATATTTTTTA
104637498 AATTT-TGAAATTTTA
1 AATTTGT-AAATTTTA
104637513 GTCTTGACCT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
30 1 0.02
31 32 0.76
32 9 0.21
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.64
Consensus pattern (31 bp):
AATTTGTAAATTTTAATTTTTATATTTTTTA
Found at i:104642613 original size:24 final size:24
Alignment explanation
Indices: 104642586--104642632 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
104642576 TTGTTTTATT
104642586 TTTTAAACTTATTTAAAAAATTAG
1 TTTTAAACTTATTTAAAAAATTAG
* * *
104642610 TTTTTAATTTATTTTAAAAATTA
1 TTTTAAACTTATTTAAAAAATTA
104642633 ATTTGCAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTTAAACTTATTTAAAAAATTAG
Found at i:104652587 original size:19 final size:19
Alignment explanation
Indices: 104652558--104652600 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
104652548 GGATATATTT
104652558 TAAAT-TTATTTAAATAGA
1 TAAATCTTATTTAAATAGA
**
104652576 TAAATCTTATTTAGGTAGA
1 TAAATCTTATTTAAATAGA
104652595 TAAATC
1 TAAATC
104652601 ATTAGAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (19 bp):
TAAATCTTATTTAAATAGA
Found at i:104654153 original size:19 final size:19
Alignment explanation
Indices: 104654124--104654169 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
104654114 GGATATATTT
104654124 TAAAT-TTATTTAGATAGA
1 TAAATCTTATTTAGATAGA
*
104654142 TAAATCTTATTTAGGTAGA
1 TAAATCTTATTTAGATAGA
104654161 TAAATCTTA
1 TAAATCTTA
104654170 GAATAAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.43
Consensus pattern (19 bp):
TAAATCTTATTTAGATAGA
Found at i:104657582 original size:13 final size:13
Alignment explanation
Indices: 104657566--104657590 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104657556 TAATCTATAG
104657566 ACGTTATTTTTAC
1 ACGTTATTTTTAC
104657579 ACGTTATTTTTA
1 ACGTTATTTTTA
104657591 TATTTTAAAA
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:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (13 bp):
ACGTTATTTTTAC
Found at i:104663444 original size:28 final size:28
Alignment explanation
Indices: 104663422--104663494 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
104663412 AAAATGATCT
104663422 TGACGGACTTCCACATTGAAAATAGTCC
1 TGACGGACTTCCACATTGAAAATAGTCC
* *
104663450 TGGCGGACTTCCACA-TAAAAGATAGTCC
1 TGACGGACTTCCACATTGAAA-ATAGTCC
*
104663478 TGA-TGAGCTTCCACATT
1 TGACGGA-CTTCCACATT
104663495 TACGGTAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
27 6 0.16
28 31 0.82
29 1 0.03
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (28 bp):
TGACGGACTTCCACATTGAAAATAGTCC
Found at i:104669438 original size:22 final size:22
Alignment explanation
Indices: 104669413--104669458 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
104669403 ATAAATTTAA
104669413 TTATAAAATATATAAAATATTT
1 TTATAAAATATATAAAATATTT
* * * *
104669435 TTATAATATTTTTATAATATTT
1 TTATAAAATATATAAAATATTT
104669457 TT
1 TT
104669459 TATTAATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATAAAATATATAAAATATTT
Found at i:104669465 original size:13 final size:11
Alignment explanation
Indices: 104669428--104669458 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
104669418 AAATATATAA
104669428 AATATTTTTAT
1 AATATTTTTAT
104669439 AATATTTTTAT
1 AATATTTTTAT
104669450 AATATTTTT
1 AATATTTTT
104669459 TATTAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
AATATTTTTAT
Found at i:104671546 original size:48 final size:48
Alignment explanation
Indices: 104671493--104671584 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
104671483 CTAACCAACC
* *
104671493 CGTAACGAAGGACCACTTTTTTCTTCGTTATTGTTCGCGTGCCAGCTT
1 CGTAACGAAGGACCACTTTTCTCTTCATTATTGTTCGCGTGCCAGCTT
104671541 CGTAACGAAGGACCACTTTTCTCTTCATTATTGTTCGCGTGCCA
1 CGTAACGAAGGACCACTTTTCTCTTCATTATTGTTCGCGTGCCA
104671585 TCTTACTAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.36
Consensus pattern (48 bp):
CGTAACGAAGGACCACTTTTCTCTTCATTATTGTTCGCGTGCCAGCTT
Found at i:104675998 original size:30 final size:31
Alignment explanation
Indices: 104675962--104676030 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
104675952 GGTTTCATTT
*
104675962 CAGTCACTCAAT-TT-TCAAAAAGTTACAAAA
1 CAGTCACT-AATGTTATCAAAAAGTGACAAAA
*
104675992 CAGTCACTAATGTTATGAAAAAGTGACAAAA
1 CAGTCACTAATGTTATCAAAAAGTGACAAAA
*
104676023 TAGTCACT
1 CAGTCACT
104676031 GATTAACAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 10 0.29
31 21 0.62
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (31 bp):
CAGTCACTAATGTTATCAAAAAGTGACAAAA
Found at i:104676381 original size:14 final size:15
Alignment explanation
Indices: 104676362--104676390 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
104676352 CACAAAAAAC
104676362 CAGAGGAA-AAGAAG
1 CAGAGGAAGAAGAAG
104676376 CAGAGGAAGAAGAAG
1 CAGAGGAAGAAGAAG
104676391 AAGATGAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.07, G:0.38, T:0.00
Consensus pattern (15 bp):
CAGAGGAAGAAGAAG
Found at i:104676399 original size:15 final size:15
Alignment explanation
Indices: 104676363--104676409 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
104676353 ACAAAAAACC
*
104676363 AGAGGAA-AAGAAGC
1 AGAGGAAGAAGAAGA
104676377 AGAGGAAGAAGAAGA
1 AGAGGAAGAAGAAGA
* * *
104676392 AGATGAAGCAGTAGA
1 AGAGGAAGAAGAAGA
104676407 AGA
1 AGA
104676410 AGGAGCTACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 7 0.25
15 21 0.75
ACGTcount: A:0.55, C:0.04, G:0.36, T:0.04
Consensus pattern (15 bp):
AGAGGAAGAAGAAGA
Found at i:104682619 original size:7 final size:7
Alignment explanation
Indices: 104682600--104682667 Score: 82
Period size: 7 Copynumber: 9.3 Consensus size: 7
104682590 TTGATGACCT
104682600 TAAACCC
1 TAAACCC
104682607 TAAAACCC
1 T-AAACCC
*
104682615 TAAACAC
1 TAAACCC
104682622 TAAAACCC
1 T-AAACCC
104682630 TAAACCC
1 TAAACCC
*
104682637 TAAATCC
1 TAAACCC
104682644 TAAAACCC
1 T-AAACCC
*
104682652 TAAACCA
1 TAAACCC
104682659 TAAACCC
1 TAAACCC
104682666 TA
1 TA
104682668 TGTTTATAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
7 33 0.63
8 19 0.37
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:104682624 original size:15 final size:15
Alignment explanation
Indices: 104682600--104682667 Score: 86
Period size: 15 Copynumber: 4.6 Consensus size: 15
104682590 TTGATGACCT
104682600 TAAACCCTAAAACCC
1 TAAACCCTAAAACCC
*
104682615 TAAACACTAAAACCC
1 TAAACCCTAAAACCC
*
104682630 TAAACCCT-AAATCC
1 TAAACCCTAAAACCC
*
104682644 TAAAACCCT-AAACCA
1 T-AAACCCTAAAACCC
104682659 TAAACCCTA
1 TAAACCCTA
104682668 TGTTTATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
14 13 0.28
15 33 0.72
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (15 bp):
TAAACCCTAAAACCC
Found at i:104682667 original size:22 final size:22
Alignment explanation
Indices: 104682601--104682667 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
104682591 TGATGACCTT
*
104682601 AAACCCTAAAACCCTAAACACTA
1 AAACCCT-AAACCCTAAACCCTA
*
104682624 AAACCCTAAACCCTAAATCCTA
1 AAACCCTAAACCCTAAACCCTA
*
104682646 AAACCCTAAACCATAAACCCTA
1 AAACCCTAAACCCTAAACCCTA
104682668 TGTTTATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 33 0.82
23 7 0.17
ACGTcount: A:0.49, C:0.36, G:0.00, T:0.15
Consensus pattern (22 bp):
AAACCCTAAACCCTAAACCCTA
Found at i:104684440 original size:13 final size:13
Alignment explanation
Indices: 104684422--104684450 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
104684412 TTTTTTTATA
104684422 TTAAAATATTTTT
1 TTAAAATATTTTT
104684435 TTAAAATATTTTT
1 TTAAAATATTTTT
104684448 TTA
1 TTA
104684451 TTGGTGGCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTAAAATATTTTT
Found at i:104684658 original size:38 final size:37
Alignment explanation
Indices: 104684616--104684733 Score: 102
Period size: 38 Copynumber: 3.2 Consensus size: 37
104684606 AAACATTTAC
*
104684616 ATTACTAAAAACTCACAAAATACAACAATTTATAATGA
1 ATTACTAAAAACTCACAAAACACAACAATTTATAAT-A
* *** * *
104684654 ATTACTAATAAAAT-ATTTAACAAAATAATTT-TACAT-
1 ATTACTAA-AAACTCACAAAACACAACAATTTATA-ATA
104684690 -TT-CTAAAAACTCACAAAACACAACAATTTATAATAA
1 ATTACTAAAAACTCACAAAACACAACAATTTATAAT-A
104684726 ATTACTAA
1 ATTACTAA
104684734 CAAATTTTTT
Statistics
Matches: 59, Mismatches: 13, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
33 4 0.07
34 18 0.31
35 4 0.07
37 4 0.07
38 25 0.42
39 4 0.07
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (37 bp):
ATTACTAAAAACTCACAAAACACAACAATTTATAATA
Found at i:104684729 original size:72 final size:72
Alignment explanation
Indices: 104684611--104684779 Score: 268
Period size: 72 Copynumber: 2.3 Consensus size: 72
104684601 TTTTAAAACA
* * * *
104684611 TTTACATTACTAAAAACTCACAAAATACAACAATTTATAATGAATTACTAATAAAATATTTAACA
1 TTTACATTTCTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
104684676 AAATAAT
