Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 340 of 378
Found at i:102904447 original size:17 final size:19
Alignment explanation
Indices: 102904408--102904456 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 19
102904398 TTATAAAAAA
* *
102904408 TTTATAATTCTTTTACAATT
1 TTTATAA-TATTTTACAAAT
102904428 TTTATAAT-TTTT-CAAAT
1 TTTATAATATTTTACAAAT
102904445 TTT-TAATATTTT
1 TTTATAATATTTT
102904457 TATTAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 4 0.15
17 11 0.41
18 4 0.15
19 1 0.04
20 7 0.26
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTATAATATTTTACAAAT
Found at i:102904457 original size:19 final size:20
Alignment explanation
Indices: 102904386--102904478 Score: 63
Period size: 19 Copynumber: 4.8 Consensus size: 20
102904376 ATTTTATATT
* *
102904386 TTTTTAAGATTTTTATAAAAAA
1 TTTTTAATATTTTTAT--CAAA
*
102904408 TTTATAAT-TCTTTTA-C-AA
1 TTTTTAATAT-TTTTATCAAA
*
102904426 TTTTT-ATAATTTT-TCAAA
1 TTTTTAATATTTTTATCAAA
*
102904444 TTTTTAATATTTTTATTAAA
1 TTTTTAATATTTTTATCAAA
*
102904464 -ATTTAATATTTTTAT
1 TTTTTAATATTTTTAT
102904479 TTTTATTTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
17 7 0.12
18 13 0.23
19 21 0.37
20 4 0.07
21 1 0.02
22 11 0.19
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (20 bp):
TTTTTAATATTTTTATCAAA
Found at i:102906651 original size:25 final size:27
Alignment explanation
Indices: 102906614--102906666 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
102906604 TCAAACATGC
102906614 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
*
102906640 ATTTCGGT-AATTTAACTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
102906666 A
1 A
102906667 AAACTGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:102906675 original size:26 final size:25
Alignment explanation
Indices: 102906623--102906675 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
102906613 CATTTAGGTC
***
102906623 AATTTAACCCTAGGGGTATTTCGGT
1 AATTTAACCCTAGGGGTAAAACGGT
*
102906648 AATTTAACTCCTAGGGGTAAAACTGT
1 AATTTAAC-CCTAGGGGTAAAACGGT
102906674 AA
1 AA
102906676 ATTTTCCACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (25 bp):
AATTTAACCCTAGGGGTAAAACGGT
Found at i:102908187 original size:26 final size:26
Alignment explanation
Indices: 102908151--102908234 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
102908141 CATGAAATTC
102908151 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
102908177 TTATCATGAAACATTTACCTAACCGA
1 TTATCATGAAACATTTACCTAACCCA
* *
102908203 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
102908229 TTATCA
1 TTATCA
102908235 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:102908747 original size:27 final size:27
Alignment explanation
Indices: 102908709--102908761 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
102908699 AGGGTAGGTT
* *
102908709 GTGCCTATCTGATAGGCGCGACTGGTA
1 GTGCCTATCTGACAGGCGCAACTGGTA
102908736 GTGCCTATCTGACAGGCGCAACTGGT
1 GTGCCTATCTGACAGGCGCAACTGGT
102908762 GCTTAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.19, C:0.25, G:0.32, T:0.25
Consensus pattern (27 bp):
GTGCCTATCTGACAGGCGCAACTGGTA
Found at i:102911918 original size:81 final size:79
Alignment explanation
Indices: 102911796--102911945 Score: 219
Period size: 81 Copynumber: 1.9 Consensus size: 79
102911786 AAAGTTTATT
** *
102911796 TATTTAAATTACAAAAAAAAAACCCATAAAATTGATAAATAAAATGGCAAAAAATTCATTACACA
1 TATTTAAATTACAAAAAAAAAAAACATAAAATTGATAAATAAAATGCCAAAAAATTCATTACACA
102911861 AATACAAAATTGAC
66 AATACAAAATTGAC
* * *
102911875 TATTTAAATTTCAAAAAAAAAAAACATTTTAAATTGATGAATAAAATGCCAAAAAATTCATTACA
1 TATTTAAATTACAAAAAAAAAAAACA--TAAAATTGATAAATAAAATGCCAAAAAATTCATTACA
*
102911940 TAAATA
64 CAAATA
102911946 TGAAGTTATT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
79 23 0.37
81 39 0.63
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (79 bp):
TATTTAAATTACAAAAAAAAAAAACATAAAATTGATAAATAAAATGCCAAAAAATTCATTACACA
AATACAAAATTGAC
Found at i:102912185 original size:33 final size:33
Alignment explanation
Indices: 102912141--102912272 Score: 149
Period size: 33 Copynumber: 4.0 Consensus size: 33
102912131 ACTTGAGCCA
* * *
102912141 GGAGGAATGGAGTACA-GCGGTGGATACGGGCCG
1 GGAGGAGTGGAGTA-AGGAGGTGGATACAGGCCG
* *
102912174 GGAGGAGTGGAGTAAGGCGGTGGATACAGACCG
1 GGAGGAGTGGAGTAAGGAGGTGGATACAGGCCG
* * *
102912207 GGAGGAGTGGAGTACGAAGGTGGATACAGGCTG
1 GGAGGAGTGGAGTAAGGAGGTGGATACAGGCCG
* * *
102912240 GAAGGAGTGGAGTAATGAGGTGGATACAAGCCG
1 GGAGGAGTGGAGTAAGGAGGTGGATACAGGCCG
102912273 AAATGACTGA
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
32 1 0.01
33 83 0.99
ACGTcount: A:0.28, C:0.11, G:0.47, T:0.14
Consensus pattern (33 bp):
GGAGGAGTGGAGTAAGGAGGTGGATACAGGCCG
Found at i:102912247 original size:66 final size:66
Alignment explanation
Indices: 102912141--102912267 Score: 175
Period size: 66 Copynumber: 1.9 Consensus size: 66
102912131 ACTTGAGCCA
* * * *
102912141 GGAGGAATGGAGTACAGCGGTGGATACGGGCCGGGAGGAGTGGAGTAAGGCGGTGGATACAGACC
1 GGAGGAATGGAGTACAGAGGTGGATACAGGCCGGAAGGAGTGGAGTAAGGAGGTGGATACAGACC
102912206 G
66 G
* * *
102912207 GGAGGAGTGGAGTAC-GAAGGTGGATACAGGCTGGAAGGAGTGGAGTAATGAGGTGGATACA
1 GGAGGAATGGAGTACAG-AGGTGGATACAGGCCGGAAGGAGTGGAGTAAGGAGGTGGATACA
102912268 AGCCGAAATG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
65 1 0.02
66 52 0.98
ACGTcount: A:0.28, C:0.10, G:0.47, T:0.14
Consensus pattern (66 bp):
GGAGGAATGGAGTACAGAGGTGGATACAGGCCGGAAGGAGTGGAGTAAGGAGGTGGATACAGACC
G
Found at i:102912287 original size:66 final size:66
Alignment explanation
Indices: 102912159--102912295 Score: 152
Period size: 66 Copynumber: 2.1 Consensus size: 66
102912149 GGAGTACAGC
* * * ** * *
102912159 GGTGGATACGGGCCGGGAGGAGTGGAGTAAGGCGGTGGATACAGACCGGGAGGAGTGGAGTAC-G
1 GGTGGATACAGGCCGGAAGGAGTGGAGTAAGGAGGTGGATACAGACCGAAAGGACTGAAGTACTG
102912223 AA
66 -A
* * *
102912225 GGTGGATACAGGCTGGAAGGAGTGGAGTAATGAGGTGGATACA-AGCCGAAATGACTGAAGTACT
1 GGTGGATACAGGCCGGAAGGAGTGGAGTAAGGAGGTGGATACAGA-CCGAAAGGACTGAAGTACT
102912289 GA
65 GA
102912291 GGTGG
1 GGTGG
102912296 TAGTGGGCTG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
65 1 0.02
66 57 0.97
67 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.45, T:0.15
Consensus pattern (66 bp):
GGTGGATACAGGCCGGAAGGAGTGGAGTAAGGAGGTGGATACAGACCGAAAGGACTGAAGTACTG
A
Found at i:102914479 original size:44 final size:44
Alignment explanation
Indices: 102914429--102914595 Score: 172
Period size: 50 Copynumber: 3.5 Consensus size: 44
102914419 TTTGAGTACG
*
102914429 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGTTTTAGCTACACTTA
*
102914473 TCTGATCAATGACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTG----AT--C-AGTGACAAGTGATAAGTGGTAGTTTTAGCTACACTTA
* * *
102914524 TCTGATCAATGACAAGTGATAAGTATAAGTGGTAGTTTTAGTTGCACTTA
1 TCTGATCAGTGACAA--G-T--G-ATAAGTGGTAGTTTTAGCTACACTTA
102914574 TCTGATCAGTGACAAGTGATAA
1 TCTGATCAGTGACAAGTGATAA
102914596 ATGTGATCAA
Statistics
Matches: 103, Mismatches: 7, Indels: 26
0.76 0.05 0.19
Matches are distributed among these distances:
44 14 0.14
45 2 0.02
46 1 0.01
47 4 0.04
48 3 0.03
49 1 0.01
50 39 0.38
51 39 0.38
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (44 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGTTTTAGCTACACTTA
Found at i:102914573 original size:50 final size:51
Alignment explanation
Indices: 102914436--102914595 Score: 268
Period size: 51 Copynumber: 3.2 Consensus size: 51
102914426 ACGTCTGATC
* *
102914436 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
1 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAATGACA
102914487 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAATGACA
1 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAATGACA
* * *
102914538 AGTGATAAGT-ATAAGTGGTAGTTTTAGTTGCACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAATGACA
102914588 AGTGATAA
1 AGTGATAA
102914596 ATGTGATCAA
Statistics
Matches: 104, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
50 45 0.43
51 59 0.57
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (51 bp):
AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAATGACA
Found at i:102918037 original size:60 final size:60
Alignment explanation
Indices: 102917958--102918141 Score: 314
Period size: 60 Copynumber: 3.1 Consensus size: 60
102917948 AATACTAAAC
* *
102917958 TAAACACAACAACTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
1 TAAACACAAAAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
* *
102918018 TAAACATAAAAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAAATA
1 TAAACACAAAAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
* *
102918078 CAAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 TAAACACAAAAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
102918138 TAAA
1 TAAA
102918142 AAATTACATT
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 115 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.33
Consensus pattern (60 bp):
TAAACACAAAAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
Found at i:102918048 original size:27 final size:27
Alignment explanation
