Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 365 of 425
Found at i:112543369 original size:21 final size:22
Alignment explanation
Indices: 112543340--112543385 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
112543330 TATATATTTA
112543340 AAATGTTTTATAATATT-TTTTT
1 AAATGTTTTA-AATATTATTTTT
*
112543362 AAAT-TTTTAATTATTATTTTT
1 AAATGTTTTAAATATTATTTTT
112543383 AAA
1 AAA
112543386 AATATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 13 0.59
22 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
AAATGTTTTAAATATTATTTTT
Found at i:112543388 original size:23 final size:24
Alignment explanation
Indices: 112543300--112543393 Score: 76
Period size: 22 Copynumber: 4.1 Consensus size: 24
112543290 ACTTATTTAA
* *
112543300 TTTATATTATTAATTTTAAAAAAT
1 TTTATATTATTATTTTTAAAATAT
* *
112543324 TTGTA-A-TA-TATATTTAAAATGT
1 TT-TATATTATTATTTTTAAAATAT
*
112543346 TTTATAATATT-TTTTT-AAAT-T
1 TTTATATTATTATTTTTAAAATAT
112543367 TTTA-ATTATTATTTTTAAAAATAT
1 TTTATATTATTATTTTT-AAAATAT
112543391 TTT
1 TTT
112543394 TTAACTTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
20 5 0.09
21 12 0.21
22 17 0.30
23 12 0.21
24 8 0.14
25 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTATATTATTATTTTTAAAATAT
Found at i:112543478 original size:36 final size:35
Alignment explanation
Indices: 112543356--112543478 Score: 110
Period size: 36 Copynumber: 3.5 Consensus size: 35
112543346 TTTATAATAT
* ** *
112543356 TTTTTTAAATTTTTAATTATTATTTTTAAAAAT-A
1 TTTTTTAAAATTTTAAAAATTATTTTTAAAATTAA
* * * *
112543390 TTTTTT--AACTTTATATA-TATTTTTTGAAATTAA
1 TTTTTTAAAATTTTAAAAATTA-TTTTTAAAATTAA
*
112543423 TTATTTATAAATTTTAAAAATGTATTTTTAAAATTAA
1 TTTTTTA-AAATTTTAAAAAT-TATTTTTAAAATTAA
112543460 TTTTTTAAAATTTTAAAAA
1 TTTTTTAAAATTTTAAAAA
112543479 AATAATTATT
Statistics
Matches: 70, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
31 2 0.03
32 16 0.23
33 6 0.09
34 6 0.09
36 20 0.29
37 18 0.26
38 2 0.03
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.57
Consensus pattern (35 bp):
TTTTTTAAAATTTTAAAAATTATTTTTAAAATTAA
Found at i:112543827 original size:21 final size:23
Alignment explanation
Indices: 112543801--112543851 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
112543791 CTTATTATTA
* *
112543801 ATATTT-AAAAGTT-TGTAATGT
1 ATATTTGAAAAGTTCTATAATAT
*
112543822 ATATTTGAAATGTTCTATAATAT
1 ATATTTGAAAAGTTCTATAATAT
112543845 ATATTTG
1 ATATTTG
112543852 TTAAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.24
22 6 0.24
23 13 0.52
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (23 bp):
ATATTTGAAAAGTTCTATAATAT
Found at i:112544190 original size:10 final size:10
Alignment explanation
Indices: 112544173--112544205 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
112544163 AAATATTAAA
112544173 AAAT-ATTTT
1 AAATCATTTT
112544182 AAATCATTTT
1 AAATCATTTT
112544192 AAATCATTTT
1 AAATCATTTT
112544202 AAAT
1 AAAT
112544206 GTTTTATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.17
10 19 0.83
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (10 bp):
AAATCATTTT
Found at i:112544205 original size:29 final size:29
Alignment explanation
Indices: 112544133--112544195 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
112544123 AAATTCTATG
*
112544133 TAAAAT-TTAAAAAATATTTAAAATCATT
1 TAAAATATTAAAAAATATTTTAAATCATT
112544161 TAAAATATTAAAAAATATTTTAAATCATT
1 TAAAATATTAAAAAATATTTTAAATCATT
*
112544190 TTAAAT
1 TAAAAT
112544196 CATTTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
TAAAATATTAAAAAATATTTTAAATCATT
Found at i:112544224 original size:19 final size:19
Alignment explanation
Indices: 112544212--112544248 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
112544202 AAATGTTTTA
112544212 TAATA-TTAAAAATATATT
1 TAATATTTAAAAATATATT
112544230 TAATATTTAAAAA-ATATT
1 TAATATTTAAAAATATATT
112544248 T
1 T
112544249 TGAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATATTTAAAAATATATT
Found at i:112544232 original size:39 final size:39
Alignment explanation
Indices: 112544134--112544241 Score: 100
Period size: 39 Copynumber: 2.8 Consensus size: 39
112544124 AATTCTATGT
112544134 AAAAT-TTAAAAA-ATATTTAAAATCATTTAAAATATTAA
1 AAAATATTAAAAATATATTT-AAATCATTTAAAATATTAA
** * * **
112544172 AAAATATTTTAAATCAT-TTTAAATCATTTTAAATGTTTT
1 AAAATATTAAAAAT-ATATTTAAATCATTTAAAATATTAA
*
112544211 ATAATATTAAAAATATATTT-AAT-ATTTAAAA
1 AAAATATTAAAAATATATTTAAATCATTTAAAA
112544242 AATATTTTGA
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
37 7 0.12
38 10 0.18
39 34 0.61
40 3 0.05
41 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (39 bp):
AAAATATTAAAAATATATTTAAATCATTTAAAATATTAA
Found at i:112544265 original size:33 final size:34
Alignment explanation
Indices: 112544214--112544299 Score: 106
Period size: 33 Copynumber: 2.6 Consensus size: 34
112544204 ATGTTTTATA
*
112544214 ATATT-AAAAATATATTTAATA-TT-TAAAAAAT
1 ATATTAAAAAATATTTTTAATATTTATAAAAAAT
*
112544245 ATTTTGAAAAAATATTTTTAATATTTATAAAAAAT
1 ATATT-AAAAAATATTTTTAATATTTATAAAAAAT
* *
112544280 ATATTATAAAACATTTTTAA
1 ATATTAAAAAATATTTTTAA
112544300 AAAATACATT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
31 4 0.09
33 15 0.33
34 15 0.33
35 12 0.26
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (34 bp):
ATATTAAAAAATATTTTTAATATTTATAAAAAAT
Found at i:112544280 original size:13 final size:12
Alignment explanation
Indices: 112544231--112544305 Score: 61
Period size: 13 Copynumber: 6.3 Consensus size: 12
112544221 AAATATATTT
112544231 AATA-TTTAAAA
1 AATATTTTAAAA
112544242 AATATTTTGAAAA
1 AATATTTT-AAAA
*
112544255 AATATTTT---T
1 AATATTTTAAAA
112544264 AATATTTATAAAA
1 AATATTT-TAAAA
112544277 AATATATTATAAAA
1 AATAT-TT-TAAAA
*
112544291 CAT-TTTTAAAA
1 AATATTTTAAAA
112544302 AATA
1 AATA
112544306 CATTTCAAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
9 7 0.13
10 1 0.02
11 11 0.21
12 5 0.10
13 18 0.35
14 10 0.19
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (12 bp):
AATATTTTAAAA
Found at i:112546090 original size:46 final size:46
Alignment explanation
Indices: 112546040--112546215 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
112546030 TGGTTGAGCA
112546040 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
112546086 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
112546131 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
112546179 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
112546216 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 65 0.58
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:112546196 original size:93 final size:93
Alignment explanation
Indices: 112546037--112546207 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
112546027 GGATGGTTGA
* *
112546037 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
112546102 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
112546130 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
112546195 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
112546208 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:112552551 original size:29 final size:29
Alignment explanation
Indices: 112552518--112552600 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
112552508 GTGTCGAGAT
112552518 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
112552547 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
**
112552576 TGGCACTAAGTGTGCAAGCTGGAAA
1 TGGCACTAAGTGTGCGTGCTGGAAA
112552601 AAATACGGCA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:112559733 original size:29 final size:29
Alignment explanation
Indices: 112559700--112559782 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
112559690 GTGTCGAGAT
112559700 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
112559729 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
**
112559758 TGGCACTAAGTGTGCAAGCTGGAAA
1 TGGCACTAAGTGTGCGTGCTGGAAA
112559783 AAAATACGGC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:112563674 original size:46 final size:48
Alignment explanation
Indices: 112563623--112563753 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 48
112563613 ATGGTTGAGC
112563623 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAG
* * *
112563670 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA-G
*
112563715 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
112563754 GCGGGTTACA
Statistics
Matches: 70, Mismatches: 6, Indels: 13
0.79 0.07 0.15
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 29 0.41
47 28 0.40
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTAG
Found at i:112566536 original size:25 final size:26
Alignment explanation
Indices: 112566508--112566558 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
112566498 TTTATTTCAT
*
112566508 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAACATAA
* *
112566533 TAAATCAAATATATTTAAAAACATAA
1 TAAATAAAAAATATTTAAAAACATAA
112566559 AAACAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAACATAA
Found at i:112566550 original size:26 final size:24
Alignment explanation
Indices: 112566520--112566568 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
112566510 AATAAAAAAT
*
112566520 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