66 AAATAAT
* *
104684683 TTTACATTTCTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAATTTTTTAACA
1 TTTACATTTCTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
104684748 AAATAAT
66 AAATAAT
104684755 TTTACATTAT-TAAAAACTCACAAAA
1 TTTACATT-TCTAAAAACTCACAAAA
104684780 TACTAAACTA
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
72 89 0.99
73 1 0.01
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.33
Consensus pattern (72 bp):
TTTACATTTCTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
AAATAAT
Found at i:104684817 original size:27 final size:27
Alignment explanation
Indices: 104684787--104684878 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 27
104684777 AAATACTAAA
*
104684787 CTAAACACAATAATTTACAATATAATC
1 CTAAACACAATAATTTATAATATAATC
* * * *
104684814 CTAAATTACTAATAAATTAATTTTAAAATAATT
1 CTAAA-CAC-AAT-AA-T--TTATAATATAATC
*
104684847 ATAAACACAATAATTTATAATATAATC
1 CTAAACACAATAATTTATAATATAATC
104684874 CTAAA
1 CTAAA
104684879 TTACTAACAA
Statistics
Matches: 48, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
27 19 0.40
28 2 0.04
29 4 0.08
30 4 0.08
31 4 0.08
32 2 0.04
33 13 0.27
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (27 bp):
CTAAACACAATAATTTATAATATAATC
Found at i:104684858 original size:60 final size:59
Alignment explanation
Indices: 104684788--104684910 Score: 219
Period size: 60 Copynumber: 2.1 Consensus size: 59
104684778 AATACTAAAC
*
104684788 TAAACACAATAATTTACAATATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
1 TAAACACAATAATTTACAATATAATCCTAAATTACTAACAAATT-ATTTTAAAATAATTA
*
104684848 TAAACACAATAATTTATAATATAATCCTAAATTACTAACAAATTATTTTAAAATAATTA
1 TAAACACAATAATTTACAATATAATCCTAAATTACTAACAAATTATTTTAAAATAATTA
104684907 TAAA
1 TAAA
104684911 AATTACATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 19 0.31
60 42 0.69
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.37
Consensus pattern (59 bp):
TAAACACAATAATTTACAATATAATCCTAAATTACTAACAAATTATTTTAAAATAATTA
Found at i:104685140 original size:26 final size:24
Alignment explanation
Indices: 104685101--104685148 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 24
104685091 CCGTTAACTG
104685101 TATTTTTATCAATATATATATTTAAA
1 TATTTTTATCAATA-ATAT-TTTAAA
104685127 TATTTTTAAT-AATAATATTTTA
1 TATTTTT-ATCAATAATATTTTA
104685149 TTTAAAGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 4 0.19
25 4 0.19
26 11 0.52
27 2 0.10
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
TATTTTTATCAATAATATTTTAAA
Found at i:104689766 original size:17 final size:17
Alignment explanation
Indices: 104689744--104689778 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
104689734 ATACATGGGT
104689744 CAAATTTCAAACATGAA
1 CAAATTTCAAACATGAA
104689761 CAAATTTCAAACATGAA
1 CAAATTTCAAACATGAA
104689778 C
1 C
104689779 CTTACTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.20, G:0.06, T:0.23
Consensus pattern (17 bp):
CAAATTTCAAACATGAA
Found at i:104693410 original size:11 final size:11
Alignment explanation
Indices: 104693394--104693577 Score: 135
Period size: 11 Copynumber: 16.7 Consensus size: 11
104693384 CCTAAGTATA
104693394 AAAACAGCACC
1 AAAACAGCACC
*
104693405 AAAACAGCAAC
1 AAAACAGCACC
*
104693416 AAAACAACACC
1 AAAACAGCACC
104693427 AAAACAGCACC
1 AAAACAGCACC
**
104693438 -AAACAGCATA
1 AAAACAGCACC
* *
104693448 AAAATAGCACA
1 AAAACAGCACC
104693459 AACAACAGCACC
1 AA-AACAGCACC
* *
104693471 AATACAGCAAC
1 AAAACAGCACC
104693482 AAAACAGCACC
1 AAAACAGCACC
**
104693493 -AAACAGCATA
1 AAAACAGCACC
* *
104693503 AAAATAGCACAA
1 AAAACAGCAC-C
*
104693515 AAAACAGCACT
1 AAAACAGCACC
*
104693526 AAACAGCATCACC
1 AAA-A-CAGCACC
*
104693539 AGAA-A-CACC
1 AAAACAGCACC
* *
104693548 AAAATAGCACAA
1 AAAACAGCAC-C
104693560 AAAACAGCACC
1 AAAACAGCACC
104693571 -AAACAGC
1 AAAACAGC
104693578 TATTCTTAGA
Statistics
Matches: 137, Mismatches: 27, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
9 7 0.05
10 25 0.18
11 68 0.50
12 30 0.22
13 7 0.05
ACGTcount: A:0.58, C:0.29, G:0.09, T:0.04
Consensus pattern (11 bp):
AAAACAGCACC
Found at i:104693550 original size:55 final size:55
Alignment explanation
Indices: 104693391--104693533 Score: 200
Period size: 55 Copynumber: 2.6 Consensus size: 55
104693381 ATACCTAAGT
* * * * * *
104693391 ATAAAAACAGCAC-CAAAACAGCAACAAAACAACACCAAAACAGCACCAAACAGC
1 ATAAAAATAGCACAAAAAACAGCACCAATACAGCAACAAAACAGCACCAAACAGC
*
104693445 ATAAAAATAGCACAAACAACAGCACCAATACAGCAACAAAACAGCACCAAACAGC
1 ATAAAAATAGCACAAAAAACAGCACCAATACAGCAACAAAACAGCACCAAACAGC
*
104693500 ATAAAAATAGCACAAAAAACAGCACTAA-ACAGCA
1 ATAAAAATAGCACAAAAAACAGCACCAATACAGCA
104693534 TCACCAGAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 18 0.23
55 61 0.77
ACGTcount: A:0.59, C:0.28, G:0.08, T:0.05
Consensus pattern (55 bp):
ATAAAAATAGCACAAAAAACAGCACCAATACAGCAACAAAACAGCACCAAACAGC
Found at i:104693570 original size:23 final size:23
Alignment explanation
Indices: 104693493--104693573 Score: 69
Period size: 23 Copynumber: 3.6 Consensus size: 23
104693483 AAACAGCACC
**
104693493 AAACAGCATAAAAATAGCACAAA
1 AAACAGCACCAAAATAGCACAAA
* * *
104693516 AAACAGCA-CTAAACAGCATCACCA
1 AAACAGCACCAAAATAGCA-CA-AA
*
104693540 GAA-A-CACCAAAATAGCACAAA
1 AAACAGCACCAAAATAGCACAAA
104693561 AAACAGCACCAAA
1 AAACAGCACCAAA
104693574 CAGCTATTCT
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
21 3 0.07
22 12 0.27
23 26 0.59
24 3 0.07
ACGTcount: A:0.59, C:0.26, G:0.09, T:0.06
Consensus pattern (23 bp):
AAACAGCACCAAAATAGCACAAA
Found at i:104699740 original size:86 final size:85
Alignment explanation
Indices: 104699411--104699804 Score: 290
Period size: 86 Copynumber: 4.6 Consensus size: 85
104699401 ACAAATACCA
* * * * * * * * *
104699411 CTATAGAATGTGACTTTTAGTGGTGTTTTTCCCTCGAACACCGCTATAGAATGTTACCTTTAGCA
1 CTATAGAATGTG-CCTTTAGCGGCGCTTTTCCCACAAACGCTGCTATAGAACGTTACCTTTAGCA
* *
104699476 GCGCTTTTACAACTAATGCCG
65 GCGCTTTTACAACAAACGCCG
* ** *** * * *
104699497 CTATAGAACT-TGACCTTCAGCGGCATTTTTCTTTCAAACGCCGCTATAGAACATTACCTTTAGT
1 CTATAGAA-TGTG-CCTTTAGCGGCGCTTTTCCCACAAACGCTGCTATAGAACGTTACCTTTAGC
* *
104699561 AGCGCTTTTCCAACAAACGACG
64 AGCGCTTTTACAACAAACGCCG
* * * * * * *
104699583 CTATAGAACGTGACATTTAGCGGCGCTTTGCCTACAAACGCAGTTATAGAACGTGACCTGTTA-C
1 CTATAGAATGTG-CCTTTAGCGGCGCTTTTCCCACAAACGCTGCTATAGAACGTTACCT-TTAGC
104699647 -GACGCTTTTACAACAAACGCCG
64 AG-CGCTTTTACAACAAACGCCG
* * * *
104699669 CTATAGAATGTGTTCTTTAGCAGCGCTTTTCCCACAAACGCTGCTATAGAACGTTGCCTTTAGCG
1 CTATAGAATGTG-CCTTTAGCGGCGCTTTTCCCACAAACGCTGCTATAGAACGTTACCTTTAGCA
* * * * * *
104699734 GTGCTTTTCCCACACATGTCG
65 GCGCTTTTACAACAAACGCCG
* * * * * *
104699755 CTATAAAAAGTGGCCTTTAGCGACGCTTTTCCCGCAAATGCTGTTATAGA
1 CTATAGAATGT-GCCTTTAGCGGCGCTTTTCCCACAAACGCTGCTATAGA
104699805 GCTTGATTTT
Statistics
Matches: 245, Mismatches: 56, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
85 4 0.02
86 235 0.96
87 6 0.02
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (85 bp):
CTATAGAATGTGCCTTTAGCGGCGCTTTTCCCACAAACGCTGCTATAGAACGTTACCTTTAGCAG
CGCTTTTACAACAAACGCCG
Found at i:104699744 original size:43 final size:43
Alignment explanation
Indices: 104699411--104699828 Score: 259
Period size: 43 Copynumber: 9.7 Consensus size: 43
104699401 ACAAATACCA
* * * * * * * * *
104699411 CTATAGAATGTGACTTTTAGTGGTGTTTTTCCCTCGAACACCG
1 CTATAGAACGTGACCTTTAGCGGCGCTTTTCCCACAAACGCTG
* * * * * * * *
104699454 CTATAGAATGTTACCTTTAGCAGCGCTTTTACAACTAATGCCG
1 CTATAGAACGTGACCTTTAGCGGCGCTTTTCCCACAAACGCTG
* * ** *** *
104699497 CTATAGAACTTGACCTTCAGCGGCATTTTTCTTTCAAACGCCG
1 CTATAGAACGTGACCTTTAGCGGCGCTTTTCCCACAAACGCTG
* * ** *
104699540 CTATAGAACATTACCTTTAGTAGCGCTTTTCCAACAAACGAC-G
1 CTATAGAACGTGACCTTTAGCGGCGCTTTTCCCACAAACG-CTG
* * * *
104699583 CTATAGAACGTGACATTTAGCGGCGCTTTGCCTACAAACGCAG
1 CTATAGAACGTGACCTTTAGCGGCGCTTTTCCCACAAACGCTG
* * * * *
104699626 TTATAGAACGTGACCTGTTA-CGACGCTTTTACAACAAACGCCG
1 CTATAGAACGTGACCT-TTAGCGGCGCTTTTCCCACAAACGCTG
* ** *
104699669 CTATAGAATGTGTTCTTTAGCAGCGCTTTTCCCACAAACGCTG
1 CTATAGAACGTGACCTTTAGCGGCGCTTTTCCCACAAACGCTG
* * *
104699712 CTATAGAACGTTG-CCTTTAGCGGTGCTTTTCCCACACATG-TCG
1 CTATAGAACG-TGACCTTTAGCGGCGCTTTTCCCACAAACGCT-G
* * * * * *
104699755 CTATAAAAAGTGGCCTTTAGCGACGCTTTTCCCGCAAATGCTG
1 CTATAGAACGTGACCTTTAGCGGCGCTTTTCCCACAAACGCTG
* * * **
104699798 TTATAGAGCTTGATTTTTAGCGGCGCTTTTC
1 CTATAGAACGTGACCTTTAGCGGCGCTTTTC
104699829 ACAAAAAAGC
Statistics
Matches: 288, Mismatches: 79, Indels: 16
0.75 0.21 0.04
Matches are distributed among these distances:
42 7 0.02
43 274 0.95
44 7 0.02
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (43 bp):
CTATAGAACGTGACCTTTAGCGGCGCTTTTCCCACAAACGCTG
Found at i:104699804 original size:129 final size:129
Alignment explanation
Indices: 104699531--104699784 Score: 293