Indices: 102918018--102918108 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 27
102918008 AAAATAATTA
102918018 TAAACATAAAAATTTATAACATAATCC
1 TAAACATAAAAATTTATAACATAATCC
* *
102918045 TAAATTACTAATAAATTAATTT-TAAAATAAATAC
1 T-AA--AC--ATAAA--AATTTATAACAT-AATCC
*
102918079 -AAACACAAAAATTTATAACATAATCC
1 TAAACATAAAAATTTATAACATAATCC
102918105 TAAA
1 TAAA
102918109 TTACTAACAA
Statistics
Matches: 49, Mismatches: 5, Indels: 20
0.66 0.07 0.27
Matches are distributed among these distances:
26 9 0.18
27 9 0.18
28 6 0.12
30 4 0.08
32 7 0.14
33 5 0.10
34 9 0.18
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (27 bp):
TAAACATAAAAATTTATAACATAATCC
Found at i:102918317 original size:14 final size:14
Alignment explanation
Indices: 102918298--102918336 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
102918288 TTACCTTTTT
*
102918298 TTTTCTTTCTTCTC
1 TTTTCTCTCTTCTC
*
102918312 TTTTCTCTCTTTTC
1 TTTTCTCTCTTCTC
102918326 -TTTCTCTCTTC
1 TTTTCTCTCTTC
102918337 CGGTGGCTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTCTCTTCTC
Found at i:102918466 original size:21 final size:21
Alignment explanation
Indices: 102918428--102918468 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
102918418 CCAAGCAATA
* *
102918428 TACAGTGTAGTAGCAGAGGGG
1 TACAGTGCAGCAGCAGAGGGG
*
102918449 TACAGTGCAGCAGTAGAGGG
1 TACAGTGCAGCAGCAGAGGG
102918469 ACTCTTGGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.41, T:0.17
Consensus pattern (21 bp):
TACAGTGCAGCAGCAGAGGGG
Found at i:102919037 original size:13 final size:14
Alignment explanation
Indices: 102919021--102919062 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
102919011 TCTAAATTTT
102919021 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
102919034 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
102919049 ATTTTAAATAATAT
1 ATTTT-AATAATAT
102919063 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:102919047 original size:16 final size:16
Alignment explanation
Indices: 102919025--102919061 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
102919015 AATTTTATTT
102919025 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
102919042 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
102919057 TAATA
1 TAATA
102919062 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:102923839 original size:26 final size:26
Alignment explanation
Indices: 102923735--102923836 Score: 168
Period size: 26 Copynumber: 3.9 Consensus size: 26
102923725 CATGAAATTC
102923735 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
102923761 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
102923787 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
102923813 TTATCATGGAATATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
102923837 TATATCAATT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:102928667 original size:12 final size:12
Alignment explanation
Indices: 102928650--102928680 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
102928640 AGTACTACCT
102928650 CGGCCTCGACCA
1 CGGCCTCGACCA
102928662 CGGCCTCGACCA
1 CGGCCTCGACCA
102928674 CGGCCTC
1 CGGCCTC
102928681 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:102930319 original size:25 final size:27
Alignment explanation
Indices: 102930282--102930334 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
102930272 TCAAACATGC
102930282 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
102930308 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
102930334 A
1 A
102930335 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:102931859 original size:24 final size:24
Alignment explanation
Indices: 102931789--102931893 Score: 158
Period size: 26 Copynumber: 4.2 Consensus size: 24
102931779 CATGAAATTC
102931789 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAA-CCA
102931815 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAA-CCA
*
102931841 TTATCATGGA-ATTTACCTAACCA
1 TTATCATGAACATTTACCTAACCA
102931864 TTATCATGAACATTTACCTAACCA
1 TTATCATGAACATTTACCTAACCA
102931888 TTATCA
1 TTATCA
102931894 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
23 12 0.16
24 29 0.38
25 1 0.01
26 34 0.45
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (24 bp):
TTATCATGAACATTTACCTAACCA
Found at i:102931872 original size:49 final size:48
Alignment explanation
Indices: 102931801--102931893 Score: 161
Period size: 48 Copynumber: 1.9 Consensus size: 48
102931791 ATCATGAAAC
102931801 ATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGA
1 ATTTACCTAACCCATTATCATG-AACATTTACCTAA-CCATTATCATGGA
102931851 ATTTACCTAA-CCATTATCATGAACATTTACCTAACCATTATCA
1 ATTTACCTAACCCATTATCATGAACATTTACCTAACCATTATCA
102931894 ATTTGTATCA
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
47 9 0.21
48 13 0.30
49 11 0.26
50 10 0.23
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (48 bp):
ATTTACCTAACCCATTATCATGAACATTTACCTAACCATTATCATGGA
Found at i:102936029 original size:25 final size:27
Alignment explanation
Indices: 102935992--102936044 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
102935982 TCAAACATGC
102935992 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
102936018 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
102936044 A
1 A
102936045 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:102937543 original size:26 final size:26
Alignment explanation
Indices: 102937507--102937614 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
102937497 CATGAAATTC
102937507 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
102937533 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
102937559 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
102937585 TTATCATG-AACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
102937609 TTATCA
1 TTATCA
102937615 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
24 9 0.12
25 12 0.15
26 57 0.73
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:102937927 original size:21 final size:19
Alignment explanation
Indices: 102937891--102937934 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
102937881 TTACACGTTC
*
102937891 TATATATTTTTATATTATG
1 TATATATTTTAATATTATG
102937910 TATATATTTTAA-ATTAT-
1 TATATATTTTAATATTATG
102937927 TATATATT
1 TATATATT
102937935 AAGTATTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 5 0.21
19 11 0.46
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TATATATTTTAATATTATG
Found at i:102937930 original size:17 final size:18
Alignment explanation
Indices: 102937891--102937934 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
102937881 TTACACGTTC
*
102937891 TATATATTTTTATATTATG
1 TATATA-TTTTAAATTATG
102937910 TATATATTTTAAATTAT-
1 TATATATTTTAAATTATG
102937927 TATATATT
1 TATATATT
102937935 AAGTATTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 10 0.42
19 6 0.25
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TATATATTTTAAATTATG
Found at i:102938419 original size:17 final size:19
Alignment explanation
Indices: 102938397--102938529 Score: 118
Period size: 18 Copynumber: 7.4 Consensus size: 19
102938387 ATGGAAATAT
102938397 AATCTT-CA-ATGATATAC
1 AATCTTACATATGATATAC
* *
102938414 AATCTTAGATATGATATGC
1 AATCTTACATATGATATAC
* *
102938433 AATCTTAGATATGAT-TGC
1 AATCTTACATATGATATAC
* * *
102938451 AATCTCAGATATGAT-TGC
1 AATCTTACATATGATATAC
*
102938469 AATCTTAGATATG--ATAC
1 AATCTTACATATGATATAC
* *
102938486 AATCTTAGATATGAT-TGC
1 AATCTTACATATGATATAC
*
102938504 AATCTTAGATATGATATAC
1 AATCTTACATATGATATAC
102938523 AATCTTA
1 AATCTTA
102938530 GAAGATATGA
Statistics
Matches: 103, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
17 21 0.20
18 50 0.49
19 32 0.31
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATAC
Found at i:102938453 original size:18 final size:18
Alignment explanation
Indices: 102938413--102938531 Score: 186
Period size: 18 Copynumber: 6.6 Consensus size: 18
102938403 CAATGATATA
102938413 CAATCTTAGATATGATATG
1 CAATCTTAGATATGAT-TG
102938432 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTG
*
102938450 CAATCTCAGATATGATTG
1 CAATCTTAGATATGATTG
*
102938468 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTG
102938485 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTG
*
102938503 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TG
102938522 CAATCTTAGA
1 CAATCTTAGA
102938532 AGATATGATT
Statistics
Matches: 93, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
17 16 0.17
18 50 0.54
19 27 0.29
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (18 bp):
CAATCTTAGATATGATTG
Found at i:102938496 original size:35 final size:35
Alignment explanation
Indices: 102938410--102938531 Score: 190
Period size: 35 Copynumber: 3.4 Consensus size: 35
102938400 CTTCAATGAT
102938410 ATACAATCTTAGATATGATATGCAATCTTAGATATG
1 ATACAATCTTAGATATGAT-TGCAATCTTAGATATG
* *
102938446 ATTGCAATCTCAGATATGATTGCAATCTTAGATATG
1 A-TACAATCTTAGATATGATTGCAATCTTAGATATG
102938482 ATACAATCTTAGATATGATTGCAATCTTAGATATG
1 ATACAATCTTAGATATGATTGCAATCTTAGATATG
102938517 ATATACAATCTTAGA
1 --ATACAATCTTAGA
102938532 AGATATGATT
Statistics
Matches: 79, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 32 0.41