112566546 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
112566569 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:112566588 original size:21 final size:21
Alignment explanation
Indices: 112566539--112566597 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
112566529 ATAATAAATC
*
112566539 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
112566559 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
112566581 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
112566598 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:112568208 original size:30 final size:30
Alignment explanation
Indices: 112568152--112568274 Score: 156
Period size: 30 Copynumber: 4.1 Consensus size: 30
112568142 GGTCAAATGG
* * * *
112568152 ACTCGAACCGCCTATATCCAGGTGATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
*
112568182 ACTCAAACCACCCATGTCCGGGTGATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
* *
112568212 ACTCGAACCACCCATGTCTGGATGATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
* * *
112568242 ACTCGAACCATCTATGTCCGGGTTATATGA
1 ACTCGAACCACCCATGTCCGGGTGATATGA
112568272 ACT
1 ACT
112568275 GCTCTGGGAC
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 80 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (30 bp):
ACTCGAACCACCCATGTCCGGGTGATATGA
Found at i:112571296 original size:18 final size:18
Alignment explanation
Indices: 112571256--112571303 Score: 66
Period size: 16 Copynumber: 2.8 Consensus size: 18
112571246 TAATAAAAAA
*
112571256 TATATTT-AATATATATT
1 TATATTTAAATTTATATT
112571273 T-T-TTTAAATTTATATT
1 TATATTTAAATTTATATT
112571289 TATATTTAAATTTAT
1 TATATTTAAATTTAT
112571304 TGATAGTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 3 0.11
16 11 0.41
17 2 0.07
18 11 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATTTAAATTTATATT
Found at i:112571442 original size:21 final size:21
Alignment explanation
Indices: 112571414--112571457 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
112571404 TTAAAAAAAG
112571414 AATTT-AAAAATAATATT-TAA
1 AATTTAAAAAAT-ATATTATAA
112571434 AATTGTAAAAAATATATTATAA
1 AATT-TAAAAAATATATTATAA
112571456 AA
1 AA
112571458 CATTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.19
21 6 0.29
22 11 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AATTTAAAAAATATATTATAA
Found at i:112571614 original size:27 final size:28
Alignment explanation
Indices: 112571584--112571647 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 28
112571574 TTTAAAAAAA
* *
112571584 TATTTAAAATAA-TATGATTTCTTATAT-
1 TATTTAAAA-AATTATAATTTCTTAAATG
*
112571611 TA-TTAAAAAATTATAATTTTTTAAATG
1 TATTTAAAAAATTATAATTTCTTAAATG
112571638 TATTTAAAAA
1 TATTTAAAAA
112571648 TTGTATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 2 0.06
26 18 0.58
27 4 0.13
28 7 0.23
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (28 bp):
TATTTAAAAAATTATAATTTCTTAAATG
Found at i:112571649 original size:27 final size:26
Alignment explanation
Indices: 112571584--112571649 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
112571574 TTTAAAAAAA
* * *
112571584 TATTTAAAATAATATGATTTCTTATAT
1 TATTTAAAA-ATTATAATTTCTTAAAT
* *
112571611 TATTAAAAAATTATAATTTTTTAAAT
1 TATTTAAAAATTATAATTTCTTAAAT
112571637 GTATTTAAAAATT
1 -TATTTAAAAATT
112571650 GTATTTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 13 0.41
27 19 0.59
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (26 bp):
TATTTAAAAATTATAATTTCTTAAAT
Found at i:112572215 original size:23 final size:22
Alignment explanation
Indices: 112572126--112572216 Score: 62
Period size: 23 Copynumber: 4.1 Consensus size: 22
112572116 GTTAAAAAAT
*
112572126 ATTTTTAAAAATAATAAT-TAA
1 ATTTTTTAAAATAATAATATAA
* * *
112572147 AATATTTAAAA-AATATTATAAA
1 ATTTTTTAAAATAATAATAT-AA
** * *
112572169 ACATTTT-AAATATATATTACAA
1 ATTTTTTAAAATA-ATAATATAA
112572191 ATTTTTTAAAATTAATAATATAA
1 ATTTTTTAAAA-TAATAATATAA
112572214 ATT
1 ATT
112572217 AAATAAGCAA
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
20 5 0.10
21 12 0.23
22 14 0.27
23 19 0.37
24 2 0.04
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTTTTTAAAATAATAATATAA
Found at i:112572244 original size:36 final size:36
Alignment explanation
Indices: 112572204--112572276 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
112572194 TTTTAAAATT
*
112572204 AATAATAT-AAA-TTAAATAAGCAAAATAAATTAAGAA
1 AATAATATAAAACTTAAAAAAG-AAAA-AAATTAAGAA
*
112572240 AATAATATAAAACTTAAAAAAGGAAAAAATTAAGAA
1 AATAATATAAAACTTAAAAAAGAAAAAAATTAAGAA
112572276 A
1 A
112572277 GAGACAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 19 0.58
37 6 0.18
38 8 0.24
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.22
Consensus pattern (36 bp):
AATAATATAAAACTTAAAAAAGAAAAAAATTAAGAA
Found at i:112572249 original size:18 final size:18
Alignment explanation
Indices: 112572199--112572250 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
112572189 AAATTTTTTA
*
112572199 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
** *
112572217 AAATAAGCAAAATAAATT
1 AAATAAATAATATAAATT
112572235 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
112572251 ACTTAAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:112572306 original size:38 final size:39
Alignment explanation
Indices: 112572255--112572332 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 39
112572245 TATAAAACTT
* * * *
112572255 AAAAAAGGAAAAAATTAAGAAAG-AGACAAAATATAAGA
1 AAAAAAGGAAAAAAATAAAAAAGTAAAAAAAATATAAGA
*
112572293 AAAAAAGTAAAAAAATAAAAAAGTAAAAAAAATATAAGA
1 AAAAAAGGAAAAAAATAAAAAAGTAAAAAAAATATAAGA
112572332 A
1 A
112572333 CCTGACAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
38 20 0.59
39 14 0.41
ACGTcount: A:0.76, C:0.01, G:0.12, T:0.12
Consensus pattern (39 bp):
AAAAAAGGAAAAAAATAAAAAAGTAAAAAAAATATAAGA
Found at i:112572312 original size:7 final size:8
Alignment explanation
Indices: 112572293--112572322 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
112572283 AAATATAAGA
112572293 AAAAAAGT
1 AAAAAAGT
*
112572301 AAAAAAAT
1 AAAAAAGT
112572309 AAAAAAGT
1 AAAAAAGT
112572317 AAAAAA
1 AAAAAA
112572323 AATATAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (8 bp):
AAAAAAGT
Found at i:112572326 original size:17 final size:16
Alignment explanation
Indices: 112572293--112572323 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
112572283 AAATATAAGA
112572293 AAAAAAGTAAAAAAAT
1 AAAAAAGTAAAAAAAT
112572309 AAAAAAGTAAAAAAA
1 AAAAAAGTAAAAAAA
112572324 ATATAAGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAAAAGTAAAAAAAT
Found at i:112585941 original size:15 final size:15
Alignment explanation
Indices: 112585918--112585947 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
112585908 TTTTTTTTAA
112585918 TTTTAAATTTAAAAT
1 TTTTAAATTTAAAAT
*
112585933 TTTTGAATTTAAAAT
1 TTTTAAATTTAAAAT
112585948 AAATAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
TTTTAAATTTAAAAT
Found at i:112600283 original size:25 final size:26
Alignment explanation
Indices: 112600220--112600286 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 26
112600210 GAGAGAATAT
* * *
112600220 AAAACTTATGATATT-AAAATATTTC
1 AAAAATTATGAAATTAAAAAAATTTC
112600245 AAAAATATAT-AAATTAAAAAAATTT-
1 AAAAAT-TATGAAATTAAAAAAATTTC
*
112600270 AAAGATTATGAAATTAA
1 AAAAATTATGAAATTAA
112600287 GTGGCGCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
24 3 0.09
25 21 0.60
26 11 0.31
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.34
Consensus pattern (26 bp):
AAAAATTATGAAATTAAAAAAATTTC
Found at i:112602249 original size:30 final size:30
Alignment explanation
Indices: 112602205--112602267 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
112602195 ACTAAACAAG
* *
112602205 CAAATGCCTCTAAAATAATAGCAAAATTAA
1 CAAATGCCTCTAAAAAAATAACAAAATTAA
* *
112602235 CAAATGTCTTTAAAAAAATAACAAAATTAA
1 CAAATGCCTCTAAAAAAATAACAAAATTAA
112602265 CAA
1 CAA
112602268 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAAAAATAACAAAATTAA
Found at i:112603381 original size:8 final size:8
Alignment explanation
Indices: 112603368--112603406 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
112603358 GGCCTCTCCA
112603368 TTTTTTCT
1 TTTTTTCT
112603376 TTTTTTCTT
1 TTTTTTC-T
112603385 TTTTTTCT
1 TTTTTTCT
*
112603393 CTTTTTCT
1 TTTTTTCT
112603401 TTTTTT
1 TTTTTT
112603407 TTTCCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTCT
Found at i:112603390 original size:17 final size:17
Alignment explanation
Indices: 112603368--112603421 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
112603358 GGCCTCTCCA
*
112603368 TTTTTTCTTTTTTTCTT
1 TTTTTTCTCTTTTTCTT
112603385 TTTTTTCTCTTTTTCTT
1 TTTTTTCTCTTTTTCTT
*
112603402 TTTTTTTTCCTTTTT-TT
1 TTTTTTCT-CTTTTTCTT
112603419 TTT
1 TTT
112603422 GAAATAGAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
17 28 0.82
18 6 0.18
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (17 bp):
TTTTTTCTCTTTTTCTT
Found at i:112603393 original size:28 final size:29
Alignment explanation
Indices: 112603366--112603419 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
112603356 TTGGCCTCTC
112603366 CATTTT-TTCTTTTTTT-CTTTTTTTTCT