Period size: 129 Copynumber: 2.0 Consensus size: 129
104699521 ATTTTTCTTT
** * *
104699531 CAAACGCCGCTATAGAACAT-TACCTTTAGTAGCGCTTTTCCAACAAACGACGCTATAGAACGTG
1 CAAACGCCGCTATAGAATGTGT-TCTTTAGCAGCGCTTTTCCAACAAACGACGCTATAGAACGTG
* * * *
104699595 ACATTTAGCGGCGCTTTGCCTACAAACGCAGTTATAGAACGTGACCTGTTACGACGCTTTTACAA
65 ACATTTAGCGGCGCTTTGCCCACAAACGCAGCTATAAAAAGTGACCTGTTACGACGCTTTTACAA
*
104699660 CAAACGCCGCTATAGAATGTGTTCTTTAGCAGCGCTTTTCCCACAAACG-CTGCTATAGAACGTT
1 CAAACGCCGCTATAGAATGTGTTCTTTAGCAGCGCTTTTCCAACAAACGAC-GCTATAGAACG-T
* * * * * *
104699724 G-CCTTTAGCGGTGCTTTTCCCACACATGTC-GCTATAAAAAGTGGCCT-TTAGCGACGCTTTT
64 GACATTTAGCGGCGCTTTGCCCACAAACG-CAGCTATAAAAAGTGACCTGTTA-CGACGCTTTT
104699785 CCCGCAAATG
Statistics
Matches: 105, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
128 4 0.04
129 97 0.92
130 4 0.04
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (129 bp):
CAAACGCCGCTATAGAATGTGTTCTTTAGCAGCGCTTTTCCAACAAACGACGCTATAGAACGTGA
CATTTAGCGGCGCTTTGCCCACAAACGCAGCTATAAAAAGTGACCTGTTACGACGCTTTTACAA
Found at i:104706083 original size:43 final size:43
Alignment explanation
Indices: 104706056--104706439 Score: 272
Period size: 43 Copynumber: 8.9 Consensus size: 43
104706046 GGTGTTTACG
* *
104706056 GGAAAAGCGCTGCTAAAGGTCACGTTCTATAGCGGCGTTTGTA
1 GGAAAAGCGCAGCTAAAGGCCACGTTCTATAGCGGCGTTTGTA
*
104706099 GGAAAAGCGCAGCTAAAGGCCACGTTCTATAGCGGCGTTTGTT
1 GGAAAAGCGCAGCTAAAGGCCACGTTCTATAGCGGCGTTTGTA
* * * * * *
104706142 GGAAAAGCGCCGTTAAAGGCCATGTTCTATAGCAGCATTTGTT
1 GGAAAAGCGCAGCTAAAGGCCACGTTCTATAGCGGCGTTTGTA
* * * * * * *
104706185 GTAAAAGTGCCGCTACAGGCCATGTTCTATAGTGTCGTTTGTA
1 GGAAAAGCGCAGCTAAAGGCCACGTTCTATAGCGGCGTTTGTA
* * * * * * * *
104706228 GGCAAAGCATC-GCTAAATGTCACGTTTTACAGCGTCGTTTGTT
1 GGAAAAGC-GCAGCTAAAGGCCACGTTCTATAGCGGCGTTTGTA
* ** * *
104706271 GGAAAAGTGCCA-CTAAAGGTAATGTTCTGTAGCGGCGTTTG-A
1 GGAAAAGCG-CAGCTAAAGGCCACGTTCTATAGCGGCGTTTGTA
* * * * * * *
104706313 GGGAAAAACACCGTTAAAGGTCACGTTCTATAGCGGCATTTGTT
1 -GGAAAAGCGCAGCTAAAGGCCACGTTCTATAGCGGCGTTTGTA
* * * * *
104706357 GTAAAAGCGC-GACTAAAGGTCACATTCTATAGTGGTGTTTGTA
1 GGAAAAGCGCAG-CTAAAGGCCACGTTCTATAGCGGCGTTTGTA
* ** * * * *
104706400 GAAAAAATGCCGCTAAAAGTCATGTTCTATAGCGGCGTTT
1 GGAAAAGCGCAGCTAAAGGCCACGTTCTATAGCGGCGTTT
104706440 TTTTCAAATA
Statistics
Matches: 266, Mismatches: 67, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
42 2 0.01
43 262 0.98
44 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
GGAAAAGCGCAGCTAAAGGCCACGTTCTATAGCGGCGTTTGTA
Found at i:104706159 original size:86 final size:86
Alignment explanation
Indices: 104706056--104706439 Score: 351
Period size: 86 Copynumber: 4.5 Consensus size: 86
104706046 GGTGTTTACG
* *
104706056 GGAAAAGCGCTGCTAAAGGTCACGTTCTATAGCGGCGTTTGTAGGAAAAGCGCAGCTAAAGGCCA
1 GGAAAAGCGCCGCTAAAGGTCACGTTCTATAGCGGCGTTTGTTGGAAAAGCGCAGCTAAAGGCCA
*
104706121 CGTTCTATAGCGGCGTTTGTT
66 CGTTCTATAGCGGCGTTTGTA
* * * * * * * * *
104706142 GGAAAAGCGCCGTTAAAGGCCATGTTCTATAGCAGCATTTGTTGTAAAAGTGCCGCTACAGGCCA
1 GGAAAAGCGCCGCTAAAGGTCACGTTCTATAGCGGCGTTTGTTGGAAAAGCGCAGCTAAAGGCCA
* * *
104706207 TGTTCTATAGTGTCGTTTGTA
66 CGTTCTATAGCGGCGTTTGTA
* ** * * * * * **
104706228 GGCAAAGCATCGCTAAATGTCACGTTTTACAGCGTCGTTTGTTGGAAAAGTGCCA-CTAAAGGTA
1 GGAAAAGCGCCGCTAAAGGTCACGTTCTATAGCGGCGTTTGTTGGAAAAGCG-CAGCTAAAGGCC
* *
104706292 ATGTTCTGTAGCGGCGTTTG-A
65 ACGTTCTATAGCGGCGTTTGTA
* * * * * *
104706313 GGGAAAAACACCGTTAAAGGTCACGTTCTATAGCGGCATTTGTTGTAAAAGCGC-GACTAAAGGT
1 -GGAAAAGCGCCGCTAAAGGTCACGTTCTATAGCGGCGTTTGTTGGAAAAGCGCAG-CTAAAGGC
* * *
104706377 CACATTCTATAGTGGTGTTTGTA
64 CACGTTCTATAGCGGCGTTTGTA
* ** * *
104706400 GAAAAAATGCCGCTAAAAGTCATGTTCTATAGCGGCGTTT
1 GGAAAAGCGCCGCTAAAGGTCACGTTCTATAGCGGCGTTT
104706440 TTTTCAAATA
Statistics
Matches: 234, Mismatches: 59, Indels: 10
0.77 0.19 0.03
Matches are distributed among these distances:
85 2 0.01
86 230 0.98
87 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (86 bp):
GGAAAAGCGCCGCTAAAGGTCACGTTCTATAGCGGCGTTTGTTGGAAAAGCGCAGCTAAAGGCCA
CGTTCTATAGCGGCGTTTGTA
Found at i:104706397 original size:129 final size:128
Alignment explanation
Indices: 104706005--104706439 Score: 372
Period size: 129 Copynumber: 3.4 Consensus size: 128
104705995 AATTAGTAGC
* *** * * * * * *
104706005 GTTTTTTGCGAAAAGTGCCGCTAAAAACCAAGTTCTATAGTGGTGTTT-ACGGGAAAAGCGCTGC
1 GTTTGTTG-GAAAAGTGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGA-GGGAAAAACACCGC
*
104706069 TAAAGGTCACGTTCTATAGCGGCGTTTGTAGGAAAAGCGC-AGCTAAAGGCCACGTTCTATAGCG
64 TAAAGGTCACGTTCTATAGCGGCGTTTGTAGGAAAAGCGCGA-CTAAAGGTCACGTTCTATAG-G
*
104706133 GC
127 GT
* * * * * ** * ***
104706135 GTTTGTTGGAAAAGCGCCGTTAAAGGCCATGTTCTATAGCAGCATTTGTTGTAAAAGTGCCGCTA
1 GTTTGTTGGAAAAGTGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGAGGGAAAAACACCGCTA
* * * * * * * * * * *
104706200 CAGGCCATGTTCTATAGTGTCGTTTGTAGGCAAAGCATCG-CTAAATGTCACGTTTTACAGCGT
66 AAGGTCACGTTCTATAGCGGCGTTTGTAGGAAAAGC-GCGACTAAAGGTCACGTTCTATAGGGT
* * * *
104706263 CGTTTGTTGGAAAAGTGCCACTAAAGGTAATGTTCTGTAGCGGCGTTTGAGGGAAAAACACCGTT
1 -GTTTGTTGGAAAAGTGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGAGGGAAAAACACCGCT
* * * *
104706328 AAAGGTCACGTTCTATAGCGGCATTTGTTGTAAAAGCGCGACTAAAGGTCACATTCTATAGTGGT
65 AAAGGTCACGTTCTATAGCGGCGTTTGTAGGAAAAGCGCGACTAAAGGTCACGTTCTATAG-GGT
* * * *
104706393 GTTTGTAGAAAAAATGCCGCTAAAAGTCATGTTCTATAGCGGCGTTT
1 GTTTGTTGGAAAAGTGCCGCTAAAGGTCATGTTCTATAGCGGCGTTT
104706440 TTTTCAAATA
Statistics
Matches: 234, Mismatches: 65, Indels: 13
0.75 0.21 0.04
Matches are distributed among these distances:
128 3 0.01
129 221 0.94
130 10 0.04
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (128 bp):
GTTTGTTGGAAAAGTGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGAGGGAAAAACACCGCTA
AAGGTCACGTTCTATAGCGGCGTTTGTAGGAAAAGCGCGACTAAAGGTCACGTTCTATAGGGT
Found at i:104707308 original size:228 final size:228
Alignment explanation
Indices: 104706908--104707595 Score: 1223
Period size: 228 Copynumber: 3.0 Consensus size: 228
104706898 AGACTTTACT
** * *
104706908 AGAGCTCCAAATCTTGAAGTTTTGATTTTAAAAGGGTGTACCAGATTAAAAGATGTTCATCCATC
1 AGAGCTCCAAATCTTGAAGTTTTGATTTTGGAAGGATGTACCAGATTAATAGATGTTCATCCATC
*
104706973 CATAGGAGTTCTTACGAGGCTTAAACTTTTGAACTTAAGAGGCTGCAAAAATCTTAGGAGTCTTC
66 CATAGGAGTTCTTACGAGGCTTAAACTTTTGAACTTAGGAGGCTGCAAAAATCTTAGGAGTCTTC
104707038 CAACCAAAATTGAATGGGAATCTCTTGAAACATTAAATCTGAAAGATTGCAAAAACCTTGTGAGC
131 CAACCAAAATTGAATGGGAATCTCTTGAAACATTAAATCTGAAAGATTGCAAAAACCTTGTGAGC
104707103 CTCGCAAGCAGCAAAGGTGGGTGTAAAGGTTTA
196 CTCGCAAGCAGCAAAGGTGGGTGTAAAGGTTTA
* * *
104707136 AGGGCTCCAAATCTTGAAGTTTTGTTTTTGGAAGGATGTACCAAATTAATAGATGTTCATCCATC
1 AGAGCTCCAAATCTTGAAGTTTTGATTTTGGAAGGATGTACCAGATTAATAGATGTTCATCCATC
*
104707201 CATAGGAGTTCTTACGAGACTTAAACTTTTGAACTTAGGAGGCTGCAAAAATCTTAGGAGTCTTC
66 CATAGGAGTTCTTACGAGGCTTAAACTTTTGAACTTAGGAGGCTGCAAAAATCTTAGGAGTCTTC
* *
104707266 CAACCAAAATTGAATGGGAATCTCTTGAAACATTAAATCTGAAAGATTTCAAAAACCTTGTGAGT
131 CAACCAAAATTGAATGGGAATCTCTTGAAACATTAAATCTGAAAGATTGCAAAAACCTTGTGAGC
104707331 CTCGCAAGCAGCAAAGGTGGGTGTAAAGGTTTA
196 CTCGCAAGCAGCAAAGGTGGGTGTAAAGGTTTA
104707364 AGAGCTCCAAATCTTGAAGTTTTGATTTTGGAAGGATGTACCAGATTAATAGATGTTCATCCATC
1 AGAGCTCCAAATCTTGAAGTTTTGATTTTGGAAGGATGTACCAGATTAATAGATGTTCATCCATC
*
104707429 CATAGGAGTTCTTACGAGGCTTAAACTTTTGAACTTAGGAGGCTGCTAAAATCTTAGGAGTCTTC
66 CATAGGAGTTCTTACGAGGCTTAAACTTTTGAACTTAGGAGGCTGCAAAAATCTTAGGAGTCTTC
* *
104707494 CAACCAAAATTGAATGGGAATCTCTTGAAATATTAAATCTGAAAGATTGCAATAACCTTGTGAGC
131 CAACCAAAATTGAATGGGAATCTCTTGAAACATTAAATCTGAAAGATTGCAAAAACCTTGTGAGC
* * *
104707559 CTCCCAAGCAGCATAGGTGGGTCTAAAGGTTTA
196 CTCGCAAGCAGCAAAGGTGGGTGTAAAGGTTTA
104707592 AGAG
1 AGAG
104707596 TTCTTAATCT
Statistics
Matches: 437, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
228 437 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (228 bp):
AGAGCTCCAAATCTTGAAGTTTTGATTTTGGAAGGATGTACCAGATTAATAGATGTTCATCCATC
CATAGGAGTTCTTACGAGGCTTAAACTTTTGAACTTAGGAGGCTGCAAAAATCTTAGGAGTCTTC
CAACCAAAATTGAATGGGAATCTCTTGAAACATTAAATCTGAAAGATTGCAAAAACCTTGTGAGC
CTCGCAAGCAGCAAAGGTGGGTGTAAAGGTTTA
Found at i:104710612 original size:22 final size:22
Alignment explanation
Indices: 104710568--104710619 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 22
104710558 ATGATTACTA
104710568 TTTATTTGATTTATGTTTGGAT
1 TTTATTTGATTTATGTTTGGAT
*
104710590 TATATATTTGGTTT-TG-TTGGAT
1 T-T-TATTTGATTTATGTTTGGAT
104710612 TTTATTTG
1 TTTATTTG
104710620 CATTGCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 6 0.22
21 1 0.04
22 8 0.30
23 3 0.11
24 9 0.33
ACGTcount: A:0.17, C:0.00, G:0.19, T:0.63
Consensus pattern (22 bp):
TTTATTTGATTTATGTTTGGAT
Found at i:104711738 original size:43 final size:43
Alignment explanation
Indices: 104711562--104711744 Score: 201
Period size: 43 Copynumber: 4.3 Consensus size: 43