36 18 0.23
37 29 0.37
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (35 bp):
ATACAATCTTAGATATGATTGCAATCTTAGATATG
Found at i:102938501 original size:53 final size:55
Alignment explanation
Indices: 102938405--102938531 Score: 213
Period size: 53 Copynumber: 2.3 Consensus size: 55
102938395 ATAATCTTCA
102938405 ATGATATACAATCTTAGATATGATATGCAATCTTAGATATGATTGCAATCTCAGAT
1 ATGATATACAATCTTAGATATGATA-GCAATCTTAGATATGATTGCAATCTCAGAT
* *
102938461 ATGAT-TGCAATCTTAGATATGATA-CAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATACAATCTTAGATATGATAGCAATCTTAGATATGATTGCAATCTCAGAT
102938514 ATGATATACAATCTTAGA
1 ATGATATACAATCTTAGA
102938532 AGATATGATT
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
53 33 0.49
54 11 0.16
55 18 0.27
56 5 0.07
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (55 bp):
ATGATATACAATCTTAGATATGATAGCAATCTTAGATATGATTGCAATCTCAGAT
Found at i:102939062 original size:15 final size:16
Alignment explanation
Indices: 102939012--102939077 Score: 73
Period size: 16 Copynumber: 3.9 Consensus size: 16
102939002 TCTAAACCAA
102939012 TATATAATATATTTTT
1 TATATAATATATTTTT
102939028 TATATAAT-TATTATTCT
1 TATATAATATATT-TT-T
102939045 TATA-AATATATTTTT
1 TATATAATATATTTTT
102939060 TATTATATATTATATTTT
1 TA-TATA-A-TATATTTT
102939078 AAATTTATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
15 7 0.16
16 17 0.40
17 10 0.23
18 1 0.02
19 8 0.19
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATAATATATTTTT
Found at i:102939102 original size:26 final size:26
Alignment explanation
Indices: 102939054--102939103 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
102939044 TTATAAATAT
* * * *
102939054 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
102939080 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
102939104 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:102941198 original size:2 final size:2
Alignment explanation
Indices: 102941191--102941215 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
102941181 TGTACGTAAA
102941191 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
102941216 ATAGTAATAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:102941237 original size:23 final size:23
Alignment explanation
Indices: 102941211--102941261 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
102941201 ATATATATAT
102941211 ATATAATAGTA-ATAGTGTTAGAA
1 ATATAATA-TATATAGTGTTAGAA
* *
102941234 ATATACTATATATAGTGTTTGAA
1 ATATAATATATATAGTGTTAGAA
*
102941257 GTATA
1 ATATA
102941262 TACATAAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.43, C:0.02, G:0.16, T:0.39
Consensus pattern (23 bp):
ATATAATATATATAGTGTTAGAA
Found at i:102941705 original size:3 final size:3
Alignment explanation
Indices: 102941630--102941696 Score: 82
Period size: 3 Copynumber: 21.7 Consensus size: 3
102941620 AAGTACCTAT
*
102941630 TAA TAA TAT TATA TAA -ATA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA
*
102941677 TAA TAA TAA TAA CAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
102941697 GCAATAATAG
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 1 0.02
3 49 0.88
4 6 0.11
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:102942032 original size:3 final size:3
Alignment explanation
Indices: 102942026--102942177 Score: 182
Period size: 3 Copynumber: 49.7 Consensus size: 3
102942016 CTATAAGTAG
*
102942026 TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
102942074 TAT TAA GT-A TAG T-A TAAA TAA TATG TACA TAA CAG TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA T-AA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA
*
102942121 GTAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
102942167 TAA TAA TAA TA
1 TAA TAA TAA TA
102942178 TAGAAATTCA
Statistics
Matches: 128, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
2 2 0.02
3 116 0.91
4 10 0.08
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:102942235 original size:16 final size:16
Alignment explanation
Indices: 102942202--102942234 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
102942192 AACTAAACAT
*
102942202 AATATAATAATATTAA
1 AATAAAATAATATTAA
102942218 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
102942233 AA
1 AA
102942235 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:102944046 original size:14 final size:15
Alignment explanation
Indices: 102944022--102944050 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
102944012 TTTTTTTTTT
102944022 GAAAGGCAGAAATTG
1 GAAAGGCAGAAATTG
102944037 GAAA-GCAGAAATTG
1 GAAAGGCAGAAATTG
102944051 AAAATACCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.07, G:0.31, T:0.14
Consensus pattern (15 bp):
GAAAGGCAGAAATTG
Found at i:102944988 original size:460 final size:450
Alignment explanation
Indices: 102944045--102946262 Score: 2326
Period size: 460 Copynumber: 4.8 Consensus size: 450
102944035 TGGAAAGCAG
* * * * * *
102944045 AAATTGAAAATACCTCAGCATGCCCTGACGCTCAACTCACCT-CTCGCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTACTCGCAATATGAGTTGAATTTT
*
102944109 GAAAAACAGAAATTGAAA-T--CTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
65 G-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * **
102944171 CGATTTTTTTTTTTGAAAAACAGAAATTGAAAATACATCAGCATGTCTTGAGGCTCAACTCATTT
129 TGATTTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCT
* * *
102944236 CTTGCAATCTGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAA
194 CTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
* * *
102944301 CTCATTTCTTGCAATATGAGTTGAATTTTGAAACATAAATTAAGAAACAAAAATTGCCAA-TACC
259 CTCATTTCTCGCAATATGAGTTGAATTTTG-----T---TTAACAAACAAAAATTG-AAATTACC
* * * *
102944365 TCAGCGTGCCCCAAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTTTTTTGAAAGATAGA
315 TCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTT-AAAGACAGA
102944430 AATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
378 AATTGAAAATACCTCAGCATGTG-ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
102944494 TGAAAACAT
442 TGAAAACAT
* *
102944503 AAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTACTCGCAATATGAGTTGAATTTTG
*
102944568 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCG
66 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * **
102944633 ATTTTTTTTTTTTGAAAAACAGAAATTGAAAATACATTAGCATGTCTTGAGGCTCAACTCATTTC
131 A-TTTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTC
* * *
102944698 TTGCAATCTGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAAC
195 TCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAAC
* *
102944763 TTATTTCTCGCAATATGAGTTGAATTTTGAAACATAAATTAACAAACAAAAATTGCCAA-TACCT
260 TCATTTCTCGCAATATGAGTTGAATTTTG-----T---TTAACAAACAAAAATTG-AAATTACCT
* * * *
102944827 TAGCGTGCCCCGAGGCTTAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTGAAAGATAGAAA
316 CAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT-AAAGACAGAAA
102944892 TTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
380 TTGAAAATACCTCAGCATGTG-ACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
102944956 AAAACAT
444 AAAACAT
* * * *
102944963 AAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTTATTACTCGCAATATGAGTTGAAGTTTG
1 AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTACTCGCAATATGAGTTGAATTTTG
*
102945028 AAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
66 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * **
102945093 A------TTTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCT
131 ATTTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCT
* * * * *
102945151 CGCAATATGAGTTGATTTTTGTTTTGAAAAACAGAAATTGAAAATACATCAGCATGGCTTGAGGC
196 CGCAATATGAGTTGA-----ATTTTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGC
*
102945216 TCAACTCATTTCTCGCAATATGAGTTGAATTTTG----A-AAACAGAAATTGAAATTACCTCAGC
255 TCAACTCATTTCTCGCAATATGAGTTGAATTTTGTTTAACAAACAAAAATTGAAATTACCTCAGC
* * **
102945276 GTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA---TTTTTTAACA-ACAGAAATTGA
320 GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAA-AGACAGAAATTGA
* * *
102945337 AATTACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTGAAA
384 AAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA
*
102945400 GACAA
447 -ACAT
* * * *
102945405 AAATTGAAAATACCTCAGCATGTCTAGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTACTCGCAATATGAGTTGA--ATTT
* * * * *
102945470 TGACAGCAAAAATTGAAATTACCTCAGCGTGTCCTCAGGCTCAACTCACCTCTCGCAATATTAGT
64 TGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
102945535 TGAATTTTTTTGAAAAATATAAATTGAAAAGA-AGAAATTGAAATTACCTCAACATGCCTTGAGG
129 TG-ATTTTTTT------T-T---TTGAAAA-ACAGAAATTGAAAATACCTCAGCATGTCTTGAGG
* * * * * * *
102945599 CTCAACTCACATCTCGCAGTATGAGTTGATTTTTCGAAAGACAAAAATTGAAAATACCTTAGCAT
182 CTCAACTCACCTCTCGCAATATGAGTTGAATTTT-GAAA-ACAGAAATTGAAAATACCTCAACGT
* *
102945664 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTT-TTTGAC-AACAGAAATTGAAA
245 GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGTTTAACAAACAAAAATTGAAA
* *
102945726 TTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAAT
310 TTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTT------T
* *
102945791 ATAAATTGAAAAGCAGAAATTGAAATTACCTCA--ACGTG-CCTTGAGGCTCAACTCACCTCTCG
368 -TAAA--G---A-CAGAAATTGAAAATACCTCAGCATGTGACC-TGAGGCTCAACTCACCTCTCG
*
102945853 CAATATGAGTTGATTTTTGAAAAACAG
425 CAATATGAGTTGATTTTTG-AAAACAT
* * * *
102945880 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTACTCGCAATATGA---G----TTG
* * * *
102945945 AAAAATAGATTGAAACACAAAAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCT
59 ---AAT--TTTGAAA-ACAGAAATTGA-AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
* *
102946009 CGCAATATGAGTTGA------TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGG
117 CGCAATATGAGTTGATTTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGG
*
102946068 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGAAATTGAAAAT
182 CTCAACTCACCTCTCGCAATATGAGTTGAATTTTG---------AA---AACAGAAATTGAAAAT
*
102946133 ACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTT-TTTGAA-AAGC
235 ACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGTTT-AACAAAC
* * * ** * **
102946195 AGAAATTGAAAATACGTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
299 AAAAATTGAAATTACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
102946260 TTT
364 TTT
102946263 GAAACAGAAA
Statistics
Matches: 1551, Mismatches: 113, Indels: 171
0.85 0.06 0.09
Matches are distributed among these distances:
438 2 0.00
439 35 0.02
441 32 0.02
442 63 0.04
444 65 0.04
445 54 0.03
446 1 0.00
451 1 0.00
452 56 0.04
453 6 0.00
457 35 0.02
458 182 0.12
460 326 0.21
461 232 0.15
462 57 0.04
463 1 0.00
464 4 0.00
468 2 0.00
469 66 0.04
470 2 0.00
471 3 0.00
472 1 0.00
473 1 0.00
475 58 0.04
476 6 0.00
477 58 0.04
478 1 0.00
479 75 0.05
480 59 0.04
482 3 0.00
483 1 0.00
485 7 0.00
486 54 0.03
487 2 0.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (450 bp):
AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTACTCGCAATATGAGTTGAATTTTG
AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACT
CATTTCTCGCAATATGAGTTGAATTTTGTTTAACAAACAAAAATTGAAATTACCTCAGCGTGCCC
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAGACAGAAATTGAAAATACC
TCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAT
Found at i:102945657 original size:74 final size:73
Alignment explanation
Indices: 102945560--102945781 Score: 275
Period size: 74 Copynumber: 3.0 Consensus size: 73
102945550 AATATAAATT
* * *
102945560 GAAAAGAAGAAATTGAAATTACCTCAACATGCCTTGAGGCTCAACTCACATCTCGCAGTATGAGT
1 GAAAACAA-AAATTGAAATTACCTCAGCATGCCTTGAGGCTCAACTCACATCTCGCAATATGAGT
102945625 TGATTTTTC
65 TGATTTTTC
* * * **
102945634 GAAAGACAAAAATTGAAAATACCTTAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 GAAA-ACAAAAATTGAAATTACCTCAGCATGCCTTGAGGCTCAACTCACATCTCGCAATATGAGT
*
102945699 TGATTTTTTT
65 TGA-TTTTTC
* * * *
102945709 GACAACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGT
1 GAAAACAAAAATTGAAATTACCTCAGCATG-CCTTGAGGCTCAACTCACATCTCGCAATATGAGT
102945773 TGAATTTTT
65 TG-ATTTTT
102945782 TTGAAAAATA
Statistics
Matches: 127, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
74 114 0.90
75 13 0.10
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (73 bp):
GAAAACAAAAATTGAAATTACCTCAGCATGCCTTGAGGCTCAACTCACATCTCGCAATATGAGTT
GATTTTTC
Found at i:102945676 original size:164 final size:163
Alignment explanation
Indices: 102945405--102945710 Score: 434
Period size: 164 Copynumber: 1.9 Consensus size: 163
102945395 TGAAAGACAA
* * **
102945405 AAATTGAAAATACCTCAGCATGTCTAGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACATGCCTAGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTT
* * * * *
102945470 TGACAGCAAAAATTGAAATTACCTCAGCGTGTCCTCAGGCTCAACTCACCTCTCGCAATATTAGT
66 CGAAAGCAAAAATTGAAAATACCTCAGCATGTCCTCAGGCTCAACTCACCTCTCGCAATATGAGT
102945535 TGAATTTTTTTGAAAAATATAAATTGAAAAGAAG
131 TG-ATTTTTTTGAAAAATATAAATTGAAAAGAAG
* * *
102945569 AAATTGAAATTACCTCAACATGCCTTGAGGCTCAACTCACATCTCGCAGTATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACATGCCTAGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTT
* * * **
102945633 CGAAAGACAAAAATTGAAAATACCTTAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 CGAAAG-CAAAAATTGAAAATACCTCAGCATGTCCTCAGGCTCAACTCACCTCTCGCAATATGAG
102945698 TTGATTTTTTTGA
130 TTGATTTTTTTGA
102945711 CAACAGAAAT
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
163 19 0.15
164 105 0.85
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (163 bp):
AAATTGAAAATACCTCAACATGCCTAGAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTT
CGAAAGCAAAAATTGAAAATACCTCAGCATGTCCTCAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGAAAAATATAAATTGAAAAGAAG
Found at i:102945750 original size:238 final size:237
Alignment explanation
Indices: 102945327--102946266 Score: 1173
Period size: 238 Copynumber: 3.9 Consensus size: 237
102945317 TTTTTAACAA
* *
102945327 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
* *
102945392 TTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTAGAGGCTCAACTCATTTCTCGCAATAT
65 TTTCGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
* * *
102945457 GAGTTGATTTTTTTGACAGCAAAAATTGAAATTACCTCAGCGTGTCCTCAGGCTCAACTCACCTC
130 GAGTTGATTTTTTTGAAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
*
102945522 TCGCAATATTAGTTGAATTTTTTTGAAAAATATAAATTGAAAAG
195 TCGCAATATGAGTTG-ATTTTTTTGAAAAATATAAATTGAAAAG
* * * *
102945566 AAGAAATTGAAATTACCTCAACATG-CCTTGAGGCTCAACTCACATCTCGCAGTATGAGTTGATT
1 CAGAAATTGAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
102945630 TTTCGAAAGACAAAAATTGAAAATACCTTAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
65 TTTCGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
* *
102945695 GAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
130 GAGTTGATTTTTTTGAAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
102945760 TCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAG
195 TCGCAATATGAGTTG-ATTTTTTTGAAAAATATAAATTGAAAAG
102945804 CAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 CAGAAATTGAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * * * * *
102945868 TTT-GAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATAT
65 TTTCGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
* *
102945932 GAGTTGATTTTTGAAAAATAGATTGAAACACAAAAATTGACAA-TACCTCAGCGTGCCCCGAGGC
130 GAGTTGA-TTTT------T---TTGAAA-ACAAAAATTGA-AATTACCTCAGCGTGTCCTGAGGC
102945996 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG----------A---AAAA-
183 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAAG
* *
102946035 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * * *
102946100 TTGAAAAACATAAATTGAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTC
66 TT------C-GAAA--G-ACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTC
* * * ** *
102946165 TCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATACGTCAATGTGTCTTGAGGCTC
121 TCGCAATATGAGTTGATTTTTTTGAAAA-CAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTC
102946230 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
185 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
102946267 CAGAAATAAA
Statistics
Matches: 628, Mismatches: 41, Indels: 66
0.85 0.06 0.09
Matches are distributed among these distances:
231 65 0.10
232 64 0.10
234 6 0.01
235 2 0.00
237 61 0.10
238 238 0.38
239 58 0.09
241 4 0.01
242 59 0.09
244 1 0.00
245 6 0.01
247 6 0.01
248 56 0.09
249 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (237 bp):
CAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTCGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATG
AGTTGATTTTTTTGAAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAAG
Found at i:102945782 original size:74 final size:74
Alignment explanation
Indices: 102944037--102945802 Score: 1179
Period size: 72 Copynumber: 23.2 Consensus size: 74
102944027 GCAGAAATTG
* * * *
102944037 GAAAGCAGAAATTGAAAATACCTCAGCATGCCCTGACGCTCAACTCACCTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
102944102 G-A-TTTTT
66 GAATTTTTT
*
102944109 GAAAAACAGAAATTG-AAAT--CTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 G-AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
102944171 CGATTTTTTTTTTT
65 TGA----ATTTTTT
* * * ** * *
102944185 GAAAAACAGAAATTGAAAATACATCAGCATGTCTTGAGGCTCAACTCATTTCTTGCAATCTGAGT
1 G-AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
102944250 TGAA--TTTT
65 TGAATTTTTT
* * * ** *
102944258 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
102944323 GAA--TTTT
66 GAATTTTTT
* * ** * *** * *
102944330 G-AAACATAAATTAAGAAACAAAAAT-TGCCAATACCTCAGCGTGCCCCAAGGCTCAACTCACCT
1 GAAAACAGAAATT--GAAA-ATACCTCAGCGTGT-CCT--GAG-G-CTCAA----C---TCACCT
* * *
102944393 CTCACATTATGAGTTGATTTTTTTTTT
51 CTCGCAATATGAGTTGA---ATTTTTT
* *
102944420 GAAAGATAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATG
1 GAAA-ACAGAAATTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATG
102944484 AGTTG-A-TTTTT
62 AGTTGAATTTTTT
* * * * *
102944495 GAAAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCA-TTACTCGCAATATGAGT
1 GAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCT-CTCGCAATATGAGT
102944559 TGAA--TTTT