1 CATTTTCTTCTTTTTTTCCTTTTTTTTCT
* *
112603393 CTTTTTCTTTTTTTTTTCCTTTTTTTT
1 CATTTTCTTCTTTTTTTCCTTTTTTTT
112603420 TTGAAATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 9 0.39
29 9 0.39
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (29 bp):
CATTTTCTTCTTTTTTTCCTTTTTTTTCT
Found at i:112610238 original size:19 final size:16
Alignment explanation
Indices: 112610203--112610244 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
112610193 ATAATTTGTG
112610203 AAAAATAATATATAAT
1 AAAAATAATATATAAT
112610219 AAAAATAATA-AT-AT
1 AAAAATAATATATAAT
*
112610233 -GAAATAATATAT
1 AAAAATAATATAT
112610245 TGTTAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 8 0.33
14 4 0.17
15 2 0.08
16 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (16 bp):
AAAAATAATATATAAT
Found at i:112610794 original size:22 final size:21
Alignment explanation
Indices: 112610764--112610810 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
112610754 TACAAATTAA
112610764 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
112610786 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
112610807 ATCT
1 ATCT
112610811 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:112610816 original size:19 final size:19
Alignment explanation
Indices: 112610781--112610859 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
112610771 AGATTACAAG
112610781 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
112610802 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
112610819 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
112610838 ATCATATCTAAGATTGGAT
1 ATCATATCTAAGATTGCAT
112610857 ATC
1 ATC
112610860 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
17 17 0.31
19 29 0.53
20 1 0.02
21 8 0.15
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:112610836 original size:36 final size:38
Alignment explanation
Indices: 112610781--112610853 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 38
112610771 AGATTACAAG
112610781 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
112610819 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
112610854 GATATCCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 26 0.74
37 1 0.03
38 8 0.23
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:112610840 original size:14 final size:15
Alignment explanation
Indices: 112610803--112610840 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
112610793 AGATTGCATA
112610803 TCATATCTAAGATTG
1 TCATATCTAAGATTG
112610818 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
112610835 -CATATC
1 TCATATC
112610841 ATATCTAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:112610868 original size:36 final size:35
Alignment explanation
Indices: 112610784--112610869 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 35
112610774 TTACAAGATC
*
112610784 ATAT-CTTCAAGATTGCATATCATATCTAAGATTG
1 ATATCCTTAAAGATTGCATATCATATCTAAGATTG
* *
112610818 -TATCATATCTAAGATTGCATATCATATCTAAGATTGG
1 ATATCCT-T-AAAGATTGCATATCATATCTAAGATT-G
112610855 ATATCCTTAAAGATT
1 ATATCCTTAAAGATT
112610870 ATATTTTCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 3 0.07
34 1 0.02
35 1 0.02
36 31 0.72
37 2 0.05
38 5 0.12
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (35 bp):
ATATCCTTAAAGATTGCATATCATATCTAAGATTG
Found at i:112612367 original size:53 final size:52
Alignment explanation
Indices: 112612231--112612379 Score: 169
Period size: 52 Copynumber: 2.8 Consensus size: 52
112612221 ATGCGATTTA
* * * * **
112612231 TGATTCAGTATAAGACCATAGCCGGGCTATGGCATCAGTACAATGTGATTGG
1 TGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGTATGATGTGATTGG
*
112612283 TG-TTCCCGTATAAGACCATAGT-TGGGCTATGGCATCGGTGTGATGTGATAAT-G
1 TGATT-CCGTATAAGACCATA-TCTGGGCTATGGCATCGGTATGATGTGAT--TGG
*
112612336 TGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGAT
1 TGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGTATGAT
112612380 ATGTGATCAG
Statistics
Matches: 82, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
51 2 0.02
52 39 0.48
53 38 0.46
54 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (52 bp):
TGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGTATGATGTGATTGG
Found at i:112612398 original size:46 final size:52
Alignment explanation
Indices: 112612290--112612400 Score: 128
Period size: 53 Copynumber: 2.2 Consensus size: 52
112612280 TGGTGTTCCC
* *
112612290 GTATAAGACCATAGTTGGGCTATGGCATCGGTGTGATGTGATAATGTGATTCC
1 GTATAAGACCATAGTTGGGATATGGCATCGGTGTGA-GTGATAATGTGATTCA
112612343 GTATAAGACCATA-TCTGGGATATGGCATC-G-GT-A-TGAT-ATGTGA-TCA
1 GTATAAGACCATAGT-TGGGATATGGCATCGGTGTGAGTGATAATGTGATTCA
*
112612389 GTGTAAGACCAT
1 GTATAAGACCAT
112612401 GACCGGGCTA
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
46 13 0.24
47 6 0.11
48 4 0.07
50 1 0.02
51 2 0.04
52 2 0.04
53 26 0.48
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (52 bp):
GTATAAGACCATAGTTGGGATATGGCATCGGTGTGAGTGATAATGTGATTCA
Found at i:112612413 original size:46 final size:48
Alignment explanation
Indices: 112612231--112612420 Score: 113
Period size: 52 Copynumber: 3.8 Consensus size: 48
112612221 ATGCGATTTA
* * * *
112612231 TGATTCAGTATAAGACCATAGCCGGGCTATGGCATCAGTACAATG-TGATTGG
1 TGATTCAGTATAAGACCATATCCGGGATATGGCATCGGT---ATGAT-AAT-G
* * *
112612283 TG-TTCCCGTATAAGACCATAGT-TGGGCTATGGCATCGGTGTGATGTGATAATG
1 TGATT-CAGTATAAGACCATA-TCCGGGATATGGCATC-G-GT-A--TGATAATG
* *
112612336 TGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTATGAT-ATG
1 TGATTCAGTATAAGACCATATCCGGGATATGGCATCGGTATGATAATG
* * *
112612383 TGA-TCAGTGTAAGACCATGA-CCGGGCTATGGCTTCGGT
1 TGATTCAGTATAAGACCAT-ATCCGGGATATGGCATCGGT
112612421 GTGTGATGTG
Statistics
Matches: 116, Mismatches: 12, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
46 28 0.24
47 7 0.06
48 4 0.03
50 1 0.01
51 4 0.03
52 32 0.28
53 31 0.27
54 8 0.07
55 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (48 bp):
TGATTCAGTATAAGACCATATCCGGGATATGGCATCGGTATGATAATG
Found at i:112614063 original size:2 final size:2
Alignment explanation
Indices: 112614056--112614095 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
112614046 CTTTTCTTTG
112614056 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
112614096 GTTGGTGAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112617541 original size:5 final size:5
Alignment explanation
Indices: 112617518--112617556 Score: 60
Period size: 5 Copynumber: 7.4 Consensus size: 5
112617508 AGTATTCCAA
112617518 TTTAT TATTAT TATTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT T-TTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TT
112617557 ATAAATTTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 22 0.67
6 11 0.33
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:112619317 original size:30 final size:30
Alignment explanation
Indices: 112619263--112619351 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 30
112619253 TGAATATACG
* * *
112619263 TATTATATATTTTATAATTATTCATATTGT
1 TATTATATATTATATATTTTTTCATATTGT
* * *
112619293 TATTATCTATTATATATTTTTTCATGTATAT
1 TATTATATATTATATATTTTTTCATAT-TGT
*
112619324 TATTATGTA-TAT-TATTATTTTCATATTG
1 TATTATATATTATATATT-TTTTCATATTG
112619352 AATTGATAGT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 5 0.10
30 33 0.69
31 10 0.21
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (30 bp):
TATTATATATTATATATTTTTTCATATTGT
Found at i:112619333 original size:12 final size:12
Alignment explanation
Indices: 112619316--112619341 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
112619306 ATATTTTTTC
112619316 ATGTATATTATT
1 ATGTATATTATT
112619328 ATGTATATTATT
1 ATGTATATTATT
112619340 AT
1 AT
112619342 TTTCATATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (12 bp):
ATGTATATTATT
Found at i:112631650 original size:205 final size:205
Alignment explanation
Indices: 112631289--112631872 Score: 956
Period size: 205 Copynumber: 2.8 Consensus size: 205
112631279 TAGGCCGCAG
**
112631289 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
*
112631354 CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGAAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
*
112631419 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCACTTCGACGG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGG
112631484 GGAGCAGATA
196 GGAGCAGATA
* *
112631494 CATAGCAGATCTCACCTTCAGATGTTTATACTAAAGGAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
112631559 CTTACAAGAAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGAAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
* * *
112631624 AAGATGATTTGGCGTCTCTATATTGTCAGAGAACAAATCGAAGTCTGGTATCTCCACTTCGACGG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGG
112631689 GGAGCAGATA
196 GGAGCAGATA
* * * *
112631699 CATAGCAGATCTCACCTTTAGATAATTT-CACTGAAGCAAGATCCAAGATGATTTGGCATTCTTG
1 CATAGCAGATCTCACCTTCAGAT-GTTTATACTGAAG-AAGATCCAAGATGATTTGGCATCCTTG
* ** * *
112631763 TACTTACAAGGAA-TAAATCGAAGACATAGCTAATTTGGCTTTCACGTGCTTACGATGAAGCAAA
64 TGCTTACAA-GAAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAA
*
112631827 TCTAAGATGATTTGGCATCTCTGTATTATCAGAGAACAAATCGAAG
128 TCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
112631873 AAGCAGATTT