104711552 ATTAAAGAAC
* * *
104711562 AAAA-CGCCGCTAAAGATCATGTTCTTTAGTAGTGTTTGTAGG
1 AAAAGCGCCGCTAAAGATCATGTTCTATAGCAGCGTTTGTAGG
** * * * *
104711604 CGAAGCGTCGCT-AA-ACCATGTTCTATAGCGGCGTTTGTTGG
1 AAAAGCGCCGCTAAAGATCATGTTCTATAGCAGCGTTTGTAGG
* **
104711645 AGAAGCATCGCTAAAGATCATGTTCTATAGCAGCGTTTGTAGG
1 AAAAGCGCCGCTAAAGATCATGTTCTATAGCAGCGTTTGTAGG
* **
104711688 AAAAGCGCCGCTAAAGATCACGTTCTATAGTGGCGTTTGTAGG
1 AAAAGCGCCGCTAAAGATCATGTTCTATAGCAGCGTTTGTAGG
*
104711731 AAAAGCGCCACTAA
1 AAAAGCGCCGCTAA
104711745 CATTAACAGA
Statistics
Matches: 117, Mismatches: 21, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
41 31 0.26
42 6 0.05
43 80 0.68
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGATCATGTTCTATAGCAGCGTTTGTAGG
Found at i:104715094 original size:3 final size:3
Alignment explanation
Indices: 104715074--104715169 Score: 79
Period size: 3 Copynumber: 32.0 Consensus size: 3
104715064 TATTTACCAC
* * * *
104715074 TAT TAA TAT TAC TAT TAT TAT TAT TAT T-T TAT TTT CTAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* * * * *
104715119 TAT TAT CAT TAT TAT TAG TAT T-T TAC TAT TAT TAG TAT TAG TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
104715167 TAT
1 TAT
104715170 CCCTTAATAT
Statistics
Matches: 71, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
2 4 0.06
3 63 0.89
4 4 0.06
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:104715099 original size:39 final size:39
Alignment explanation
Indices: 104715056--104715140 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
104715046 TTTCGTATTC
104715056 TATTATTATATTTACCACTATTAATATTA-CTATTATTAT
1 TATTATTATATTTACCACTATTAATATTATC-ATTATTAT
* * * *
104715095 TATTATTTTATTTTCTACTATTATTATTATCATTATTAT
1 TATTATTATATTTACCACTATTAATATTATCATTATTAT
*
104715134 TAGTATT
1 TATTATT
104715141 TTACTATTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 39 0.98
40 1 0.03
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (39 bp):
TATTATTATATTTACCACTATTAATATTATCATTATTAT
Found at i:104715497 original size:6 final size:7
Alignment explanation
Indices: 104715478--104715509 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
104715468 TGTAAATATA
104715478 TATTTTT
1 TATTTTT
104715485 TATTTTT
1 TATTTTT
104715492 TATTTTT
1 TATTTTT
104715499 TATTTTT
1 TATTTTT
104715506 TATT
1 TATT
104715510 ATGTACATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TATTTTT
Found at i:104723415 original size:27 final size:29
Alignment explanation
Indices: 104723385--104723447 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 29
104723375 AAATATAATA
* *
104723385 ATATATATGATACGGTAT-TAAA-AATGT
1 ATATATATAATACGATATATAAAGAATGT
* *
104723412 ATATACATAATATGATATATAAAGAATGT
1 ATATATATAATACGATATATAAAGAATGT
104723441 ATATATA
1 ATATATA
104723448 ATATATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 14 0.48
28 4 0.14
29 11 0.38
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (29 bp):
ATATATATAATACGATATATAAAGAATGT
Found at i:104724830 original size:23 final size:23
Alignment explanation
Indices: 104724803--104724863 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
104724793 CATTGGGTCT
* *
104724803 TGGGTTTAAGGGTTTAATTGTAG
1 TGGGTTTAGGGGTTTAATTGTAA
104724826 TGGGTTTAGGGGTTTAATTGTAA
1 TGGGTTTAGGGGTTTAATTGTAA
104724849 TGGGTTTAGGGGTTT
1 TGGGTTTAGGGGTTT
104724864 TTGGGTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (23 bp):
TGGGTTTAGGGGTTTAATTGTAA
Found at i:104726015 original size:35 final size:35
Alignment explanation
Indices: 104725964--104726031 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
104725954 TTTTTATTTT
104725964 CTTTAAATGTTCATGTAAGTTATGATAATCATTAA
1 CTTTAAATGTTCATGTAAGTTATGATAATCATTAA
* *
104725999 CTTTAAATGTTTATGTAAGTTATGGTAATCATT
1 CTTTAAATGTTCATGTAAGTTATGATAATCATT
104726032 TTTTTATCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.46
Consensus pattern (35 bp):
CTTTAAATGTTCATGTAAGTTATGATAATCATTAA
Found at i:104726993 original size:59 final size:59
Alignment explanation
Indices: 104726158--104726986 Score: 1252
Period size: 59 Copynumber: 14.1 Consensus size: 59
104726148 TAAATGAATG
* * *
104726158 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGACATATGATTCTTTATTTA
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * ** *
104726217 ATTAACCGAAAATTAATTAATTATTCATTGAATTATTATGAAATATGATTATTTAATTA
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * * *
104726276 ATTAATCAAAAATTAATTAATTATTTATAAAATTATTATGACATGTGATTCTTTATTTA
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
*
104726335 ATTAATCAAAAATTAATTAATTATTCATAGAAA-TATAATGAAATATGATTATTTATTTA
1 ATTAATCAAAAATTAATTAATTATTCATA-AAATTATTATGAAATATGATTATTTATTTA
* *
104726394 TTTAATCAAAAATTAATTAATTATTCATAGAATTATTATGAAATATGATTATTTATTTA
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* *
104726453 ATTAACCAAAAATTAATTAATTATTCATAGAATTATTATGAAATATGATTATTTATTTA
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * *
104726512 ATTAATAAAAAATTAATTAATTATTCATAGAATTATTATGAAATCTGATTATTTATTTA
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
*
104726571 ATTAATCAGAAATTAATTAATTATTC-TAAAATTATTATGAAATATGATTATTTATTTA
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
*
104726629 ATTAATCAAAAATTAA-TAATTATTCCTAAAATTATTATGAAATATGATTATTTATTTA
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
*
104726687 ATTAATCAGAAATTAATTAATTATTC-TAAAATTATTATGAAATATGATTATTTATTTA
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
** * *
104726745 ATTAATCAAATTTTTATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTT
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
*** * * * * *
104726804 ATTAATTGGAAGTTAACTAATTATTCTTAAATTTATTATGGAATATGATTATTTATTTA
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * *
104726863 ATTAATCAAAATTTTATTAATTATTCATAAAATTATTATAAAATATGATTATTTATTTA
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * *
104726922 ATTAATCGAAAATTTATTAATTATTCATAGAATTATTATGAAATATGATTATTTATTTA
1 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
104726981 ATTAAT
1 ATTAAT
104726987 TGAAAATCAA
Statistics
Matches: 701, Mismatches: 64, Indels: 10
0.90 0.08 0.01
Matches are distributed among these distances:
57 9 0.01
58 148 0.21
59 541 0.77
60 3 0.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (59 bp):
ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
Found at i:104729092 original size:25 final size:25
Alignment explanation
Indices: 104729055--104729116 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
104729045 ACTTACATGA
**
104729055 CGATGCAATAGAGGACGGTCGACAG
1 CGATGCAGCAGAGGACGGTCGACAG
* *
104729080 CGATGCAGCAGAGGACTGTCGACGG
1 CGATGCAGCAGAGGACGGTCGACAG
*
104729105 CAATGCAGCAGA
1 CGATGCAGCAGA
104729117 CATTCGGGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.31, C:0.23, G:0.35, T:0.11
Consensus pattern (25 bp):
CGATGCAGCAGAGGACGGTCGACAG
Found at i:104729189 original size:19 final size:21
Alignment explanation
Indices: 104729151--104729202 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
104729141 TGGGGAATTT
*
104729151 GATTTGGGGAAAAAACTAAGG
1 GATTTCGGGAAAAAACTAAGG
104729172 GATTT-GGGAAAAAA-TAAGG
1 GATTTCGGGAAAAAACTAAGG
104729191 GATTTCGGGAAA
1 GATTTCGGGAAA
104729203 CTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.33
20 15 0.50
21 5 0.17
ACGTcount: A:0.42, C:0.04, G:0.33, T:0.21
Consensus pattern (21 bp):
GATTTCGGGAAAAAACTAAGG
Found at i:104729388 original size:40 final size:39
Alignment explanation
Indices: 104729276--104729378 Score: 161
Period size: 39 Copynumber: 2.6 Consensus size: 39
104729266 TTTTTCTCAT
104729276 AAACGCCGCTATTGCTTTACCTTTAGCAGCGTTTATAAA
1 AAACGCCGCTATTGCTTTACCTTTAGCAGCGTTTATAAA
** * *
104729315 AAATACCGCCATTGTTTTACCTTTAGCAGCGTTTATGAAA
1 AAACGCCGCTATTGCTTTACCTTTAGCAGCGTTTAT-AAA
104729355 AAACGCCGCTATTGCTTTACCTTT
1 AAACGCCGCTATTGCTTTACCTTT
104729379 TGTGGCGTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 32 0.58
40 23 0.42
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (39 bp):
AAACGCCGCTATTGCTTTACCTTTAGCAGCGTTTATAAA
Found at i:104733156 original size:16 final size:16
Alignment explanation
Indices: 104733135--104733167 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
104733125 ACTTGGAATG
*
104733135 CCTATATGCATTTTAT
1 CCTATATGCATTCTAT
104733151 CCTATATGCATTCTAT
1 CCTATATGCATTCTAT
104733167 C
1 C
104733168 TGGTGAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.45
Consensus pattern (16 bp):
CCTATATGCATTCTAT
Found at i:104744507 original size:16 final size:16
Alignment explanation
Indices: 104744486--104744521 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
104744476 TAACTCAGGA
104744486 GCTGCAGGAGTACATG
1 GCTGCAGGAGTACATG
104744502 GCTGCAGGAGTACATG
1 GCTGCAGGAGTACATG
104744518 GCTG