65 TGAATTTTTT
* *
102944567 GAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTC
1 GAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
102944632 GATTTTTTTTTTTT
66 GA-----ATTTTTT
* * * * ** * *
102944646 GAAAAACAGAAATTGAAAATACATTAGCATGTCTTGAGGCTCAACTCATTTCTTGCAATCTGAGT
1 G-AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
102944711 TGAA--TTTT
65 TGAATTTTTT
* * * * **
102944719 GAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTTATTTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
102944784 GAA--TTTT
66 GAATTTTTT
* *** *** * * * * * *
102944791 G-AAACATAAATT-AACAA-ACAAAAATTGCCAATACCTTAGCGTGCCCCGAGGCTTAACTCAC-
1 GAAAACAGAAATTGAA-AATAC-CTCA--GCGTGT-CC-T-GAG-G-CTC-A-ACTCACCTCTCG
* * *
102944852 C--TCTCGCATTATGAGTTGATTTTTTTTT
55 CAATAT-G-AGT-TGA-AT--TTTT----T
* *
102944880 GAAAGATAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATG
1 GAAA-ACAGAAATTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATG
102944944 AGTTG-A-TTTTT
62 AGTTGAATTTTTT
* * * * * *
102944955 GAAAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTTA-TTACTCGCAATATGAGT
1 GAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCT-CTCGCAATATGAGT
*
102945019 TGAA--GTTT
65 TGAATTTTTT
* *
102945027 GAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
102945092 G-A-TTTTT
66 GAATTTTTT
* *
102945099 GAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
102945164 GATTTTTGTTTT
66 GA--ATT-TTTT
* * * * **
102945176 GAAAAACAGAAATTGAAAATACATCAGCATGGCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 G-AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
102945241 TGAA--TTTT
65 TGAATTTTTT
* **
102945249 GAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
102945314 G-ATTTTTT
66 GAATTTTTT
* *
102945322 -AACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGT
1 GAA-AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
102945386 TGATTTTTTT
65 TGAATTTTTT
* * **
102945396 GAAAGACAAAAATTGAAAATACCTCAGCATGT-CTAGAGGCTCAACTCATTTCTCGCAATATGAG
1 GAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAG
*
102945460 TTGATTTTTTT
64 TTGAATTTTTT
* * * * * *
102945471 GACAGCAAAAATTGAAATTACCTCAGCGTGTCCTCAGGCTCAACTCACCTCTCGCAATATTAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
102945536 GAATTTTTTT
66 GAA-TTTTTT
* * * ** *** *** * * * * *
102945546 GAAAAATATAAATTGAAAAGA--AGAAATTGAAATTA-CCTCAACATGCCTTGAGGCTCAACTCA
1 G-AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAAC-T--C---A-CCTC-TCGCA
* *
102945608 CATCTCGCAGTATGAGTTGATTTTT
57 -ATAT-G-AGT-TGA-AT--TTTTT
* * * * **
102945633 CGAAAGACAAAAATTGAAAATACCTTAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 -GAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
102945698 TTGATTTTTTT
64 TTGAATTTTTT
* *
102945709 GACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
102945774 GAATTTTTTT
66 GAA-TTTTTT
* *
102945784 GAAAAATATAAATTGAAAA
1 G-AAAACAGAAATTGAAAA
102945803 GCAGAAATTG
Statistics
Matches: 1338, Mismatches: 232, Indels: 244
0.74 0.13 0.13
Matches are distributed among these distances:
70 44 0.03
71 28 0.02
72 449 0.34
73 109 0.08
74 169 0.13
75 100 0.07
76 57 0.04
77 13 0.01
78 67 0.05
79 54 0.04
80 92 0.07
81 4 0.00
82 7 0.01
83 4 0.00
84 14 0.01
85 30 0.02
86 3 0.00
87 15 0.01
88 18 0.01
89 9 0.01
90 19 0.01
91 20 0.01
92 13 0.01
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (74 bp):
GAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GAATTTTTT
Found at i:102945883 original size:73 final size:73
Alignment explanation
Indices: 102945796--102945949 Score: 247
Period size: 73 Copynumber: 2.1 Consensus size: 73
102945786 AAAATATAAA
*
102945796 TTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATG
102945860 AGTTGATTT
65 AGTTGATTT
* ** *
102945869 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGA
1 TTGAAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
102945934 GTTGATTT
66 GTTGATTT
102945942 TTGAAAAA
1 TTGAAAAA
102945950 TAGATTGAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
73 73 0.97
74 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:102945969 original size:85 final size:85
Alignment explanation
Indices: 102945869--102946034 Score: 253
Period size: 85 Copynumber: 2.0 Consensus size: 85
102945859 GAGTTGATTT
* * * ** *
102945869 TTGAAAAACAGAAATTGA-AATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATG
1 TTGAAAAACAAAAATTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATG
102945933 AGTTGATTTTTGAAAAATAGA
65 AGTTGATTTTTGAAAAATAGA
*
102945954 TTGAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
102946019 GTTGATTTTTGAAAAA
66 GTTGATTTTTGAAAAA
102946035 CAGAAATTGA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 71 0.97
86 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (85 bp):
TTGAAAAACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAATAGA
Found at i:102946019 original size:158 final size:160
Alignment explanation
Indices: 102945634--102946260 Score: 872
Period size: 158 Copynumber: 3.9 Consensus size: 160
102945624 TTGATTTTTC
* * * * **
102945634 GAAAGACAAAAATTGAAAATACCTTAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
1 GAAA-ACAAAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
102945699 TGATTTTTTTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
65 TGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
*
102945763 CAATATGAGTTGAATTTTTTTGAAAAATATAAATT
129 CAATATGAGTTG-A--TTTTTGAAAAACATAAATT
* *
102945798 GAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 GAAAA-CAAAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
* ** *
102945863 TGA-TTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGT
65 TGATTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
*
102945927 AATATGAGTTGATTTTTG-AAAA-ATAGATT
130 AATATGAGTTGATTTTTGAAAAACATAAATT
* * **
102945956 GAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 GAAA-ACAAAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
102946021 TGA-TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
65 TGATTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
102946085 AATATGAGTTGATTTTTGAAAAACATAAATT
130 AATATGAGTTGATTTTTGAAAAACATAAATT
* * **
102946116 G--AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 GAAAACAAAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * ** *
102946179 GATTTTTTTGAAAAGCAGAAATTGAAAATACGTCAATGTGTCTTGAGGCTCAACTCACCTCTCGC
66 GA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
102946244 AATATGAGTTGATTTTT
130 AATATGAGTTGATTTTT
102946261 TTGAAACAGA
Statistics
Matches: 419, Mismatches: 37, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
157 55 0.13
158 142 0.34
159 82 0.20
160 13 0.03
162 7 0.02
163 62 0.15
164 58 0.14
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (160 bp):
GAAAACAAAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTGAAAAACATAAATT
Found at i:102946073 original size:73 final size:73
Alignment explanation
Indices: 102945954--102946260 Score: 371
Period size: 73 Copynumber: 4.0 Consensus size: 73
102945944 GAAAAATAGA
* * * * * *
102945954 TTGAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
102946019 GTTGATTT
66 GTTGATTT
*
102946027 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
102946092 GTTGATTT
66 GTTGATTT
* **
102946100 TTGAAAAACATAAATTGAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTC
1 TTG--------AAA---AACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTC
102946165 TCGCAATATGAGTTGATTTTT
55 TCGCAATATGAGTTGA--TTT
* * * *
102946186 TTGAAAAGCAGAAATTGAAAATACGTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
102946251 GTTGATTT
66 GTTGATTT
102946259 TT
1 TT
102946261 TTGAAACAGA
Statistics
Matches: 207, Mismatches: 14, Indels: 26
0.84 0.06 0.11
Matches are distributed among these distances:
73 76 0.37
75 59 0.29
78 3 0.01
81 3 0.01
84 60 0.29
86 6 0.03
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:102946174 original size:84 final size:77
Alignment explanation
Indices: 102945965--102946260 Score: 352
Period size: 84 Copynumber: 3.8 Consensus size: 77
102945955 TGAAACACAA
* * * **
102945965 AAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTA
*
102946029 --GAAA-AACAG
66 ACAAAAGAACAG
* *
102946038 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-
102946103 AAAAACATAAATTGAACAG
65 ---AACA-AAA--GAACAG
** *
102946122 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTA
**
102946187 TGAAAAG--CAG
66 ACAAAAGAACAG
* *
102946197 AAATTGAAAATACGTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
102946261 TTGAAACAGA
Statistics
Matches: 197, Mismatches: 15, Indels: 20
0.85 0.06 0.09
Matches are distributed among these distances:
73 61 0.31
75 63 0.32
77 1 0.01
79 3 0.02
80 1 0.01
81 3 0.02
84 65 0.33
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (77 bp):
AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTA
ACAAAAGAACAG
Found at i:102946242 original size:75 final size:73
Alignment explanation
Indices: 102946117--102946273 Score: 260
Period size: 75 Copynumber: 2.1 Consensus size: 73
102946107 ACATAAATTG