Statistics
Matches: 353, Mismatches: 23, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
205 224 0.63
206 126 0.36
207 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGAAGATCCAAGATGATTTGGCATCCTTGTG
CTTACAAGAAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
AAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGG
GGAGCAGATA
Found at i:112633576 original size:30 final size:29
Alignment explanation
Indices: 112633535--112633623 Score: 88
Period size: 30 Copynumber: 3.0 Consensus size: 29
112633525 TGAATATACG
112633535 TATTATATATTTTATAATTATTCATATTGT
1 TATTATATATTTTATAATT-TTCATATTGT
* * * *
112633565 TATTATCTATTTTATATTTTTTCATGTATAT
1 TATTATATATTTTATA-ATTTTCATAT-TGT
* * *
112633596 TATTATGTATATTATTATTTTCATATTG
1 TATTATATATTTTATAATTTTCATATTG
112633624 AATTGATAGT
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
29 1 0.02
30 29 0.62
31 17 0.36
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (29 bp):
TATTATATATTTTATAATTTTCATATTGT
Found at i:112633605 original size:12 final size:12
Alignment explanation
Indices: 112633588--112633613 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
112633578 ATATTTTTTC
112633588 ATGTATATTATT
1 ATGTATATTATT
112633600 ATGTATATTATT
1 ATGTATATTATT
112633612 AT
1 AT
112633614 TTTCATATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (12 bp):
ATGTATATTATT
Found at i:112635240 original size:2 final size:2
Alignment explanation
Indices: 112635233--112635257 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
112635223 ATCATTCGAT
112635233 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
112635258 CATTCTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:112635564 original size:45 final size:45
Alignment explanation
Indices: 112635463--112635566 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
112635453 GTAGCAGTAG
** * *
112635463 CAGTAACAATAACAGTATTCAACACACAAAGTGCTGAATCTGTAA
1 CAGTAACGGTAACAATATTCAACACACAAAGTGCTGAATCGGTAA
* *
112635508 CAGTAACGGTAACAATATTCGACACACAAAGTG-TCGGATCGGTAA
1 CAGTAACGGTAACAATATTCAACACACAAAGTGCT-GAATCGGTAA
*
112635553 CAGTAATGGTAACA
1 CAGTAACGGTAACA
112635567 GTAACAGTAG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 1 0.02
45 50 0.98
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.21
Consensus pattern (45 bp):
CAGTAACGGTAACAATATTCAACACACAAAGTGCTGAATCGGTAA
Found at i:112642467 original size:2 final size:2
Alignment explanation
Indices: 112642460--112642496 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
112642450 TCATTCGTAT
112642460 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
112642497 TATTTCTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:112642748 original size:45 final size:44
Alignment explanation
Indices: 112642698--112642802 Score: 158
Period size: 45 Copynumber: 2.4 Consensus size: 44
112642688 GTAGCAGTAG
*
112642698 AGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAAC
1 AGTAACGGTAACAGTATTCAACACACAAAGTGTC-GAATC-GTAAC
* *
112642743 AGTAACGGTAACAATATTCGACACACAAAGTGTCGAATCGTAAC
1 AGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGTAAC
112642787 AGTAACGGTAACAGTA
1 AGTAACGGTAACAGTA
112642803 ACAGTAGTCG
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
44 20 0.36
45 34 0.62
46 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (44 bp):
AGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGTAAC
Found at i:112650528 original size:26 final size:26
Alignment explanation
Indices: 112650497--112650552 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
112650487 TGAAATGCCC
112650497 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
112650523 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
112650549 ATCA
1 ATCA
112650553 ATTTGTACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:112655424 original size:12 final size:12
Alignment explanation
Indices: 112655407--112655437 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
112655397 AGTACTACCT
112655407 CGGCCTCGACCA
1 CGGCCTCGACCA
112655419 CGGCCTCGACCA
1 CGGCCTCGACCA
112655431 CGGCCTC
1 CGGCCTC
112655438 TTCCCCGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:112659930 original size:26 final size:26
Alignment explanation
Indices: 112659899--112660006 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
112659889 TGAAATGCCC
*
112659899 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
112659925 ATCATGGAACAATTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
112659951 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
112659977 ATCCTGGAGCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
112660003 ATCA
1 ATCA
112660007 ATTTGTACCT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:112662302 original size:43 final size:43
Alignment explanation
Indices: 112662238--112662474 Score: 242
Period size: 43 Copynumber: 5.5 Consensus size: 43
112662228 GTTTATGAAA
* *
112662238 AAAAATGCCGCTAAAGGTCATGATCTTTAGCGGCGCTTTTCCC
1 AAAAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
** * *
112662281 AAAAATGCTACAAAAGATCATGACCTTTAGCGGTGC-TTTCCC
1 AAAAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
* * * *
112662323 AAAAATGCCGTTAAAGATCATGACCTTTAGCGACGTTTTTACC
1 AAAAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
* * * **
112662366 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATC
1 AAAAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
* * * * * *
112662409 ACAAACGCCGCTAAAGAACATGACTTTTAGCAGCGCTTTTCTC
1 AAAAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
* * * *
112662452 ACAAACGCCACTAAAAATCATGA
1 AAAAATGCCGCTAAAGATCATGA
112662475 TTTTTTAAAA
Statistics
Matches: 166, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
42 35 0.21
43 131 0.79
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
AAAAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCC
Found at i:112662338 original size:85 final size:85
Alignment explanation
Indices: 112662238--112662467 Score: 230
Period size: 85 Copynumber: 2.7 Consensus size: 85
112662228 GTTTATGAAA
* * * * * * *
112662238 AAAAATGCCGCTAAAGGTCATGATCTTTAGCGGCGCTTTTCCCAAAAATGCTACAAAAGATCATG
1 AAAAATGCCGCTAAAGATCATGACCTTTAGCGACGCTTTTACCAAAAACGCCACAAAAGAACATG
*
112662303 ACCTTTAGCGGTGCTTTCCC
66 ACCTTTAGCGGCGCTTTCCC
* * * * *
112662323 AAAAATGCCGTTAAAGATCATGACCTTTAGCGACGTTTTTACCACAAACGCCGCTAAAGAACATG
1 AAAAATGCCGCTAAAGATCATGACCTTTAGCGACGCTTTTACCAAAAACGCCACAAAAGAACATG
**
112662388 ACCTTTAGCGGCGCTTTTATC
66 ACCTTTAGCGGCGC-TTTCCC
* * * * *
112662409 ACAAACGCCGCTAAAGAACATGACTTTTAGC-AGCGCTTTT-CTCACAAACGCCACTAAAA
1 AAAAATGCCGCTAAAGATCATGACCTTTAGCGA-CGCTTTTAC-CAAAAACGCCAC-AAAA
112662468 ATCATGATTT
Statistics
Matches: 118, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
85 68 0.58
86 47 0.40
87 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (85 bp):
AAAAATGCCGCTAAAGATCATGACCTTTAGCGACGCTTTTACCAAAAACGCCACAAAAGAACATG
ACCTTTAGCGGCGCTTTCCC
Found at i:112662506 original size:19 final size:22
Alignment explanation
Indices: 112662491--112662538 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
112662481 AAAAAATTAT
112662491 TTTATTT-TA-ATTAAATAATA
1 TTTATTTCTATATTAAATAATA
*
112662511 TTTATTTCTATATTAAATATTA
1 TTTATTTCTATATTAAATAATA
112662533 TATTAT
1 T-TTAT
112662539 GTTTAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 2 0.08
22 11 0.46
23 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTATTTCTATATTAAATAATA
Found at i:112664005 original size:15 final size:16
Alignment explanation
Indices: 112663979--112664009 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
112663969 TCTCTCTTAC
112663979 TTTTAGATCATATATA
1 TTTTAGATCATATATA
112663995 TTTTA-ATCATATATA
1 TTTTAGATCATATATA
112664010 AGACAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:112666519 original size:3 final size:3
Alignment explanation
Indices: 112666511--112666560 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
112666501 ACAAAAAGAA
112666511 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
112666559 AA
1 AA
112666561 AGCTAAAGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:112667473 original size:40 final size:40
Alignment explanation
Indices: 112667359--112667457 Score: 162
Period size: 40 Copynumber: 2.5 Consensus size: 40
112667349 TTTTTGTAGT
*
112667359 ATTTTTATCATAAACACCGTTATTGTTTGCCTTTTGTGGC
1 ATTTTTATCATAAACACCGTTATTGTTTGCCTTTTGCGGC
*
112667399 ATTTTTATCATAAACGCCGTTATTGTTTGCCTTTTGCGGC
1 ATTTTTATCATAAACACCGTTATTGTTTGCCTTTTGCGGC
* *
112667439 GTTTTTATCATAAATACCG
1 ATTTTTATCATAAACACCG
112667458 CTAATTCTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.45
Consensus pattern (40 bp):
ATTTTTATCATAAACACCGTTATTGTTTGCCTTTTGCGGC
Found at i:112667554 original size:20 final size:20
Alignment explanation
Indices: 112667529--112667575 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
112667519 AATAAATATT
* *
112667529 TTTAAAAAATTTATG-TAATA
1 TTTAAAAAAATTA-GATAAAA
112667549 TTTAAAAAAATTAGATAAAA
1 TTTAAAAAAATTAGATAAAA
112667569 TTTAAAA
1 TTTAAAA
112667576 TTTTTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (20 bp):
TTTAAAAAAATTAGATAAAA
Found at i:112667844 original size:8 final size:7
Alignment explanation