1 GCTG
104744522 TGATTTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.19, G:0.39, T:0.19
Consensus pattern (16 bp):
GCTGCAGGAGTACATG
Found at i:104745364 original size:120 final size:120
Alignment explanation
Indices: 104745238--104745527 Score: 494
Period size: 120 Copynumber: 2.4 Consensus size: 120
104745228 AATTATTTTA
* *
104745238 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTT-TCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTTATATTT
*
104745302 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
104745358 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTAAATTTATATTT
104745422 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
104745478 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
104745528 GTTTAAATAT
Statistics
Matches: 160, Mismatches: 7, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
119 7 0.04
120 150 0.94
121 3 0.02
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:104745420 original size:15 final size:14
Alignment explanation
Indices: 104745368--104745423 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 14
104745358 AATTTTATTA
104745368 AATTATA-TATTTT
1 AATTATATTATTTT
*
104745381 AATTATAATATATTT
1 AATTATATTAT-TTT
*
104745396 AATAATTATTATTTT
1 AATTA-TATTATTTT
104745411 AATT-TA-TATTTT
1 AATTATATTATTTT
104745423 A
1 A
104745424 CAGTATCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 7 0.19
13 9 0.24
14 3 0.08
15 13 0.35
16 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTATATTATTTT
Found at i:104745507 original size:18 final size:17
Alignment explanation
Indices: 104745479--104745513 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
104745469 ATTATTAAGA
*
104745479 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
104745496 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
104745514 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:104745629 original size:147 final size:149
Alignment explanation
Indices: 104745467--104745741 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
104745457 ATAAGAATAT
*
104745467 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
104745532 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
104745595 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
104745614 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
104745679 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
104745742 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:104745654 original size:18 final size:17
Alignment explanation
Indices: 104745626--104745660 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
104745616 ATTATTAAGA
*
104745626 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
104745643 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
104745661 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:104745871 original size:44 final size:45
Alignment explanation
Indices: 104745822--104745916 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
104745812 TTACACCTCT
* * *
104745822 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
104745866 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
104745911 ATTACA
1 ATTACA
104745917 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:104745916 original size:16 final size:16
Alignment explanation
Indices: 104745897--104745948 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
104745887 GATTTGCTAT
* * *
104745897 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
104745913 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
104745929 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
104745945 TACA
1 TACA
104745949 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:104750432 original size:7 final size:7
Alignment explanation
Indices: 104750420--104750451 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
104750410 TTTCATTTTG
104750420 TTAGGGT
1 TTAGGGT
104750427 TTAGGGT
1 TTAGGGT
104750434 TTAGGGT
1 TTAGGGT
104750441 TTAGGGT
1 TTAGGGT
104750448 TTAG
1 TTAG
104750452 AAGTGGAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.44
Consensus pattern (7 bp):
TTAGGGT
Found at i:104751219 original size:11 final size:11
Alignment explanation
Indices: 104751180--104751227 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
104751170 TTACTTTCGT
*
104751180 TTTTGCTTCTG
1 TTTTGCTTTTG
104751191 TTTT-CATTTTG
1 TTTTGC-TTTTG
104751202 TTCTTGCTTTTG
1 TT-TTGCTTTTG
104751214 TTTTGC-TTTG
1 TTTTGCTTTTG
104751224 TTTT
1 TTTT
104751228 TACTGCCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.27
11 14 0.42
12 9 0.27
13 1 0.03
ACGTcount: A:0.02, C:0.12, G:0.15, T:0.71
Consensus pattern (11 bp):
TTTTGCTTTTG
Found at i:104755657 original size:11 final size:11
Alignment explanation
Indices: 104755607--104755665 Score: 59
Period size: 12 Copynumber: 5.3 Consensus size: 11
104755597 GTTCAAACAG
*
104755607 TTTGCTTTCGTT
1 TTTGCTTTTG-T
*
104755619 TTTGCTTCTGT
1 TTTGCTTTTGT
104755630 TTT-CATTTTGT
1 TTTGC-TTTTGT
104755641 TCTTGCTTTTGT
1 T-TTGCTTTTGT
104755653 TTTGC-TTTGT
1 TTTGCTTTTGT
104755663 TTT
1 TTT
104755666 TGCTGCCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
10 9 0.22
11 14 0.34
12 17 0.41
13 1 0.02
ACGTcount: A:0.02, C:0.14, G:0.15, T:0.69
Consensus pattern (11 bp):
TTTGCTTTTGT
Found at i:104755666 original size:11 final size:11
Alignment explanation
Indices: 104755607--104755669 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
104755597 GTTCAAACAG
104755607 TTTGCTTTCGTT
1 TTTGCTTT-GTT
104755619 TTTGCTTCTGTT
1 TTTGCTT-TGTT
***
104755631 TTCATTTTGTT
1 TTTGCTTTGTT
*
104755642 CTTGCTTT-TGT
1 TTTGCTTTGT-T
104755653 TTTGCTTTGTT
1 TTTGCTTTGTT
104755664 TTTGCT
1 TTTGCT
104755670 GCCAAAACCC
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
10 1 0.03
11 23 0.57
12 15 0.38
13 1 0.03
ACGTcount: A:0.02, C:0.14, G:0.16, T:0.68
Consensus pattern (11 bp):
TTTGCTTTGTT
Found at i:104756511 original size:41 final size:41
Alignment explanation
Indices: 104756443--104756524 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 41
104756433 ACTTTTTTAA
* *
104756443 ATTAAATATTTTAGTCAATCTACTGTTA-TTTGTCATTAGAT
1 ATTAAATATCTTAGTCAATCTACTGTTAGTTT-CCATTAGAT
**
104756484 ATTAAATATCTTAGTCCCTCT-CTTGTTAGTTTCCATTAGAT
1 ATTAAATATCTTAGTCAATCTAC-TGTTAGTTTCCATTAGAT
104756525 GAGTGCCTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
40 1 0.03
41 31 0.89
42 3 0.09
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.48
Consensus pattern (41 bp):
ATTAAATATCTTAGTCAATCTACTGTTAGTTTCCATTAGAT
Found at i:104759007 original size:22 final size:21
Alignment explanation
Indices: 104758972--104759054 Score: 68
Period size: 18 Copynumber: 4.1 Consensus size: 21
104758962 AAAAGGTATC
* *
104758972 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
104758993 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
104759016 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
104759035 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
104759053 TA
1 TA
104759055 TATCATATCT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
18 15 0.28
19 11 0.20
21 3 0.06
22 15 0.28
23 10 0.19
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:104759015 original size:23 final size:22
Alignment explanation
Indices: 104758972--104759029 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
104758962 AAAAGGTATC
* *
104758972 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
104758993 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
104759016 TGCATATCATATCT
1 TACAAATCATATCT
104759030 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:104759062 original size:35 final size:35
Alignment explanation
Indices: 104759001--104759091 Score: 125
Period size: 35 Copynumber: 2.6 Consensus size: 35
104758991 ATTACAAAAT
104759001 CATATC-TTCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATTCTAAGATT--ATATCATATCTAAGATTG
104759037 CA-ATCATATCTAAGATTATATCATATCTAAGATTG
1 CATATCAT-TCTAAGATTATATCATATCTAAGATTG
*
104759072 CATATCATT-GAAGATTATAT
1 CATATCATTCTAAGATTATAT
104759092 TTCCATATGA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
34 10 0.20
35 24 0.47
36 8 0.16
37 9 0.18
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (35 bp):
CATATCATTCTAAGATTATATCATATCTAAGATTG
Found at i:104759087 original size:17 final size:19
Alignment explanation
Indices: 104759008--104759079 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
104758998 AATCATATCT
104759008 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
104759027 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
104759045 TCTAAGATT--ATATCATA
1 TCTAAGATTGCATATCATA
104759062 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