**
102946117 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
102946182 TTTTTTGAA
66 TTTTTTG-A
* *
102946191 AAGCAGAAATTGAAAATACGTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
102946256 TTTTTTTGA
65 TTTTTTTGA
102946265 AACAGAAAT
1 AACAGAAAT
102946274 AAAAACATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
73 7 0.09
74 5 0.06
75 66 0.85
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (73 bp):
AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTGA
Found at i:102958628 original size:3 final size:3
Alignment explanation
Indices: 102958620--102958654 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
102958610 TAAAAGTACC
102958620 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
102958655 GTAAAAATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:102958825 original size:3 final size:3
Alignment explanation
Indices: 102958817--102959088 Score: 88
Period size: 3 Copynumber: 89.3 Consensus size: 3
102958807 AATATTTATA
* * * *
102958817 AAT AAT AAT AGT AAT -GT AAT AAT AAT AAT ATT AAGT -AT AGT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* * * * *
102958860 AAAT AAT ATGT ACAT AAC AGT AAC AAT AAT AAGT AAC AAT AAT AAT AAT
1 -AAT AAT A-AT A-AT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
102958909 AAT AAT AAT -AT AGA- AATT CAA- AA- AAGT AA- ACAT AAT -AT AAT
1 AAT AAT AAT AAT A-AT AA-T -AAT AAT AA-T AAT A-AT AAT AAT AAT
* * * * *
102958950 GAT ATT AA- AAT AA- AAT -AT ACACT AAT ATT TAT AAAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT -AAT AAT AAT AAT
* *
102958995 AA- ATAT AAT AAT AAT AAT AAT AAT AAT ATT AAGT -AT AGT -AT AAAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT
* * * *
102959040 AAT ATGT ACAT AAC AGT AAT AAT AAT AAGT AAC AAT AAT AAT AAT AAT
1 AAT A-AT A-AT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
102959088 A
1 A
102959089 TAGAAATTCA
Statistics
Matches: 196, Mismatches: 42, Indels: 62
0.65 0.14 0.21
Matches are distributed among these distances:
2 22 0.11
3 141 0.72
4 29 0.15
5 4 0.02
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:102959138 original size:176 final size:173
Alignment explanation
Indices: 102958815--102959137 Score: 526
Period size: 176 Copynumber: 1.8 Consensus size: 173
102958805 CTAATATTTA
*
102958815 TAAATAATAATAGTAATGTAATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAG
1 TAAATAATAATAATAA-GTAATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAG
*
102958880 TAACAATAATAAGTAACAATAATAATAATAATAATAATATAGAAATTCAAAAAAGTAAACATAAT
65 TAACAATAATAAGTAAC----A-AATAATAATAATAATATAGAAATTCAAAAAACTAAACATAAT
*
102958945 ATAATGATATTAAAATAAAATATACACTAATATTTATAAATAATAATAG
125 ATAATAATATTAAAATAAAATATACACTAATATTTATAAATAATAATAG
102958994 TAAAT-ATAATAATAA-TAATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGT
1 TAAATAATAATAATAAGTAATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGT
*
102959057 AATAATAATAAGTAAC-AATAATAATAATAATATAGAAATTCAAAAAAACTAAACATAATATAAT
66 AACAATAATAAGTAACAAATAATAATAATAATATAGAAATTC-AAAAAACTAAACATAATATAAT
102959121 AATATTAAAATAAAATA
130 AATATTAAAATAAAATA
102959138 ATTTAAAAAA
Statistics
Matches: 139, Mismatches: 4, Indels: 10
0.91 0.03 0.07
Matches are distributed among these distances:
170 25 0.18
171 37 0.27
176 63 0.45
178 9 0.06
179 5 0.04
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.31
Consensus pattern (173 bp):
TAAATAATAATAATAAGTAATAATAATAATATTAAGTATAGTATAAATAATATGTACATAACAGT
AACAATAATAAGTAACAAATAATAATAATAATATAGAAATTCAAAAAACTAAACATAATATAATA
ATATTAAAATAAAATATACACTAATATTTATAAATAATAATAG
Found at i:102959146 original size:16 final size:16
Alignment explanation
Indices: 102959113--102959145 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
102959103 AACTAAACAT
*
102959113 AATATAATAATATTAA
1 AATAAAATAATATTAA
102959129 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
102959144 AA
1 AA
102959146 AATATTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:102962612 original size:2 final size:2
Alignment explanation
Indices: 102962605--102962635 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
102962595 AGAAAGAAAA
102962605 AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
102962636 GGTCACAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:102965159 original size:1 final size:1
Alignment explanation
Indices: 102965153--102965249 Score: 68
Period size: 1 Copynumber: 97.0 Consensus size: 1
102965143 CTTCTATTTC
* * * * * * * * *
102965153 AAAAAAAAAAGAAAAAGAAAAAGAAAAGAAAAAAAAAAAAGAAAAAGAAAAAAGAAAAAAGAAAG
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *
102965218 GAAAAAGAAAAAAGAAAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
102965250 TGGAGAGACC
Statistics
Matches: 70, Mismatches: 26, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (1 bp):
A
Found at i:102965167 original size:6 final size:6
Alignment explanation
Indices: 102965153--102965249 Score: 110
Period size: 6 Copynumber: 15.8 Consensus size: 6
102965143 CTTCTATTTC
*
102965153 AAAAA- AAAAAG AAAAAG AAAAAG -AAAAG AAAAAAA AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG
*
102965200 AAAAAAG AAAAA- AGAAAGG AAAAAG AAAAAAG AAAAAAG AAAAAG AAAAA
1 -AAAAAG AAAAAG A-AAAAG AAAAAG -AAAAAG -AAAAAG AAAAAG AAAAA
102965250 TGGAGAGACC
Statistics
Matches: 81, Mismatches: 4, Indels: 13
0.83 0.04 0.13
Matches are distributed among these distances:
5 11 0.14
6 46 0.57
7 24 0.30
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:102965174 original size:7 final size:7
Alignment explanation
Indices: 102965153--102965249 Score: 108
Period size: 7 Copynumber: 15.4 Consensus size: 7
102965143 CTTCTATTTC
102965153 AAAA-AA
1 AAAAGAA
102965159 AAAAG-A
1 AAAAGAA
102965165 AAAAG-A
1 AAAAGAA
102965171 AAAAG--
1 AAAAGAA
102965176 AAAAGAA
1 AAAAGAA
102965183 AAAA-AA
1 AAAAGAA
102965189 AAAAG-A
1 AAAAGAA
102965195 AAAAGAA
1 AAAAGAA
102965202 AAAAGAA
1 AAAAGAA
102965209 AAAAG--
1 AAAAGAA
*
102965214 -AAAGGA
1 AAAAGAA
102965220 AAAAGAA
1 AAAAGAA
102965227 AAAAGAA
1 AAAAGAA
102965234 AAAAG-A
1 AAAAGAA
102965240 AAAAGAA
1 AAAAGAA
102965247 AAA
1 AAA
102965250 TGGAGAGACC
Statistics
Matches: 81, Mismatches: 1, Indels: 17
0.82 0.01 0.17
Matches are distributed among these distances:
4 4 0.05
5 5 0.06
6 34 0.42
7 38 0.47
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:102965192 original size:25 final size:26
Alignment explanation
Indices: 102965153--102965249 Score: 148
Period size: 25 Copynumber: 3.9 Consensus size: 26
102965143 CTTCTATTTC
102965153 AAAA-AAAAAAGAAAAAGAAAAAG--
1 AAAAGAAAAAAGAAAAAGAAAAAGAA
*
102965176 AAAAGAAAAAAAAAAAAGAAAAAGAA
1 AAAAGAAAAAAGAAAAAGAAAAAGAA
*
102965202 AAAAGAAAAAAG-AAAGGAAAAAGAA
1 AAAAGAAAAAAGAAAAAGAAAAAGAA
102965227 AAAAGAAAAAAGAAAAAGAAAAA
1 AAAAGAAAAAAGAAAAAGAAAAA
102965250 TGGAGAGACC
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
23 4 0.06
24 18 0.27
25 24 0.36
26 20 0.30
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (26 bp):
AAAAGAAAAAAGAAAAAGAAAAAGAA
Found at i:102966216 original size:44 final size:44
Alignment explanation
Indices: 102966164--102966296 Score: 128
Period size: 44 Copynumber: 3.0 Consensus size: 44
102966154 CAAGATTTGG
102966164 CATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGA
1 CATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGA
* * * * ** *
102966208 CATTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAG--CATGG
1 CATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGCAGATC-TGA
* * *
102966252 CATCCCTGTGTTTATAGGGAACA-AGTTGAACATAGCAGATTTGA
1 CATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATCTGA
102966296 C
1 C
102966297 TCTCAGATGT
Statistics
Matches: 67, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
42 1 0.01
43 12 0.18
44 39 0.58
45 15 0.22
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
CATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGA
Found at i:102966426 original size:119 final size:119
Alignment explanation
Indices: 102966281--102967149 Score: 1436
Period size: 119 Copynumber: 7.3 Consensus size: 119
102966271 AACAAGTTGA
* *
102966281 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAGCTTTCAGATTTTTATACT
1 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAACTTTCAGATGTTTATACT
102966346 GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
66 GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
* * *
102966400 ACATAGCAGATTTGACTCTCAAATGTTCTCAAATATAGTAGATCTAGCTTTCAGATGTTTATACT
1 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAACTTTCAGATGTTTATACT
*
102966465 GAAACAGATCCAAGATGATTTGGTATTTTTGTGTTTACAAGGAACAAATCGAGG
66 GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
102966519 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAAAC-TTCAGATGTTTATAC
1 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCT-AACTTTCAGATGTTTATAC
* * *
102966583 TGAAGCAGATCCAAGATGATTTGGTTTTCTTGTGTTTACAAGTAACAAATCGAGG
65 TGAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
* *
102966638 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAACAGATCTAGCTTTCAGATGTTTATACT