Indices: 112667826--112667924 Score: 58
Period size: 7 Copynumber: 13.7 Consensus size: 7
112667816 ACTAATTAAT
112667826 CTAAACC
1 CTAAACC
112667833 CTAAACCC
1 CTAAA-CC
112667841 CT-AACTC
1 CTAAAC-C
**
112667848 CTATCCC
1 CTAAACC
112667855 CATAAACC
1 C-TAAACC
*
112667863 CTAAATC
1 CTAAACC
*
112667870 ATACAA-C
1 CTA-AACC
*
112667877 ATAAACC
1 CTAAACC
112667884 CTAAACC
1 CTAAACC
*
112667891 CTTAACC
1 CTAAACC
*
112667898 CTTAACC
1 CTAAACC
*
112667905 CTTAACC
1 CTAAACC
*
112667912 CTTAACAC
1 CTAAAC-C
112667920 CTAAA
1 CTAAA
112667925 TGTTAAATCC
Statistics
Matches: 76, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
6 3 0.04
7 56 0.74
8 17 0.22
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:112667904 original size:21 final size:21
Alignment explanation
Indices: 112667880--112667954 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
112667870 ATACAACATA
112667880 AACCCTAAACCCTTAACCCTT
1 AACCCTAAACCCTTAACCCTT
* *
112667901 AACCCTTAACCCTTAACACCTA
1 AACCCTAAACCCTTAAC-CCTT
*** *
112667923 AATGTTAAATCC-TAACCCTT
1 AACCCTAAACCCTTAACCCTT
112667943 AACCCATAAACC
1 AACCC-TAAACC
112667955 GTAATTCCAA
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
20 5 0.12
21 25 0.62
22 10 0.25
ACGTcount: A:0.37, C:0.37, G:0.01, T:0.24
Consensus pattern (21 bp):
AACCCTAAACCCTTAACCCTT
Found at i:112667914 original size:14 final size:14
Alignment explanation
Indices: 112667880--112667917 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
112667870 ATACAACATA
*
112667880 AACCCTAAACCCTT
1 AACCCTTAACCCTT
112667894 AACCCTTAACCCTT
1 AACCCTTAACCCTT
112667908 AACCCTTAAC
1 AACCCTTAAC
112667918 ACCTAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.24
Consensus pattern (14 bp):
AACCCTTAACCCTT
Found at i:112668023 original size:14 final size:14
Alignment explanation
Indices: 112668004--112668057 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
112667994 AATAGTAACT
*
112668004 CCTAAACCTTAAAC
1 CCTAAACCATAAAC
*
112668018 CCTAAACCATATAC
1 CCTAAACCATAAAC
* *
112668032 CCTAAGCCATAAAT
1 CCTAAACCATAAAC
*
112668046 CCTAAACTATAA
1 CCTAAACCATAA
112668058 TGATAATTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.44, C:0.31, G:0.02, T:0.22
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:112668538 original size:40 final size:39
Alignment explanation
Indices: 112668494--112668620 Score: 164
Period size: 40 Copynumber: 3.2 Consensus size: 39
112668484 TTTTATGGCA
* * * *
112668494 TTTTTTAAAAAGCGCTGCTAATGGTCGACCTATAGCTGCC
1 TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGC-GCG
*
112668534 TTTTTGAAAAAGCGCCGCTAATGCTCGATCTATAGCGACG
1 TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCG-CG
* *
112668574 TTTTTCAAAAAGCGCCGCTAATGCTTGATCTATAGCGGCG
1 TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGC-GCG
112668614 TTTTTTA
1 TTTTTTA
112668621 TCCAAACGTC
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.01
40 75 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (39 bp):
TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCGCG
Found at i:112675667 original size:15 final size:16
Alignment explanation
Indices: 112675637--112675675 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
112675627 GGCAATTTTG
112675637 TAAA-TAAATGTAAGT
1 TAAATTAAATGTAAGT
*
112675652 TTAATTAAAT-TAAGT
1 TAAATTAAATGTAAGT
112675667 TAAATTAAA
1 TAAATTAAA
112675676 GAATGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (16 bp):
TAAATTAAATGTAAGT
Found at i:112678034 original size:43 final size:43
Alignment explanation
Indices: 112677987--112678093 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
112677977 TCAACGCTAC
* * * *
112677987 TGTCCCAAACAGGGTCTTACACGAAATC-GATTAACAATGCCAA
1 TGTCCCAGACATGGTCTTACACGAAATCTCAAT-ACAATGCCAA
* *
112678030 TGTCCCAGACATGGTCTTACACGTAATCTCAATACAATGTCAA
1 TGTCCCAGACATGGTCTTACACGAAATCTCAATACAATGCCAA
*
112678073 TGTCCCAGATATGGTCTTACA
1 TGTCCCAGACATGGTCTTACA
112678094 TGTAATCACA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 54 0.96
44 2 0.04
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACGAAATCTCAATACAATGCCAA
Found at i:112679600 original size:21 final size:21
Alignment explanation
Indices: 112679574--112679616 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
112679564 ATTGGGTGAA
112679574 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
*
112679595 TCAGCTTTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
112679616 T
1 T
112679617 GGCTTATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:112686334 original size:25 final size:28
Alignment explanation
Indices: 112686275--112686336 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 28
112686265 TTACTTAATG
*
112686275 TAGAAAATATTAAATTAATTTATTTTAT
1 TAGAAAATATGAAATTAATTTATTTTAT
*
112686303 TAAAAAAT-TGAAA-TAA-TTATTATT-T
1 TAGAAAATATGAAATTAATTTATT-TTAT
112686328 TAGAAAATA
1 TAGAAAATA
112686337 ATATATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 13 0.45
26 5 0.17
27 4 0.14
28 7 0.24
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.44
Consensus pattern (28 bp):
TAGAAAATATGAAATTAATTTATTTTAT
Found at i:112686334 original size:26 final size:28
Alignment explanation
Indices: 112686275--112686336 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 28
112686265 TTACTTAATG
112686275 TAGAAAATATTAAATTAATTTATTTTAT
1 TAGAAAATATTAAATTAATTTATTTTAT
112686303 TA-AAAA-ATTGAAA-TAA-TTATTATT-T
1 TAGAAAATATT-AAATTAATTTATT-TTAT
112686328 TAGAAAATA
1 TAGAAAATA
112686337 ATATATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
25 8 0.27
26 12 0.40
27 8 0.27
28 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.44
Consensus pattern (28 bp):
TAGAAAATATTAAATTAATTTATTTTAT
Found at i:112689147 original size:18 final size:18
Alignment explanation
Indices: 112689111--112689146 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
112689101 AGTTTTTTTT
*
112689111 TTTTTTATATATTTAAAA
1 TTTTTTATATATATAAAA
112689129 TTTTTTATATATCATAAA
1 TTTTTTATATAT-ATAAA
112689147 TCAATAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTTTATATATATAAAA
Found at i:112691169 original size:18 final size:18
Alignment explanation
Indices: 112691146--112691180 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
112691136 TTGTCTTCAC
*
112691146 TATCGATACCAAAAATGT
1 TATCGATACAAAAAATGT
112691164 TATCGATACAAAAAATG
1 TATCGATACAAAAAATG
112691181 CATTCTAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (18 bp):
TATCGATACAAAAAATGT
Found at i:112692204 original size:22 final size:22
Alignment explanation
Indices: 112692128--112692204 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
112692118 AATAGAGCAA
*
112692128 TAAGCATCGAAGTGCAAATCAC
1 TAAGCATCGAAGTGCAAAACAC
* *
112692150 TAAGCA-CTAAAGTGCAAAACAG
1 TAAGCATC-GAAGTGCAAAACAC
* *
112692172 TAGGCACCGAAGTGCAAAACGA-
1 TAAGCATCGAAGTGCAAAAC-AC
112692194 TAAGCATCGAA
1 TAAGCATCGAA
112692205 TGCGAGACAG
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 1 0.02
22 42 0.93
23 2 0.04
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.14
Consensus pattern (22 bp):
TAAGCATCGAAGTGCAAAACAC
Found at i:112692779 original size:19 final size:20
Alignment explanation
Indices: 112692732--112692780 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
112692722 TACAATATTT
*
112692732 ATATATTCTTATATTTTTCA
1 ATATATTCTTATATTTTCCA
* *
112692752 CTATCTTCTT-TATTTTCCA
1 ATATATTCTTATATTTTCCA
*
112692771 ATATTTTCTT
1 ATATATTCTT
112692781 GTAAACTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.22, C:0.16, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATATTCTTATATTTTCCA
Found at i:112693386 original size:26 final size:26
Alignment explanation
Indices: 112693349--112693484 Score: 245
Period size: 26 Copynumber: 5.2 Consensus size: 26
112693339 TGATACAAAT
* *
112693349 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
112693375 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
112693401 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
112693427 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
112693453 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
112693479 TGATAA
1 TGATAA
112693485 GAATATCATG
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:112697015 original size:14 final size:14
Alignment explanation
Indices: 112696993--112697031 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
112696983 CTAGAAAAAT
*
112696993 AAATCATTTTCCAG
1 AAATTATTTTCCAG
*
112697007 AAATTATTTTCCGG
1 AAATTATTTTCCAG
*
112697021 AAGTTATTTTC
1 AAATTATTTTC
112697032 AATTAAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (14 bp):
AAATTATTTTCCAG
Found at i:112698324 original size:25 final size:25
Alignment explanation
Indices: 112698296--112698344 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
112698286 TTGGCTTAAC
*
112698296 ATTTACTAAGCAATATCGAATATTT
1 ATTTACTAAGCAATATCAAATATTT
* *
112698321 ATTTATTAGGCAATATCAAATATT
1 ATTTACTAAGCAATATCAAATATT
112698345 CAAATTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (25 bp):
ATTTACTAAGCAATATCAAATATTT
Found at i:112699200 original size:13 final size:13
Alignment explanation
Indices: 112699182--112699207 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