104759080 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.02
17 15 0.30
18 15 0.30
19 19 0.38
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:104759236 original size:21 final size:20
Alignment explanation
Indices: 104759198--104759237 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
104759188 TTGGACTTCG
**
104759198 TTTTTTTTTTGGGGTTATTA
1 TTTTTTTTTTGGACTTATTA
104759218 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
104759238 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.17, T:0.70
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:104759485 original size:45 final size:45
Alignment explanation
Indices: 104759430--104759659 Score: 239
Period size: 45 Copynumber: 5.1 Consensus size: 45
104759420 GGAAGGTGAT
* * *
104759430 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
104759475 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGTCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * *
104759520 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAAATACCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * * *
104759565 ATCTGTCATCTTGGATCTGCT-TCGGTGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGA-G-ATGCCAA
* *
104759610 ATCTGCTATGTCTTCGACCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
104759657 ATC
1 ATC
104759660 ATCTTGGATC
Statistics
Matches: 146, Mismatches: 33, Indels: 10
0.77 0.17 0.05
Matches are distributed among these distances:
43 4 0.03
44 6 0.04
45 106 0.73
46 1 0.01
47 18 0.12
48 7 0.05
49 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:104759614 original size:90 final size:91
Alignment explanation
Indices: 104759446--104759815 Score: 258
Period size: 78 Copynumber: 4.4 Consensus size: 91
104759436 TATCTTTGAT
* * * * *
104759446 CTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAG
1 CTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTGGATCTGCT-TCCGTCTAACACAG
* *
104759511 AGATGTCAAATCTG-T-TATCTCCGAT
65 AGAGGTCAAATCTGCTATATCTCCGAC
* * * * *
104759536 TTGCTCCCCGTCTAATACAGAAATACCAAATCTGTCATCTTGGATCTGCTTCGGTGTAAACACAT
1 CTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTGGATCTGCTTCCGTCT-AACACA-
* * *
104759601 GA-AGGTCAGATCTGCTATGTCTTCGAC
64 GAGAGGTCAAATCTGCTATATCTCCGAC
*
104759628 CTGCTCCCCGTCTAATACAGAGATGCCAAA----TCATCTTGGATCTGC-T---TC--A-A-TGA
1 CTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTGGATCTGCTTCCGTCTAACACAGA
* * * * *
104759681 -AGGTCCAATCTGTTATGTCTTCGAT
66 GAGGTCAAATCTGCTATATCTCCGAC
* *
104759706 CTGCTCCCCGTCTAATACAGAGATGCCGAA----TCATCTTGGATCTGC-T---TC--A-A-TGA
1 CTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTGGATCTGCTTCCGTCTAACACAGA
* * * * *
104759759 -AGGTCCAATCTGTTATGTCTTCGAT
66 GAGGTCAAATCTGCTATATCTCCGAC
104759784 CTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 CTGCTCCCCGTCTAATACAGAGATGCCAAATC
104759816 ATCTTGGATC
Statistics
Matches: 248, Mismatches: 26, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
78 129 0.52
80 1 0.00
81 1 0.00
84 1 0.00
87 1 0.00
88 15 0.06
89 4 0.02
90 59 0.24
91 3 0.01
92 34 0.14
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (91 bp):
CTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTGGATCTGCTTCCGTCTAACACAGA
GAGGTCAAATCTGCTATATCTCCGAC
Found at i:104759728 original size:78 final size:78
Alignment explanation
Indices: 104759599--104759841 Score: 434
Period size: 78 Copynumber: 3.1 Consensus size: 78
104759589 GTGTAAACAC
* *
104759599 ATGAAGGT-CAGATCTGCTATGTCTTCGACCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
104759663 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
*
104759677 ATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCGAATCATCT
1 ATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
104759742 TGGATCTGCTTCA
66 TGGATCTGCTTCA
104759755 ATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
104759820 TGGATCTTCTTCA
66 TGGATCTGCTTCA
104759833 ATGAAGGTC
1 ATGAAGGTC
104759842 AGATCTGCTA
Statistics
Matches: 159, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
78 157 0.99
79 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (78 bp):
ATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:104759848 original size:78 final size:78
Alignment explanation
Indices: 104759599--104759893 Score: 432
Period size: 78 Copynumber: 3.8 Consensus size: 78
104759589 GTGTAAACAC
*
104759599 ATGAAGGT-CAGATCTGCTATGTCTTCGACCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCCA-ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
104759663 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* *
104759677 ATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCGAATCATCT
1 ATGAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
104759742 TGGATCTGCTTCA
66 TGGATCTGCTTCA
*
104759755 ATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
104759820 TGGATCTTCTTCA
66 TGGATCTGCTTCA
* * ** * * * **
104759833 ATGAAGGT-CAGATCTGCTATATTTTTTATCTGCTCTCTGTCAAATATGGAGATGCCAAATC
1 ATGAAGGTCCA-ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
104759894 TGTTTCTTCG
Statistics
Matches: 200, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
77 2 0.01
78 196 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:104764056 original size:46 final size:46
Alignment explanation
Indices: 104764003--104764161 Score: 173
Period size: 46 Copynumber: 3.4 Consensus size: 46
104763993 ACCCGAGCTT
*
104764003 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTC
1 GTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTC
* * * * *
104764049 GTTGAGTTAAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCAAGCTC
1 GTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAA-T--G-TTCGAA-CTC
*
104764096 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTC
1 GTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTC
*
104764142 GTTGAGTTAAGTTCGAGTTC
1 GTTGAGTTAAGTCCGAGTTC
104764162 GTGAGATGTA
Statistics
Matches: 90, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.06
45 3 0.03
46 44 0.49
47 26 0.29
48 3 0.03
50 5 0.06
51 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (46 bp):
GTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTC
Found at i:104764103 original size:47 final size:47
Alignment explanation
Indices: 104764046--104764208 Score: 183
Period size: 47 Copynumber: 3.5 Consensus size: 47
104764036 AATGTTCGAA
104764046 CTCGTTGAGTTAAGTCCGAGTTCGTGAGATGTAACTAGGCATCCAAG
1 CTCGTTGAGTTAAGTCCGAGTTCGTGAGATGTAACTAGGCATCCAAG
* * * * * *
104764093 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G-TTCGAA-
1 CTCGTTGAGTTAAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCAAG
*
104764139 CTCGTTGAGTTAAGTTCGAGTTCGTGAGATGTAACTAGGCATCCAAG
1 CTCGTTGAGTTAAGTCCGAGTTCGTGAGATGTAACTAGGCATCCAAG
*
104764186 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTAAGTCCGAGTTC
104764209 ACTTATGGGC
Statistics
Matches: 92, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 25 0.27
47 47 0.51
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (47 bp):
CTCGTTGAGTTAAGTCCGAGTTCGTGAGATGTAACTAGGCATCCAAG
Found at i:104764162 original size:93 final size:93
Alignment explanation
Indices: 104763998--104764216 Score: 420
Period size: 93 Copynumber: 2.4 Consensus size: 93
104763988 TGGGCACCCG
*
104763998 AGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGTTAAGTCC
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGTTAAGTCC
104764063 GAGTTCGTGAGATGTAACTAGGCATCCA
66 GAGTTCGTGAGATGTAACTAGGCATCCA
*
104764091 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGTTAAGTTC
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGTTAAGTCC
104764156 GAGTTCGTGAGATGTAACTAGGCATCCA
66 GAGTTCGTGAGATGTAACTAGGCATCCA
104764184 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104764217 GCGGGTTACA
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 124 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (93 bp):
AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGTTAAGTCC
GAGTTCGTGAGATGTAACTAGGCATCCA
Found at i:104770399 original size:35 final size:35
Alignment explanation
Indices: 104770338--104770428 Score: 125
Period size: 35 Copynumber: 2.6 Consensus size: 35
104770328 ATTACAAAAT
104770338 CATATC-TTCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATTCTAAGATT--ATATCATATCTAAGATTG
104770374 CA-ATCATATCTAAGATTATATCATATCTAAGATTG
1 CATATCAT-TCTAAGATTATATCATATCTAAGATTG
*
104770409 CATATCATT-GAAGATTATAT
1 CATATCATTCTAAGATTATAT
104770429 TTCCATATGA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
34 10 0.20
35 24 0.47
36 8 0.16
37 9 0.18
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (35 bp):
CATATCATTCTAAGATTATATCATATCTAAGATTG
Found at i:104770424 original size:17 final size:19
Alignment explanation
Indices: 104770345--104770416 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