1 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAACTTTCAGATGTTTATACT
*
102966703 GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAAG
66 GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
102966757 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAAAC-TTCAGATGTTTATAC
1 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCT-AACTTTCAGATGTTTATAC
* *
102966821 TGAAGCAGATCTAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
65 TGAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
* *
102966876 ACATAGCAGATTTGACTTTCAGATGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATACT
1 ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAACTTTCAGATGTTTATACT
102966941 GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
66 GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
* * * *
102966995 ACATAGCAGATTCGACTCTCAGATGTTCTCAGACACATGGCAGATCTAACCTTCAGATGTTTATA
1 ACATAGCAGATTTGACTCTCAGATGTTCTCA-A-ATATAGCAGATCTAACTTTCAGATGTTTATA
* ** *
102967060 CTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAGAAACAAATCGAGG
64 CTGAA-ACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
* * *
102967117 ACATAGTATATTTGACTCTCATATGTTCTCAAA
1 ACATAGCAGATTTGACTCTCAGATGTTCTCAAA
102967150 CAGACTCCAG
Statistics
Matches: 706, Mismatches: 37, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
118 5 0.01
119 586 0.83
120 6 0.01
121 35 0.05
122 74 0.10
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (119 bp):
ACATAGCAGATTTGACTCTCAGATGTTCTCAAATATAGCAGATCTAACTTTCAGATGTTTATACT
GAAACAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGG
Found at i:102967775 original size:14 final size:15
Alignment explanation
Indices: 102967756--102967865 Score: 78
Period size: 18 Copynumber: 6.5 Consensus size: 15
102967746 AATCGTCAAT
102967756 GATATG-CAATCTTA
1 GATATGACAATCTTA
102967770 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
102967789 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
102967806 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
102967824 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
*
102967841 TATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
102967859 GATATGA
1 GATATGA
102967866 TATACAATCT
Statistics
Matches: 81, Mismatches: 2, Indels: 22
0.77 0.02 0.21
Matches are distributed among these distances:
14 6 0.07
15 2 0.02
17 27 0.33
18 28 0.35
19 17 0.21
20 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:102967778 original size:19 final size:19
Alignment explanation
Indices: 102967754--102967877 Score: 188
Period size: 19 Copynumber: 6.8 Consensus size: 19
102967744 ATAATCGTCA
102967754 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
102967773 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
102967792 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
102967809 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
102967827 ATGATA--CAATCTTATAT
1 ATGATATGCAATCTTAGAT
102967844 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
102967862 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
102967878 AAAGATATGA
Statistics
Matches: 96, Mismatches: 3, Indels: 12
0.86 0.03 0.11
Matches are distributed among these distances:
17 31 0.32
18 31 0.32
19 34 0.35
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:102967803 original size:17 final size:17
Alignment explanation
Indices: 102967762--102967877 Score: 151
Period size: 17 Copynumber: 6.5 Consensus size: 17
102967752 CAATGATATG
102967762 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
102967779 TGCAATCTTAGATATGATA
1 --CAATCTTAGATATGATA
*
102967798 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
102967816 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
* *
102967833 CAATCTTATATATGATTG
1 CAATCTTAGATATGA-TA
102967851 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
102967870 CAATCTTA
1 CAATCTTA
102967878 AAAGATATGA
Statistics
Matches: 87, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
17 30 0.34
18 30 0.34
19 26 0.30
20 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:102967825 original size:35 final size:35
Alignment explanation
Indices: 102967762--102967877 Score: 196
Period size: 35 Copynumber: 3.2 Consensus size: 35
102967752 CAATGATATG
102967762 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
102967798 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
102967833 CAATCTTATATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
102967870 CAATCTTA
1 CAATCTTA
102967878 AAAGATATGA
Statistics
Matches: 77, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 50 0.65
36 16 0.21
37 11 0.14
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:102968409 original size:15 final size:16
Alignment explanation
Indices: 102968359--102968424 Score: 73
Period size: 16 Copynumber: 3.9 Consensus size: 16
102968349 TCTAAACCAA
102968359 TATATAATATATTTTT
1 TATATAATATATTTTT
102968375 TATATAAT-TATTATTCT
1 TATATAATATATT-TT-T
102968392 TATA-AATATATTTTT
1 TATATAATATATTTTT
102968407 TATTATATATTATATTTT
1 TA-TATA-A-TATATTTT
102968425 AAATTTATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
15 7 0.16
16 17 0.40
17 10 0.23
18 1 0.02
19 8 0.19
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TATATAATATATTTTT
Found at i:102968449 original size:26 final size:26
Alignment explanation
Indices: 102968401--102968450 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
102968391 TTATAAATAT
* * * *
102968401 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTACATATCACATTTTAA
102968427 ATTTATTATTACATATCACATTTT
1 ATTTATTATTACATATCACATTTT
102968451 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTACATATCACATTTTAA
Found at i:102981989 original size:14 final size:15
Alignment explanation
Indices: 102981970--102982007 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
102981960 CGCTGAGGTA
102981970 TTTTCAAAAT-CTGT
1 TTTTCAAAATCCTGT
*
102981984 TTTTCAAATTCCTGT
1 TTTTCAAAATCCTGT
*
102981999 TTGTCAAAA
1 TTTTCAAAA
102982008 ATCAACTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.29, C:0.16, G:0.08, T:0.47
Consensus pattern (15 bp):
TTTTCAAAATCCTGT
Found at i:102982096 original size:88 final size:88
Alignment explanation
Indices: 102981916--102982128 Score: 265
Period size: 88 Copynumber: 2.4 Consensus size: 88
102981906 TTTATTTTTT
* *
102981916 AAAAATCAA-TTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAAAAT
1 AAAAATCAACTT-ATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGAATTTTCAAAAT
*
102981980 CTGTTTTTCAAATTCCTGTTTGTC
65 CTGCTTTTCAAATTCCTGTTTGTC
** *
102982004 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGAATTTTC-ATTTT
1 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGAATTTTCAAAATC
102982068 TGCTTTTC-AA-TCTCTGCTTT-TC
66 TGCTTTTCAAATTC-CTG-TTTGTC
* * *
102982090 AAAAAAATCAACTCATGTTGCGAAAGGTGAGTTGAGCCT
1 --AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT
102982129 TGGCTCACAT
Statistics
Matches: 111, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
85 2 0.02
86 7 0.06
87 12 0.11
88 88 0.79
89 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (88 bp):
AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGAATTTTCAAAATC
TGCTTTTCAAATTCCTGTTTGTC
Found at i:102982228 original size:78 final size:79
Alignment explanation
Indices: 102982084--102982229 Score: 213
Period size: 78 Copynumber: 1.9 Consensus size: 79
102982074 TCAATCTCTG
* * * ** *
102982084 CTTTTCAAAAAAATCAACTCATGTTGCGAAAGGTGAGTTGAGCCTTGGCTCACATGTTGAGGTAT
1 CTTTTCAAAAAAATCAACTCATATGGCGAAAGGTGAGTTGAGCCTCGGCTCACATGCCGAGATAT
102982149 TTTTAGTTTTTATA
66 TTTTAGTTTTTATA
* *
102982163 CTTTTC-AAAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGATAT
1 CTTTTCAAAAAAATCAACTCATATGGCGAAAGGTGAGTTGAGCCTCGGCTCACATGCCGAGATAT
102982227 TTT
66 TTT
102982230 CAAATTCTGT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
78 53 0.90
79 6 0.10
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (79 bp):
CTTTTCAAAAAAATCAACTCATATGGCGAAAGGTGAGTTGAGCCTCGGCTCACATGCCGAGATAT
TTTTAGTTTTTATA
Found at i:102982344 original size:14 final size:14
Alignment explanation
Indices: 102982325--102982359 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
102982315 CGCTGAGCTA
*
102982325 TTTTCAATTTCTGT
1 TTTTCAATTTCTGC
102982339 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
102982353 TTTTCAA
1 TTTTCAA
102982360 AAAAAGTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:102982483 original size:91 final size:90
Alignment explanation
Indices: 102982270--102982694 Score: 316
Period size: 83 Copynumber: 4.8 Consensus size: 90
102982260 CTACTTTTCC
* * *
102982270 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCT-TGGCTTACACGCTGAGCTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGC--ACA-GCTGAGGTATTTTCAATT
* * *
102982334 TCTGTTTTTCAATTTCTGCTTTTCAAAA
63 CCTGTTTTTCAATTTATACTTTTCAAAA
* * *
102982362 AAAGTCAACTCCTATTGCGAGAGGTGAGTTGAGCCTCAGGGCACA-CTGAGGTATTTTCAGTTCC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACAGCTGAGGTATTTTCAATTCC
* *
102982426 TGTTTTTTAATTTATATTTTTCAAAAA
65 TGTTTTTCAATTTATACTTTTC-AAAA
* *