112699172 AGATAATTAG
112699182 CAAATCATATATA
1 CAAATCATATATA
112699195 CAAATCATATATA
1 CAAATCATATATA
112699208 TATTTATACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
CAAATCATATATA
Found at i:112699618 original size:40 final size:40
Alignment explanation
Indices: 112699547--112699643 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
112699537 CACACCAGAA
* *
112699547 TGACGACCAACGCCTCATCGGATAGTTCGAAGCAAATAAG
1 TGACAACCAACGCCTCATCGGATAGTCCGAAGCAAATAAG
* *
112699587 TGACAACCAACGTCTCATCGGCTAAG-CCGAAGC--A-AAG
1 TGACAACCAACGCCTCATCGGAT-AGTCCGAAGCAAATAAG
* *
112699624 TGGCGACCAACGCCTCATCG
1 TGACAACCAACGCCTCATCG
112699644 AATCTATTCG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
37 20 0.41
38 1 0.02
40 26 0.53
41 2 0.04
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.15
Consensus pattern (40 bp):
TGACAACCAACGCCTCATCGGATAGTCCGAAGCAAATAAG
Found at i:112699914 original size:29 final size:27
Alignment explanation
Indices: 112699849--112699919 Score: 65
Period size: 28 Copynumber: 2.6 Consensus size: 27
112699839 TAACAATTCA
112699849 ATCA-CAATTTCAAATTCACCACAAATC
1 ATCATCAA-TTCAAATTCACCACAAATC
* * *
112699876 ATTATACAATTCAATTTCACACATAAATAC
1 ATCAT-CAATTCAAATTCAC-CACAAAT-C
112699906 ATCATCAA-TCAAAT
1 ATCATCAATTCAAAT
112699920 CCGATTCTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
27 3 0.09
28 15 0.43
29 12 0.34
30 5 0.14
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (27 bp):
ATCATCAATTCAAATTCACCACAAATC
Found at i:112700680 original size:16 final size:16
Alignment explanation
Indices: 112700659--112700689 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
112700649 TTTCTTTTGT
*
112700659 TTCTTTATTTTATTTA
1 TTCTTTATTTCATTTA
112700675 TTCTTTATTTCATTT
1 TTCTTTATTTCATTT
112700690 TATTTACTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCTTTATTTCATTTA
Found at i:112704435 original size:33 final size:32
Alignment explanation
Indices: 112704377--112704440 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
112704367 TTTATTTACC
* *
112704377 AAAAATAAAAAATATTTTTTTAAAATGAAATT
1 AAAAATAAAAAATATTTTTTAAAAATAAAATT
*
112704409 AAAAATAGAAAATATTTTTTAAAAAATAAAAT
1 AAAAATAAAAAATATTTTTT-AAAAATAAAAT
112704441 GTGCCTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 19 0.68
33 9 0.32
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (32 bp):
AAAAATAAAAAATATTTTTTAAAAATAAAATT
Found at i:112704956 original size:174 final size:175
Alignment explanation
Indices: 112704665--112704990 Score: 492
Period size: 174 Copynumber: 1.9 Consensus size: 175
112704655 AATTTTCCAA
* * * * * *
112704665 ATTTTAGTTGCTTTTTTTACATTGTAAAACAATGGTTAAATTTTAATTTTGGCCCTTAAACTATA
1 ATTTTAGCTGCTTTTTTTACATTATAAAACAATGGTTAAATTTAAAATTTAGCCCCTAAACTATA
*
112704730 CTTAAACTTAAGATTCAATCTATTTACTTTAATTTTTAACATAATTTGGTCCCTCTAGTTTTTAA
66 CTTAAACTTAAGATTCAATCTATTTACTTTAATTTTTAACATAATTTGGTCCCTCTACTTTTTAA
*
112704795 TGTAATTAGTTAGTCTAAATAGTTAATATTGTTCAATCTATTTAC
131 TGTAATTAGTTAATCTAAATAGTTAATATTGTTCAATCTATTTAC
* * * *
112704840 ATTTTAGCTGC-TTTTTTACCTTATAAAACAATGGTTAAATTTAAAATTTAGCCCCTAAGCTTTG
1 ATTTTAGCTGCTTTTTTTACATTATAAAACAATGGTTAAATTTAAAATTTAGCCCCTAAACTATA
* * * *
112704904 CTTAAACTTGAGATTTAATCTATTTACTTTAATTTTTTACATAATTTGGTCCCTTTACTTTTTAA
66 CTTAAACTTAAGATTCAATCTATTTACTTTAATTTTTAACATAATTTGGTCCCTCTACTTTTTAA
*
112704969 TGTCATTAGTTAATCTAAATAG
131 TGTAATTAGTTAATCTAAATAG
112704991 ATCATTTCAC
Statistics
Matches: 134, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
174 124 0.93
175 10 0.07
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (175 bp):
ATTTTAGCTGCTTTTTTTACATTATAAAACAATGGTTAAATTTAAAATTTAGCCCCTAAACTATA
CTTAAACTTAAGATTCAATCTATTTACTTTAATTTTTAACATAATTTGGTCCCTCTACTTTTTAA
TGTAATTAGTTAATCTAAATAGTTAATATTGTTCAATCTATTTAC
Found at i:112706255 original size:3 final size:3
Alignment explanation
Indices: 112706247--112706322 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
112706237 CATAGAAAAC
112706247 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
112706295 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
112706323 AGACCTTGAC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:112706646 original size:16 final size:17
Alignment explanation
Indices: 112706625--112706669 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
112706615 ATTTACCCAG
112706625 CCCAAAACTCAACTA-C
1 CCCAAAACTCAACTATC
*
112706641 CCCAAAACCCAACTATC
1 CCCAAAACTCAACTATC
*
112706658 CCAAAAACTCAA
1 CCCAAAACTCAA
112706670 ATTAGCCCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.47, C:0.42, G:0.00, T:0.11
Consensus pattern (17 bp):
CCCAAAACTCAACTATC
Found at i:112707912 original size:6 final size:6
Alignment explanation
Indices: 112707891--112707961 Score: 67
Period size: 6 Copynumber: 11.8 Consensus size: 6
112707881 AACTTAAACA
* *
112707891 TATTAT TATTACT T-TTAT TTTTAT TATTAT TATCAT T-TATAT TATTAT
1 TATTAT TATTA-T TATTAT TATTAT TATTAT TATTAT TAT-TAT TATTAT
*
112707939 TATTAT TACTT-T TATTAC TATTA
1 TATTAT TA-TTAT TATTAT TATTA
112707962 AATTTTCATC
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
5 5 0.09
6 45 0.82
7 5 0.09
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.65
Consensus pattern (6 bp):
TATTAT
Found at i:112707917 original size:9 final size:9
Alignment explanation
Indices: 112707891--112707961 Score: 67
Period size: 9 Copynumber: 7.9 Consensus size: 9
112707881 AACTTAAACA
112707891 TATTATTAT
1 TATTATTAT
112707900 TACTT-TTAT
1 TA-TTATTAT
*
112707909 TTTTATTAT
1 TATTATTAT
*
112707918 TATTATCAT
1 TATTATTAT
112707927 T-TATATTAT
1 TAT-TATTAT
112707936 TATTATTAT
1 TATTATTAT
112707945 TACTT-TTAT
1 TA-TTATTAT
*
112707954 TACTATTA
1 TATTATTA
112707962 AATTTTCATC
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
8 4 0.08
9 42 0.82
10 5 0.10
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.65
Consensus pattern (9 bp):
TATTATTAT
Found at i:112707955 original size:21 final size:21
Alignment explanation
Indices: 112707891--112707961 Score: 97
Period size: 21 Copynumber: 3.2 Consensus size: 21
112707881 AACTTAAACA
*
112707891 TATTATTATTACTTTTATTTT
1 TATTATTATTACTTTTATTAT
112707912 TATTATTATTATCATTTATATTAT
1 TATTATTATTA-C-TTT-TATTAT
*
112707936 TATTATTATTACTTTTATTAC
1 TATTATTATTACTTTTATTAT
112707957 TATTA
1 TATTA
112707962 AATTTTCATC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
21 21 0.47
22 4 0.09
23 4 0.09
24 16 0.36
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTATTATTACTTTTATTAT
Found at i:112708125 original size:3 final size:3
Alignment explanation
Indices: 112708119--112708243 Score: 94
Period size: 3 Copynumber: 41.0 Consensus size: 3
112708109 ACTATTAACC
* * *
112708119 TAT TAT TAT TCT TAT TAG TA- TAT TAT TAT T-T CCTAT TTT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT
* * * * * * *
112708163 TAT TGT TGT TAT TAA CAT ATAT TAT TAT TAT TAAT GTAC TGT TAT TCT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT T-AT -TAT TAT TAT TAT
112708211 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
112708244 AATACTATTA
Statistics
Matches: 97, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
2 5 0.05
3 84 0.87
4 6 0.06
5 2 0.02
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:112708208 original size:60 final size:61
Alignment explanation
Indices: 112708102--112708236 Score: 148
Period size: 60 Copynumber: 2.2 Consensus size: 61
112708092 TTTCTTATAC
* * * * * *
112708102 TATTATTACTATTAACCTATTATTATTCTTATTAGTATATTATTATTTCCTATTTTTA-TAT
1 TATTATTATTATTAACATATTATTATTATTATTAATATACTATTA-TTCCTATTATTATTAT
* * * * *
112708163 TATTGTTGTTATTAACATA-TATTATTATTATTAATGTACTGTTATTCTTATTATTATTAT
1 TATTATTATTATTAACATATTATTATTATTATTAATATACTATTATTCCTATTATTATTAT
112708223 TATTATTATTATTA
1 TATTATTATTATTA
112708237 TTATTATAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
59 10 0.17
60 35 0.58
61 15 0.25
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (61 bp):
TATTATTATTATTAACATATTATTATTATTATTAATATACTATTATTCCTATTATTATTAT
Found at i:112711685 original size:26 final size:26
Alignment explanation
Indices: 112711648--112711729 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
112711638 TGATACAAAT
112711648 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
112711674 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
112711700 TGATAATGGGTTAGGTAAGTGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112711726 TGAT
1 TGAT
112711730 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:112714079 original size:19 final size:19
Alignment explanation
Indices: 112714041--112714084 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
112714031 AACGCCTCTT
*
112714041 TTTGCATTCATTTCCTTCA
1 TTTGCATTCATTTCCATCA
112714060 TTTGCATTACATTT-CATCA
1 TTTGCATT-CATTTCCATCA
*
112714079 TATGCA
1 TTTGCA
112714085 CGAAAAGACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.48
Consensus pattern (19 bp):
TTTGCATTCATTTCCATCA
Found at i:112722262 original size:96 final size:95
Alignment explanation
Indices: 112722137--112722721 Score: 539
Period size: 96 Copynumber: 6.3 Consensus size: 95
112722127 AAAGCCATCA
* * * * * *