104770335 AATCATATCT
104770345 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
104770364 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
104770382 TCTAAGATT--ATATCATA
1 TCTAAGATTGCATATCATA
104770399 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
104770417 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.02
17 15 0.30
18 15 0.30
19 19 0.38
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:104771213 original size:8 final size:8
Alignment explanation
Indices: 104771200--104771242 Score: 86
Period size: 8 Copynumber: 5.4 Consensus size: 8
104771190 TTCAACCTCA
104771200 ACATTTAC
1 ACATTTAC
104771208 ACATTTAC
1 ACATTTAC
104771216 ACATTTAC
1 ACATTTAC
104771224 ACATTTAC
1 ACATTTAC
104771232 ACATTTAC
1 ACATTTAC
104771240 ACA
1 ACA
104771243 AATTGTGCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.35
Consensus pattern (8 bp):
ACATTTAC
Found at i:104779081 original size:17 final size:17
Alignment explanation
Indices: 104779053--104779098 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
104779043 AAATAGAAGA
104779053 TATTATTTTATTTAGTTT
1 TATTA-TTTATTTAGTTT
*
104779071 TATTATTTATTTATTTT
1 TATTATTTATTTAGTTT
104779088 TATT-TTTATTT
1 TATTATTTATTT
104779099 TATTAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 7 0.26
17 15 0.56
18 5 0.19
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (17 bp):
TATTATTTATTTAGTTT
Found at i:104789238 original size:17 final size:17
Alignment explanation
Indices: 104789210--104789255 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
104789200 AAATAGAAGA
104789210 TATTATTTTATTTAGTTT
1 TATTA-TTTATTTAGTTT
*
104789228 TATTATTTATTTATTTT
1 TATTATTTATTTAGTTT
104789245 TATT-TTTATTT
1 TATTATTTATTT
104789256 TATTAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 7 0.26
17 15 0.56
18 5 0.19
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (17 bp):
TATTATTTATTTAGTTT
Found at i:104794375 original size:27 final size:26
Alignment explanation
Indices: 104794338--104794424 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 26
104794328 ATATATATCT
*
104794338 TTTTAAATTTTTTTAAAAATTTTGAA
1 TTTTAAATTTTTTTAAATATTTTGAA
*
104794364 TTTTAAATTTTTTATAAATATTTTAAA
1 TTTTAAATTTTTT-TAAATATTTTGAA
*
104794391 TTTTAAAAATTATTTTAAATTATTTTGTAA
1 TTTT--AAATTTTTTTAAA-TATTTTG-AA
104794421 TTTT
1 TTTT
104794425 TATTAAGAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
26 13 0.25
27 15 0.29
28 4 0.08
29 14 0.27
30 6 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTTAAATTTTTTTAAATATTTTGAA
Found at i:104794404 original size:19 final size:18
Alignment explanation
Indices: 104794363--104794411 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
104794353 AAAATTTTGA
*
104794363 ATTTTAAATTTTTTATAAAT
1 ATTTTAAA--TTTTAAAAAT
104794383 ATTTTAAATTTTAAAAATT
1 ATTTTAAATTTTAAAAA-T
104794402 ATTTTAAATT
1 ATTTTAAATT
104794412 ATTTTGTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 8 0.30
19 11 0.41
20 8 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAAATTTTAAAAAT
Found at i:104804832 original size:29 final size:29
Alignment explanation
Indices: 104804790--104804848 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
104804780 AATTTATTTG
* *
104804790 CAAAATCTCATAAATTCTTAGAACATGCT
1 CAAAATCTAATAAATTCTTAAAACATGCT
104804819 CAAAATCTAATAAATTCTTAAAACATGCT
1 CAAAATCTAATAAATTCTTAAAACATGCT
104804848 C
1 C
104804849 TCCTTTAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (29 bp):
CAAAATCTAATAAATTCTTAAAACATGCT
Found at i:104805879 original size:16 final size:15
Alignment explanation
Indices: 104805840--104805878 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
104805830 CTTGATTTTT
104805840 TTAATTTTGTTCATA
1 TTAATTTTGTTCATA
104805855 TTAGATTTTGTTACA-A
1 TTA-ATTTTGTT-CATA
104805871 TTAATTTT
1 TTAATTTT
104805879 TATCATTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 8 0.36
16 12 0.55
17 2 0.09
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (15 bp):
TTAATTTTGTTCATA
Found at i:104806034 original size:44 final size:44
Alignment explanation
Indices: 104805971--104806057 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
104805961 CATGTCCCAC
*
104805971 ATAATTTATGGTTTATGGTATCAGATGAACATATCGCAAATGAT
1 ATAATTTATGGTTTATGGTATCAGATGAACATATCACAAATGAT
*
104806015 ATAATTTATGGTTTATGGTATTAGATGAACATATCACAAATGA
1 ATAATTTATGGTTTATGGTATCAGATGAACATATCACAAATGA
104806058 CTTAAAAAGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (44 bp):
ATAATTTATGGTTTATGGTATCAGATGAACATATCACAAATGAT
Found at i:104808481 original size:21 final size:21
Alignment explanation
Indices: 104808457--104808497 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
104808447 TAACGGGACC
104808457 GCTGATGTGGCAAGTTAACTA
1 GCTGATGTGGCAAGTTAACTA
*
104808478 GCTGATGTGGCCAGTTAACT
1 GCTGATGTGGCAAGTTAACT
104808498 TGCGACGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (21 bp):
GCTGATGTGGCAAGTTAACTA
Found at i:104808576 original size:3 final size:3
Alignment explanation
Indices: 104808570--104808637 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
104808560 CTTAATAACA
104808570 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
104808618 AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AA
104808638 ACCTAATTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:104809005 original size:38 final size:38
Alignment explanation
Indices: 104808954--104809029 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
104808944 AAAGTAATGA
104808954 CGTTAACTTTTTAATGTTTAATTTGAGTTTTAGAATTG
1 CGTTAACTTTTTAATGTTTAATTTGAGTTTTAGAATTG
104808992 CGTTAACTTTTTAATGTTTAATTTGAGTTTTAGAATTG
1 CGTTAACTTTTTAATGTTTAATTTGAGTTTTAGAATTG
104809030 ATTTAATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (38 bp):
CGTTAACTTTTTAATGTTTAATTTGAGTTTTAGAATTG
Found at i:104816352 original size:86 final size:86
Alignment explanation
Indices: 104816186--104816349 Score: 249
Period size: 85 Copynumber: 1.9 Consensus size: 86
104816176 TATATTGTTT
* *
104816186 TGATCAAGTTGCAATTATCCAAGTAAACAATTTGCTAGCTTCTCTTTTTCCCTAATTGGAGTTTA
1 TGATCAAGTTGCAATTATCCAAGTAAACAATTTGCAAGCTTCCCTTTTTCCCTAATTGGAGTTTA
*
104816251 TATTGTTTAGATTTGGATGAG
66 TATTATTTAGATTTGGATGAG
* * * * *
104816272 TGATCAAGTTGCAATTATCCTAGTAAAGAA-TTGCAAGTTTCCCTTTTTCCCTAGTTGTAGTTTA
1 TGATCAAGTTGCAATTATCCAAGTAAACAATTTGCAAGCTTCCCTTTTTCCCTAATTGGAGTTTA
104816336 TATTATTTAGATTT
66 TATTATTTAGATTT
104816350 TGGTGATTGG
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
85 42 0.60
86 28 0.40
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (86 bp):
TGATCAAGTTGCAATTATCCAAGTAAACAATTTGCAAGCTTCCCTTTTTCCCTAATTGGAGTTTA
TATTATTTAGATTTGGATGAG
Found at i:104816521 original size:14 final size:14
Alignment explanation
Indices: 104816502--104816540 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
104816492 TTGATTGGCA
104816502 GTAAAATGTTTTCT
1 GTAAAATGTTTTCT
*
104816516 GTAAAATGATTTCT
1 GTAAAATGTTTTCT
*
104816530 GGAAAAT-TTTT
1 GTAAAATGTTTT
104816541 TACTTTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 3 0.14
14 19 0.86
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.46
Consensus pattern (14 bp):
GTAAAATGTTTTCT
Found at i:104816553 original size:34 final size:36
Alignment explanation
Indices: 104816510--104816577 Score: 122
Period size: 34 Copynumber: 1.9 Consensus size: 36
104816500 CAGTAAAATG
104816510 TTTTCTGTAAAATGATTT-CTGGAAAAT-TTTTTAC
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTTAC
104816544 TTTTCTGTAAAATGATTTACTGGAAAATATTTTT
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTT
104816578 TAGTGTTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 18 0.56
35 9 0.28
36 5 0.16
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (36 bp):
TTTTCTGTAAAATGATTTACTGGAAAATATTTTTAC
Found at i:104816562 original size:20 final size:20
Alignment explanation
Indices: 104816525--104816564 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
104816515 TGTAAAATGA
**
104816525 TTTCTGGAAAATTTTTTACT
1 TTTCTGGAAAATGATTTACT
*
104816545 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
104816565 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.53
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:104816703 original size:18 final size:22
Alignment explanation
Indices: 104816661--104816704 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
104816651 TTGTTTTTAC
104816661 ATATATTAATAAATTTATATAT
1 ATATATTAATAAATTTATATAT
*
104816683 ATATATTAATAAATTTTTATAT
1 ATATATTAATAAATTTATATAT
104816705 TTTAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATATATTAATAAATTTATATAT
Found at i:104816709 original size:18 final size:20
Alignment explanation