112722137 ATCTCATCTCTATAAAGTTGCAGTGGAGTAGATTGAAGATAGCAAATATTATTTCCCTAAAGTTG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TGAAGATAGCAAATCTTATTTCCCTGAAGTTG
*
112722202 CGGTGGAACAGATTGAAGCTATAAATCACAG
65 CAGTGGAACAGATTGAAGCTATAAATCACAG
* * * * * * * * *
112722233 ATCTTATCTATCTGAAGTTGCAATAGAGTAGATCAA-A-A-CAAACCTTATCTCCCTAAAGTTGT
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATGAAGATAGCAAATCTTATTTCCCTGAAGTTGC
* * *
112722295 TGTGGAGCAGGTTGAAG-------TCACTAG
66 AGTGGAACAGATTGAAGCTATAAATCAC-AG
* * *
112722319 -TCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TGAAGATAGCAAATCTTATTTCCCTGAAGTTG
* *
112722383 CAGTGGAACAGATTGGAGTTATAAATCACAG
65 CAGTGGAACAGATTGAAGCTATAAATCACAG
* *
112722414 ATCTTATCTCTCTAAAGTTGCAGTGGAACAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TGAAGATAGCAAATCTTATTTCCCTGAAGTTG
* * *
112722479 CAGTGAAACAGATTAAAGCTATAAATCATAG
65 CAGTGGAACAGATTGAAGCTATAAATCACAG
* ** * * * *
112722510 ATCTTATCTCTCTGAAGTTGTAGTAAAGTAGATCAA-A-A-CAAACCTTATCTCCCTGAAGTTGC
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATGAAGATAGCAAATCTTATTTCCCTGAAGTTGC
* ** *
112722572 TGTGGAGTAGGTTGAAG-------TCACTAG
66 AGTGGAACAGATTGAAGCTATAAATCAC-AG
* * *
112722596 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAATATAGCAAATCTTATTTCCCTGAAGTTG
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TGAAGATAGCAAATCTTATTTCCCTGAAGTTG
* *
112722660 CAGTGGAACAGATTAAAGCTATAAATAAACAG
65 CAGTGGAACAGATTGAAGCTATAAAT-CACAG
*
112722692 ATCTTATCTCTCTGAAGTTGCAGTAGAGCA
1 ATCTTATCTCTCTGAAGTTGCAGTGGAGCA
112722722 AATCATAGCA
Statistics
Matches: 392, Mismatches: 70, Indels: 53
0.76 0.14 0.10
Matches are distributed among these distances:
85 59 0.15
86 9 0.02
87 2 0.01
88 2 0.01
89 67 0.17
92 67 0.17
93 2 0.01
94 2 0.01
95 8 0.02
96 145 0.37
97 29 0.07
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (95 bp):
ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATGAAGATAGCAAATCTTATTTCCCTGAAGTTGC
AGTGGAACAGATTGAAGCTATAAATCACAG
Found at i:112722432 original size:51 final size:45
Alignment explanation
Indices: 112722093--112722673 Score: 310
Period size: 45 Copynumber: 12.8 Consensus size: 45
112722083 ATTATGGCGG
* * ** *
112722093 ATCTTATCTTCCTGAAGTTGCAGT-GAAGCAGATTAAAGCCATC-A
1 ATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTGAAGATAGCAA
* ** * **
112722137 ATCTCATCTCTATAAAGTTGCAGTGGAGTAGATTGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAGCAA
* * * * *
112722182 ATATTATTTCCCTAAAGTTGCGGTGGAACAGATTGAAGCTATAAATCACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG--AT--AGCA-A
** * * ** *
112722232 GATCTTATCTATCTGAAGTTGCAATAGAGTAGA-TCAA-A-A-CAA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAGCAA
* * ** * * *
112722274 ACCTTATCTCCCTAAAGTTGTTGTGGAGCAGGTTGAAG-TCA-CTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGAT-AGCAA
* * * *
112722318 GTCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAGCAA
* * *
112722363 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGGAGTTATAAATCACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG--AT--AGCA-A
* * *
112722413 GATCTTATCTCTCTAAAGTTGCAGTGGAACAGACTGAAGATAGCAA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAGCAA
* * * *
112722459 ATCTTATTTCCCTGAAGTTGCAGTGAAACAGATTAAAGCTATAAATCATA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG--AT--AGCA-A
* * * * *
112722509 GATCTTATCTCTCTGAAGTTGTAGT-AAAGTAGA-TCAA-A-A-CAA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTGAAGATAGCAA
* * ** * *
112722551 ACCTTATCTCCCTGAAGTTGCTGTGGAGTAGGTTGAAG-TCA-CTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGAT-AGCAA
* * ** *
112722595 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAATATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAGCAA
*
112722640 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATT
112722674 AAAGCTATAA
Statistics
Matches: 405, Mismatches: 98, Indels: 67
0.71 0.17 0.12
Matches are distributed among these distances:
41 45 0.11
42 9 0.02
43 4 0.01
44 101 0.25
45 132 0.33
46 1 0.00
47 11 0.03
49 11 0.03
50 12 0.03
51 79 0.20
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (45 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAGCAA
Found at i:112722643 original size:277 final size:278
Alignment explanation
Indices: 112722137--112722715 Score: 899
Period size: 277 Copynumber: 2.1 Consensus size: 278
112722127 AAAGCCATCA
* * ** *
112722137 ATCTCATCTCTATAAAGTTGCAGTGGAGTAGATTGAAGATAGCAAATATTATTTCCCTAAAGTTG
1 ATCTTATCTCTCTAAAGTTGCAGTGGAACAGACTGAAGATAGCAAATATTATTTCCCTAAAGTTG
* * * *
112722202 CGGTGGAACAGATTGAAGCTATAAATCACAGATCTTATCTATCTGAAGTTGCAATAGAGTAGATC
66 CAGTGAAACAGATTAAAGCTATAAATCACAGATCTTATCTATCTGAAGTTGCAATAAAGTAGATC
*
112722267 AAAACAAACCTTATCTCCCTAAAGTTGTTGTGGAGCAGGTTGAAGTCACTAGTCTTATCTCCCTA
131 AAAACAAACCTTATCTCCCTAAAGTTGCTGTGGAGCAGGTTGAAGTCACTAGTCTTATCTCCCTA
**
112722332 AAGTTGCAATGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
196 AAGTTGCAATGGAGCAGACAGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
** * *
112722397 GGAGTTATAAAT-CACAG
261 AAAGCTATAAATAAACAG
* *
112722414 ATCTTATCTCTCTAAAGTTGCAGTGGAACAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTG
1 ATCTTATCTCTCTAAAGTTGCAGTGGAACAGACTGAAGATAGCAAATATTATTTCCCTAAAGTTG
* * * *
112722479 CAGTGAAACAGATTAAAGCTATAAATCATAGATCTTATCTCTCTGAAGTTGTAGTAAAGTAGATC
66 CAGTGAAACAGATTAAAGCTATAAATCACAGATCTTATCTATCTGAAGTTGCAATAAAGTAGATC
* * *
112722544 AAAACAAACCTTATCTCCCTGAAGTTGCTGTGGAGTAGGTTGAAGTCACTAGTCTTATCTCCCTG
131 AAAACAAACCTTATCTCCCTAAAGTTGCTGTGGAGCAGGTTGAAGTCACTAGTCTTATCTCCCTA
* *
112722609 AAGTTGCAGTGGAGCAGACAGAATATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
196 AAGTTGCAATGGAGCAGACAGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
112722674 AAAGCTATAAATAAACAG
261 AAAGCTATAAATAAACAG
*
112722692 ATCTTATCTCTCTGAAGTTGCAGT
1 ATCTTATCTCTCTAAAGTTGCAGT
112722716 AGAGCAAATC
Statistics
Matches: 273, Mismatches: 28, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
277 246 0.90
278 27 0.10
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (278 bp):
ATCTTATCTCTCTAAAGTTGCAGTGGAACAGACTGAAGATAGCAAATATTATTTCCCTAAAGTTG
CAGTGAAACAGATTAAAGCTATAAATCACAGATCTTATCTATCTGAAGTTGCAATAAAGTAGATC
AAAACAAACCTTATCTCCCTAAAGTTGCTGTGGAGCAGGTTGAAGTCACTAGTCTTATCTCCCTA
AAGTTGCAATGGAGCAGACAGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
AAAGCTATAAATAAACAG
Found at i:112724997 original size:52 final size:47
Alignment explanation
Indices: 112724903--112725110 Score: 161
Period size: 48 Copynumber: 4.3 Consensus size: 47
112724893 CCATGGCAGC
* * * *
112724903 ATGTGAAATGTGATTTCTGTATAAGACCATAGTTGGGCTATGGCTTCGGAG
1 ATGTGATATGTG-CTTCTGTATAAGACCATA-TTGGGATATGGCATC-G-G
* *
112724954 AAATGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 --ATGTGATATGTGCTTCTGTATAAGACCATAT-TGGGATATGGCATCGG
* *
112725004 -TGTGATATGTGCTACTGTATAAGACTCATATATGGGATATGGCATCAG
1 ATGTGATATGTGCTTCTGTATAAGAC-CATAT-TGGGATATGGCATCGG
* * * ** * *
112725052 -TGTGATATGTG-ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCTGTATAAGACCAT-ATTGGGATATGGCATCGG
112725098 TATGTGATATGTG
1 -ATGTGATATGTG
112725111 ACTATGTGCA
Statistics
Matches: 130, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
46 16 0.12
47 32 0.25
48 41 0.32
50 1 0.01
51 2 0.02
52 27 0.21
53 11 0.08
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (47 bp):
ATGTGATATGTGCTTCTGTATAAGACCATATTGGGATATGGCATCGG
Found at i:112725026 original size:47 final size:47
Alignment explanation
Indices: 112724957--112725110 Score: 175
Period size: 48 Copynumber: 3.2 Consensus size: 47
112724947 TTCGGAGAAA
* *
112724957 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
* * *
112725004 TGTGATATGTGCTACTGTATAAGACTCATATATGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGAC-CATATCTGGGATATGGCATCGG
* * ** * *
112725052 TGTGATATGTGAT-CCGTGTAAGACCATGGCTGGGCTATGGCCTCGG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
112725098 TATGTGATATGTG
1 --TGTGATATGTG
112725111 ACTATGTGCA
Statistics
Matches: 90, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
46 16 0.18
47 32 0.36
48 42 0.47
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (47 bp):
TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:112725055 original size:48 final size:47
Alignment explanation
Indices: 112724957--112725078 Score: 165
Period size: 47 Copynumber: 2.6 Consensus size: 47
112724947 TTCGGAGAAA
* * *
112724957 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 TGTGATATGTGCTACCGTATAAGACCATATACGGGATATGGCATCAG
* *
112725004 TGTGATATGTGCTACTGTATAAGACTCATATATGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGAC-CATATACGGGATATGGCATCAG
* *
112725052 TGTGATATGTGAT-CCGTGTAAGACCAT
1 TGTGATATGTGCTACCGTATAAGACCAT
112725079 GGCTGGGCTA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 3 0.05
47 32 0.48
48 31 0.47
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (47 bp):
TGTGATATGTGCTACCGTATAAGACCATATACGGGATATGGCATCAG
Found at i:112727842 original size:15 final size:15
Alignment explanation
Indices: 112727819--112727867 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
112727809 AACTTAAACA
*
112727819 TATTATTATTACTT-T
1 TATTTTTATTA-TTAT
112727834 TATTTTTATTATTAT
1 TATTTTTATTATTAT
*
112727849 TATTTATATTATTAT
1 TATTTTTATTATTAT
112727864 TATT
1 TATT
112727868 ACTTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 2 0.06
15 29 0.94
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTTATTATTAT
Found at i:112727844 original size:18 final size:19
Alignment explanation
Indices: 112727819--112727876 Score: 82
Period size: 18 Copynumber: 3.0 Consensus size: 19
112727809 AACTTAAACA
112727819 TATTATTATTACTTTTATT
1 TATTATTATTACTTTTATT
*
112727838 T-TTATTATTATTATTTATAT
1 TATTATTATTACT-TTTAT-T
112727858 TATTATTATTACTTTTATT
1 TATTATTATTACTTTTATT
112727877 ACTATTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 10 0.29
19 7 0.21
20 7 0.21
21 10 0.29
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTATTATTACTTTTATT
Found at i:112727845 original size:9 final size:9
Alignment explanation
Indices: 112727819--112727884 Score: 66
Period size: 9 Copynumber: 7.3 Consensus size: 9
112727809 AACTTAAACA
112727819 TATTATTAT
1 TATTATTAT
112727828 TACTT-TTAT
1 TA-TTATTAT
*
112727837 TTTTATTAT
1 TATTATTAT
112727846 TATTATT-T
1 TATTATTAT
112727854 ATATTATTAT
1 -TATTATTAT
112727864 TATTACTT-T
1 TATTA-TTAT
*
112727873 TATTACTAT
1 TATTATTAT
112727882 TAT
1 TAT
112727885 ATTTTCATCT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
8 4 0.08
9 39 0.81
10 5 0.10
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTATTAT
Found at i:112727875 original size:15 final size:14
Alignment explanation
Indices: 112727819--112727884 Score: 59
Period size: 15 Copynumber: 4.9 Consensus size: 14
112727809 AACTTAAACA
112727819 TATTATTATTACTTT
1 TATTATTATTA-TTT
*
112727834 TATTTTTATTA--T
1 TATTATTATTATTT
*
112727846 TATTA-T-TTATAT
1 TATTATTATTATTT
112727858 TATTATTATTACTTT
1 TATTATTATTA-TTT
*
112727873 TATTACTATTAT
1 TATTATTATTAT
112727885 ATTTTCATCT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
10 3 0.07
11 1 0.02
12 11 0.26
13 1 0.02
14 4 0.10
15 22 0.52
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTATTATTATTT
Found at i:112728047 original size:3 final size:3
Alignment explanation
Indices: 112728041--112728175 Score: 91
Period size: 3 Copynumber: 45.0 Consensus size: 3
112728031 ACTATTAACC
* * *
112728041 TAT TAT TAT TCT TAT TAG TA- TAT CAT TAT T-T CCTAT T-T T-T TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT TAT
* * * * * *
112728083 TAT TAT TGT TGT TAT TAA CAT ATAT TAT TAT TAT TAAT GTAC TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT T-AT -TAT TAT TAT
* *
112728131 TCT TAT TCT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
112728176 ACTATTAAAC
Statistics
Matches: 104, Mismatches: 19, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
2 9 0.09
3 87 0.84
4 6 0.06
5 2 0.02
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:112730254 original size:22 final size:22
Alignment explanation
Indices: 112730226--112730268 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
112730216 AAAATATAGT
*
112730226 AAAATAAATAGTATAAAAAAAC
1 AAAATAAATAATATAAAAAAAC
*
112730248 AAAATAAATAATATATAAAAA
1 AAAATAAATAATATAAAAAAA
112730269 TATGGGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATAAATAATATAAAAAAAC
Found at i:112730617 original size:14 final size:14
Alignment explanation
Indices: 112730587--112730651 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
112730577 CAATTTTATA
112730587 AAAATATAT-AAA-
1 AAAATATATAAAAT
*
112730599 GAAATATATAAAAT
1 AAAATATATAAAAT
*
112730613 AAAATATATAATAT
1 AAAATATATAAAAT
* * *
112730627 AATATAATTTATAGAT
1 AAAAT-ATATA-AAAT
112730643 AAAATATAT
1 AAAATATAT
112730652 GATAAAATAA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
12 8 0.20
13 3 0.07
14 16 0.39
15 7 0.17
16 7 0.17
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
AAAATATATAAAAT
Found at i:112732715 original size:206 final size:206
Alignment explanation
Indices: 112732354--112732908 Score: 898
Period size: 206 Copynumber: 2.7 Consensus size: 206
112732344 AAATCTACTT
* * *
112732354 CTTCAATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAT
* * * * * * *
112732419 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCATTGTAAGCACAAGGATACCGAACTATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACTATCTT
* * * **
112732484 GGATCTGCTTCAATCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCATCGAATATG
112732549 GAGATGCCAAA
196 GAGATGCCAAA
* *
112732560 CTTCGATTTGTTCTCTGACAATACAGAGATGCCACATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAT
*
112732625 GTGAAAGCCAAATCAGCTATGTTTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAA-TCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACT-ATCT
* *
112732689 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATAT
130 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCATCGAATAT
112732754 GGAGATGCCAAA
195 GGAGATGCCAAA
112732766 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAT
112732831 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATG-CAAACTATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACTATCTT
112732895 GGATCTTGCTTCAG
131 GGATC-TGCTTCAG
112732909 CCAGATCTGC
Statistics
Matches: 323, Mismatches: 23, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
205 15 0.05
206 308 0.95
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAT
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACTATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCATCGAATATG
GAGATGCCAAA
Found at i:112738098 original size:30 final size:30
Alignment explanation
Indices: 112738062--112738121 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
112738052 CCTCTTCCGT
112738062 ATTGATGGTTATTAACCGTCCATCTGTCAC
1 ATTGATGGTTATTAACCGTCCATCTGTCAC
112738092 ATTGATGGTTATTAACCGTCCATCTGTCAC
1 ATTGATGGTTATTAACCGTCCATCTGTCAC
112738122 TAATTTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (30 bp):
ATTGATGGTTATTAACCGTCCATCTGTCAC
Found at i:112744884 original size:22 final size:22
Alignment explanation
Indices: 112744856--112744898 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
112744846 AAAATATAGT
*
112744856 AAAATAAATAGTATAAAAAAAC
1 AAAATAAATAATATAAAAAAAC
*
112744878 AAAATAAATAATATATAAAAA
1 AAAATAAATAATATAAAAAAA
112744899 TATAAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATAAATAATATAAAAAAAC
Found at i:112745247 original size:14 final size:14
Alignment explanation
Indices: 112745217--112745281 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
112745207 CAATTTTATA
112745217 AAAATATAT-AAA-
1 AAAATATATAAAAT
*
112745229 GAAATATATAAAAT
1 AAAATATATAAAAT
*
112745243 AAAATATATAATAT
1 AAAATATATAAAAT
* * *
112745257 AATATAATTTATAGAT
1 AAAAT-ATATA-AAAT
112745273 AAAATATAT
1 AAAATATAT
112745282 GATAAAATAA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
12 8 0.20
13 3 0.07
14 16 0.39
15 7 0.17
16 7 0.17
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
AAAATATATAAAAT
Found at i:112751251 original size:19 final size:19
Alignment explanation
Indices: 112751227--112751263 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
112751217 AGATATTCCT
112751227 TTAGTGTATTTGATTATCA
1 TTAGTGTATTTGATTATCA
112751246 TTAGTGTATTTGATTATC
1 TTAGTGTATTTGATTATC
112751264 TTGTGGGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.54
Consensus pattern (19 bp):
TTAGTGTATTTGATTATCA
Found at i:112754232 original size:2 final size:2
Alignment explanation
Indices: 112754227--112754254 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
112754217 ACTCACATAA
112754227 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112754255 GTGTATACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112754494 original size:2 final size:2
Alignment explanation
Indices: 112754487--112754530 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
112754477 TAATAGCCTT
112754487 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
112754529 TA
1 TA
112754531 CTTTCAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:112755865 original size:19 final size:19
Alignment explanation
Indices: 112755837--112755876 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
112755827 TGATGCTTTA
112755837 ATATGATGTAATACTAATT
1 ATATGATGTAATACTAATT
* *
112755856 ATATGGTGTAATACTAGTT
1 ATATGATGTAATACTAATT
112755875 AT
1 AT
112755877 GCACTTGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.42
Consensus pattern (19 bp):
ATATGATGTAATACTAATT
Found at i:112756878 original size:2 final size:2
Alignment explanation
Indices: 112756871--112756898 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
112756861 TTTTAAATTA
112756871 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112756899 TCTCTTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112757599 original size:30 final size:30
Alignment explanation
Indices: 112757537--112757600 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
112757527 TAAAATTTTA
** * *
112757537 AAAAGTACATGGACTGAAATTGACCAATTT
1 AAAAGTACATGGACAAAAACTGACCAAATT
*
112757567 AAAAGTACATGGACAAAAACTGATCAAATT
1 AAAAGTACATGGACAAAAACTGACCAAATT
112757597 AAAA
1 AAAA
112757601 TATAAAGACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.52, C:0.12, G:0.14, T:0.22
Consensus pattern (30 bp):
AAAAGTACATGGACAAAAACTGACCAAATT
Done.