Indices: 104816661--104816709 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
104816651 TTGTTTTTAC
*
104816661 ATATATTAATAAATTTATAT
1 ATATTTTAATAAATTTATAT
104816681 ATATATATTAATAAATTT-T-T
1 ATAT-T-TTAATAAATTTATAT
104816701 ATATTTTAA
1 ATATTTTAA
104816710 ATTATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 4 0.15
19 1 0.04
20 9 0.35
21 1 0.04
22 11 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATTTTAATAAATTTATAT
Found at i:104820061 original size:12 final size:12
Alignment explanation
Indices: 104820044--104820068 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104820034 GATGTGGTAG
104820044 TTGCACTATACA
1 TTGCACTATACA
104820056 TTGCACTATACA
1 TTGCACTATACA
104820068 T
1 T
104820069 CTTAACGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (12 bp):
TTGCACTATACA
Found at i:104829745 original size:19 final size:18
Alignment explanation
Indices: 104829721--104829756 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
104829711 CCAAAATTTT
*
104829721 ATTTTAATATTTTTTATAC
1 ATTTTAAT-TTTGTTATAC
104829740 ATTTTAATTTTGTTATA
1 ATTTTAATTTTGTTATA
104829757 AATACTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
ATTTTAATTTTGTTATAC
Found at i:104830355 original size:22 final size:22
Alignment explanation
Indices: 104830330--104830390 Score: 113
Period size: 22 Copynumber: 2.8 Consensus size: 22
104830320 CCGAATCAAG
*
104830330 GCCATCAATGCACTGTCAACAC
1 GCCATCAATGCGCTGTCAACAC
104830352 GCCATCAATGCGCTGTCAACAC
1 GCCATCAATGCGCTGTCAACAC
104830374 GCCATCAATGCGCTGTC
1 GCCATCAATGCGCTGTC
104830391 CAGAAACCTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.26, C:0.36, G:0.18, T:0.20
Consensus pattern (22 bp):
GCCATCAATGCGCTGTCAACAC
Found at i:104831619 original size:17 final size:18
Alignment explanation
Indices: 104831597--104831634 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
104831587 CTTTAATAAA
*
104831597 ATTCATTTTTTTTAC-AT
1 ATTCATATTTTTTACTAT
104831614 ATTCATATTTTTTACTAT
1 ATTCATATTTTTTACTAT
104831632 ATT
1 ATT
104831635 ATTATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTCATATTTTTTACTAT
Found at i:104831639 original size:3 final size:3
Alignment explanation
Indices: 104831631--104831735 Score: 71
Period size: 3 Copynumber: 35.0 Consensus size: 3
104831621 TTTTTTACTA
104831631 TAT TAT TA- TAT TAT T-T TA- TAT T-T TAT TAT ATAT T-T ATAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TAT
* *
104831673 TAT TACA TAT TATT TAT TAT GTAT TAT TTT TA- TAT ATAT TAT TAT T-T
1 TAT TA-T TAT TA-T TAT TAT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT
*
104831720 ATAT TAT TAT TTT TAT
1 -TAT TAT TAT TAT TAT
104831736 ATTTAAATAT
Statistics
Matches: 82, Mismatches: 6, Indels: 28
0.71 0.05 0.24
Matches are distributed among these distances:
2 12 0.15
3 54 0.66
4 16 0.20
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:104831651 original size:10 final size:10
Alignment explanation
Indices: 104831618--104831687 Score: 51
Period size: 10 Copynumber: 6.9 Consensus size: 10
104831608 TTACATATTC
104831618 ATATT-TTTT
1 ATATTATTTT
104831627 ACTA-TATTATT
1 A-TATTATT-TT
104831638 ATATTATTTT
1 ATATTATTTT
104831648 ATATT-TTATT
1 ATATTATT-TT
104831658 ATA-TA-TTT
1 ATATTATTTT
104831666 ATATTATTATT
1 ATATTATT-TT
104831677 ACATATTATTT
1 --ATATTATTT
104831688 ATTATGTATT
Statistics
Matches: 50, Mismatches: 0, Indels: 19
0.72 0.00 0.28
Matches are distributed among these distances:
8 5 0.10
9 8 0.16
10 19 0.38
11 9 0.18
12 1 0.02
13 8 0.16
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (10 bp):
ATATTATTTT
Found at i:104831725 original size:48 final size:50
Alignment explanation
Indices: 104831603--104831730 Score: 138
Period size: 48 Copynumber: 2.5 Consensus size: 50
104831593 TAAAATTCAT
* * *
104831603 TTTTTTTACATATTCATATT-TT-TTACTATATTATTATATTATTTTATA
1 TTTTATTATATATTTATATTATTATTACTATATTATTATATTATTTTATA
*
104831651 TTTTATTATATATTTATATTATTATTAC-ATATTATT-TATTATGTATTATT
1 TTTTATTATATATTTATATTATTATTACTATATTATTATATTAT-T-TTATA
104831701 TTTATATATATTATTATTTATATTATTATT
1 TTT-TAT-TA-TA-TATTTATATTATTATT
104831731 TTTATATTTA
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
48 23 0.34
49 11 0.16
50 11 0.16
51 3 0.04
52 2 0.03
53 2 0.03
54 16 0.24
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (50 bp):
TTTTATTATATATTTATATTATTATTACTATATTATTATATTATTTTATA
Found at i:104844080 original size:89 final size:89
Alignment explanation
Indices: 104843978--104844333 Score: 356
Period size: 89 Copynumber: 4.0 Consensus size: 89
104843968 GACGGAGAAC
*
104843978 AGATACATAACAGATCTAACCTTCAGATGATTTTACAGAAGCAGATCCAAGATGATTTGGCATCC
1 AGATACATAACAGATCTAACCTTCAGATGATTTCACAGAAGCAGATCCAAGATGATTTGGCATCC
* *
104844043 TTGTGTTCACAAGGAGCAAATTGA
66 TTGTGTTCACAAGGAACAAATCGA
*
104844067 AGATACATAACAGATCTAACCTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCC
1 AGATACATAACAGATCTAACCTTCAGATGATTTCACAGAAGCAGATCCAAGATGATTTGGCATCC
*
104844132 TTGTGTTTACAAGGAACAAATCGA
66 TTGTGTTCACAAGGAACAAATCGA
* * * * * * * *
104844156 AG--ACATAGCAGATTTGACTTTCGGATG-TTCCCACACCAAAGCAGATCCAAGATAACAGATCT
1 AGATACATAACAGATCTAACCTTCAGATGATT-TCACA--GAAGCAGATCCAAGAT----GATTT
** * * *
104844218 GGCAT-CTCCAT-TTC-GATGG-A-GAA-C--
59 GGCATCCT-TGTGTTCACAAGGAACAAATCGA
** * *
104844242 AGATACATTGCAGATCTAACCTTCAGATGATTTCACTGAAGTAGATCCAAGATGATTTGGCATCC
1 AGATACATAACAGATCTAACCTTCAGATGATTTCACAGAAGCAGATCCAAGATGATTTGGCATCC
*
104844307 TTGTGTTTACAAGGAACAAATCGA
66 TTGTGTTCACAAGGAACAAATCGA
104844331 AGA
1 AGA
104844334 CATAGCAGAT
Statistics
Matches: 212, Mismatches: 36, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
82 10 0.05
83 4 0.02
84 3 0.01
85 1 0.00
86 20 0.09
87 24 0.11
88 24 0.11
89 108 0.51
90 1 0.00
91 3 0.01
92 4 0.02
93 10 0.05
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (89 bp):
AGATACATAACAGATCTAACCTTCAGATGATTTCACAGAAGCAGATCCAAGATGATTTGGCATCC
TTGTGTTCACAAGGAACAAATCGA
Found at i:104844460 original size:86 final size:84
Alignment explanation
Indices: 104844193--104844461 Score: 221
Period size: 86 Copynumber: 3.1 Consensus size: 84
104844183 TTCCCACACC
* * *
104844193 AAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGATGGAGAACAGATACATTGCAGATC
1 AAAGCAGATCCAAGA-AACAGATCTGGCATCTTCATTTCGAAGGAG-ACAGATACATAGCAGATC
104844258 TAACCTTCAGATGATTTCACT
64 TAACCTTCAGATGATTTCACT
* * * * ** *
104844279 GAAGTAGATCCAAG--A-TGATTTGGCATCCTTGTGTTTAC-AAGGA-ACAAATCGAAGACATAG
1 AAAGCAGATCCAAGAAACAGATCTGGCAT-CTT-CATTT-CGAAGGAGAC--A--G-ATACATAG
* * * * *
104844339 CAGATTTGACTTTC-G-TG-TTTACGCC
58 CAGATCTAACCTTCAGATGATTT-CACT
*
104844364 AAAGCAGATCCAAGACAACAGATCTGGCATCTTCATTTCGACGGAGAGCAGATACATAGCAGATC
1 AAAGCAGATCCAAGA-AACAGATCTGGCATCTTCATTTCGAAGGAGA-CAGATACATAGCAGATC
104844429 TAACCTTCAGATGATTTCACT
64 TAACCTTCAGATGATTTCACT
104844450 AAAGCAGATCCA
1 AAAGCAGATCCA
104844462 TCCTTGTGTT
Statistics
Matches: 136, Mismatches: 28, Indels: 38
0.67 0.14 0.19
Matches are distributed among these distances:
82 11 0.08
83 3 0.02
84 29 0.21
85 19 0.14
86 31 0.23
87 28 0.21
88 5 0.04
89 10 0.07
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (84 bp):
AAAGCAGATCCAAGAAACAGATCTGGCATCTTCATTTCGAAGGAGACAGATACATAGCAGATCTA
ACCTTCAGATGATTTCACT
Found at i:104844461 original size:171 final size:174
Alignment explanation
Indices: 104844067--104844461 Score: 670
Period size: 175 Copynumber: 2.3 Consensus size: 174
104844057 AGCAAATTGA
*
104844067 AGATACATAACAGATCTAACCTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCC
1 AGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCC
104844132 TTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCCCACACCAAAG
66 TTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT-CCACACCAAAG
* *
104844197 CAGATCCAAGATAACAGATCTGGCATCTCCATTTCGATGGAGAAC
130 CAGATCCAAGACAACAGATCTGGCATCTCCATTTCGACGGAGAAC
* *
104844242 AGATACATTGCAGATCTAACCTTCAGATGATTTCACTGAAGTAGATCCAAGATGATTTGGCATCC
1 AGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCC
* *
104844307 TTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTC-G-TGTT-TACGCCAAAGC
66 TTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCCACACCAAAGC
* *
104844369 AGATCCAAGACAACAGATCTGGCATCTTCATTTCGACGGAGAGC
131 AGATCCAAGACAACAGATCTGGCATCTCCATTTCGACGGAGAAC
*
104844413 AGATACATAGCAGATCTAACCTTCAGATGATTTCACTAAAGCAGATCCA
1 AGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAGATCCA
104844462 TCCTTGTGTT
Statistics
Matches: 208, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
171 95 0.46
173 4 0.02
174 1 0.00
175 108 0.52
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (174 bp):
AGATACATAGCAGATCTAACCTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCC
TTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCCACACCAAAGC
AGATCCAAGACAACAGATCTGGCATCTCCATTTCGACGGAGAAC
Done.