102982453 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTTGAGGTATTTTCAAAAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACA-GCTGAGGTATTTTC-AATT
*
102982518 -CTGCTTTT--A---A-A--TTTC-AAA
63 CCTGTTTTTCAATTTATACTTTTCAAAA
* * * * * *
102982536 AAGACCAACTCATATGGCGAGAGGTGAGTTGAGCCT-TGGCTCATGTACTGAGCTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACA-G--CTGAGGTATTTTCAATT
* ** * **
102982600 TCTG-TTTT-AAGGTCTGTTTTTC----
63 CCTGTTTTTCAATTTATACTTTTCAAAA
* * * *
102982622 -AAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACA-GCTGAGGTATTTTCAATTCC
*
102982685 TGTTTGTCAA
65 TGTTTTTCAA
102982695 AAATTAACTC
Statistics
Matches: 276, Mismatches: 37, Indels: 47
0.77 0.10 0.13
Matches are distributed among these distances:
81 5 0.02
82 9 0.03
83 70 0.25
84 3 0.01
85 40 0.14
86 2 0.01
87 1 0.00
88 1 0.00
89 4 0.01
90 37 0.13
91 44 0.16
92 36 0.13
93 19 0.07
94 5 0.02
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (90 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACAGCTGAGGTATTTTCAATTCCT
GTTTTTCAATTTATACTTTTCAAAA
Found at i:102984625 original size:3 final size:3
Alignment explanation
Indices: 102984617--102984668 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
102984607 TACTTTAATT
102984617 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
102984665 TTA T
1 TTA T
102984669 GTGTTGTCAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:102985069 original size:21 final size:19
Alignment explanation
Indices: 102985033--102985076 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
102985023 TACTGCGTTC
*
102985033 TATATATTTTTATATTATG
1 TATATATTTTAATATTATG
102985052 TATATATTTTAA-ATTAT-
1 TATATATTTTAATATTATG
102985069 TATATATT
1 TATATATT
102985077 AAGTATTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 5 0.21
19 11 0.46
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TATATATTTTAATATTATG
Found at i:102985072 original size:17 final size:18
Alignment explanation
Indices: 102985033--102985076 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
102985023 TACTGCGTTC
*
102985033 TATATATTTTTATATTATG
1 TATATA-TTTTAAATTATG
102985052 TATATATTTTAAATTAT-
1 TATATATTTTAAATTATG
102985069 TATATATT
1 TATATATT
102985077 AAGTATTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 10 0.42
19 6 0.25
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TATATATTTTAAATTATG
Found at i:102985203 original size:15 final size:14
Alignment explanation
Indices: 102985172--102985215 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
102985162 ATTTCTAGTA
*
102985172 TATGTATATATTA-
1 TATGTATTTATTAT
102985185 TATGTATTTATATAT
1 TATGTATTTAT-TAT
102985200 TATGTATATTATTAT
1 TATGTAT-TTATTAT
102985215 T
1 T
102985216 TTTATCATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 10 0.37
14 2 0.07
15 11 0.41
16 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TATGTATTTATTAT
Found at i:102985209 original size:17 final size:17
Alignment explanation
Indices: 102985169--102985209 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
102985159 GTCATTTCTA
*
102985169 GTATATGTATATATTAT
1 GTATATTTATATATTAT
* *
102985186 ATGTATTTATATATTAT
1 GTATATTTATATATTAT
102985203 GTATATT
1 GTATATT
102985210 ATTATTTTTA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (17 bp):
GTATATTTATATATTAT
Found at i:102989442 original size:26 final size:24
Alignment explanation
Indices: 102989409--102989482 Score: 60
Period size: 25 Copynumber: 3.0 Consensus size: 24
102989399 TTCATTCAAC
*
102989409 TATA-AAAATATTAAAATTTCAATTT
1 TATAGAAAATATTAAAATTT-AA-AT
* * *
102989434 TTTAGAAAAAATAAAAAATTTAAAT
1 TATAGAAAATAT-TAAAATTTAAAT
*
102989459 TATAGAAAATGTTAAAATTATAAA
1 TATAGAAAATATTAAAATT-TAAA
102989483 AATATAATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
24 6 0.16
25 17 0.45
26 8 0.21
27 7 0.18
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (24 bp):
TATAGAAAATATTAAAATTTAAAT
Found at i:102989473 original size:17 final size:16
Alignment explanation
Indices: 102989447--102989485 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
102989437 AGAAAAAATA
102989447 AAAAATTT-AAATTAT
1 AAAAATTTAAAATTAT
102989462 AGAAAATGTTAAAATTAT
1 A-AAAAT-TTAAAATTAT
102989480 AAAAAT
1 AAAAAT
102989486 ATAATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 5 0.24
17 7 0.33
18 8 0.38
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (16 bp):
AAAAATTTAAAATTAT
Found at i:102989603 original size:20 final size:20
Alignment explanation
Indices: 102989566--102989608 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
102989556 ACTTAAACAT
** *
102989566 TTAAAAATAATTATAATAAA
1 TTAAAAATAAAAAAAATAAA
*
102989586 TTAAAAATAAAAAAAATAGA
1 TTAAAAATAAAAAAAATAAA
102989606 TTA
1 TTA
102989609 TGGTAGTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
TTAAAAATAAAAAAAATAAA
Found at i:102989638 original size:24 final size:26
Alignment explanation
Indices: 102989596--102989651 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
102989586 TTAAAAATAA
* *
102989596 AAAAAATAGATTATGGTAGTT-TTTT
1 AAAAAATAGATTATCGTAGTTATATT
*
102989621 AAAAAGTAGATTA-CGTAGTTATATT
1 AAAAAATAGATTATCGTAGTTATATT
102989646 AAAAAA
1 AAAAAA
102989652 ATTGTGATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (26 bp):
AAAAAATAGATTATCGTAGTTATATT
Found at i:102990502 original size:89 final size:91
Alignment explanation
Indices: 102990352--102990518 Score: 232
Period size: 89 Copynumber: 1.9 Consensus size: 91
102990342 TCAATTTTTT
* *
102990352 TTTTTAAAAAAAGTAATTAGGTCCCTGATTTTTTTTTTGCACTCAATTAGGTACTTAAACTTTCA
1 TTTTTAAAAAAAGTAATTAGGTCCCTGATCTTTTTTTTACACTCAATTAGGTACTTAAACTTTCA
*
102990417 AAATGCATCAAAAAGGCCGTCAAACA
66 AAATACATCAAAAAGGCCGTCAAACA
* * * *
102990443 TTTTTAGAAAAAGTAATTAAGG-CCCT-A-CTTTTTTTTACACTCATTTGGGTACTTGAACTTTC
1 TTTTTAAAAAAAGTAATT-AGGTCCCTGATCTTTTTTTTACACTCAATTAGGTACTTAAACTTTC
*
102990505 AAAATATATCAAAA
65 AAAATACATCAAAA
102990519 CGACCCTCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
89 42 0.63
90 1 0.01
91 21 0.31
92 3 0.04
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (91 bp):
TTTTTAAAAAAAGTAATTAGGTCCCTGATCTTTTTTTTACACTCAATTAGGTACTTAAACTTTCA
AAATACATCAAAAAGGCCGTCAAACA
Found at i:102990543 original size:89 final size:89
Alignment explanation
Indices: 102990352--102990564 Score: 229
Period size: 89 Copynumber: 2.4 Consensus size: 89
102990342 TCAATTTTTT
* *
102990352 TTTTTAAAAAAAGTAATT-AGGTCCCTGATTTTTTTTTTGCACTCAATTAGGTACTTAAACTTTC
1 TTTTTAAAAAAAGTAATTAAGG-CCCT-A-CTTTTTTTTACACTCAATTAGGTACTTAAACTTTC
* * *
102990416 AAAATGCATCAAAAAGGCCGTCAAACA
63 AAAATACATCAAAAAGACCCTCAAACA
* * * *
102990443 TTTTTAGAAAAAGTAATTAAGGCCCTACTTTTTTTTACACTCATTTGGGTACTTGAACTTTCAAA
1 TTTTTAAAAAAAGTAATTAAGGCCCTACTTTTTTTTACACTCAATTAGGTACTTAAACTTTCAAA
* * *
102990508 ATATATCAAAACGACCCTCAAGC-
66 ATACATCAAAAAGACCCTCAAACA
*
102990531 TTTTTCAAAAAAAAGCAATTAA-GCCC--CTTTTTTT
1 TTTTT--AAAAAAAGTAATTAAGGCCCTACTTTTTTT
102990565 ATTAAAAATT
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
87 8 0.08
88 5 0.05
89 54 0.51
90 14 0.13
91 21 0.20
92 3 0.03
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (89 bp):
TTTTTAAAAAAAGTAATTAAGGCCCTACTTTTTTTTACACTCAATTAGGTACTTAAACTTTCAAA
ATACATCAAAAAGACCCTCAAACA
Found at i:102990756 original size:55 final size:53
Alignment explanation
Indices: 102990667--102990804 Score: 143
Period size: 55 Copynumber: 2.5 Consensus size: 53
102990657 AAAAAATTTA
* *
102990667 AAAATAATAAAAAAATAAAGAATTGTAAAATTTTATAAAAATGTAAAAAAACTAT
1 AAAAT-ATATAAAAATAAA-AATTATAAAATTTTATAAAAATGTAAAAAAACTAT
* ** * *
102990722 AAAATATATAGAAATATAAAAATTATAAATTTTTATAAAGTTGTAAGAAAATTAT
1 AAAATATATA-AAA-ATAAAAATTATAAAATTTTATAAAAATGTAAAAAAACTAT
* *
102990777 ACAAA-ATGTAAAAAAAAAAATTATAAAA
1 A-AAATATATAAAAATAAAAATTATAAAA
102990805 ATTATCGTAC
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
53 13 0.19
54 7 0.10
55 42 0.60
56 8 0.11
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (53 bp):
AAAATATATAAAAATAAAAATTATAAAATTTTATAAAAATGTAAAAAAACTAT
Found at i:102990845 original size:11 final size:11
Alignment explanation
Indices: 102990829--102990861 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
102990819 AGAAGCATTT
*
102990829 TATAATTTTTC
1 TATAATTTTTA
102990840 TATAATTTTTA
1 TATAATTTTTA
102990851 T-TAATTTTTA
1 TATAATTTTTA
102990861 T
1 T
102990862 TTTTCTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (11 bp):
TATAATTTTTA
Found at i:102991015 original size:19 final size:18
Alignment explanation
Indices: 102990993--102991035 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
102990983 ATTTTTTATG
102990993 ATTTTTATAAAAAATTCTA
1 ATTTTT-TAAAAAATTCTA
*
102991012 A-TTTTTAATAAATTCTA
1 ATTTTTTAAAAAATTCTA
102991029 ATTTTTT
1 ATTTTTT
102991036 CATATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 12 0.55
18 9 0.41
19 1 0.05
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTTTTAAAAAATTCTA
Found at i:102991018 original size:38 final size:38
Alignment explanation
Indices: 102990946--102991019 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
102990936 ATCGTTACTT
* *
102990946 TTTTTTATGATTTTTTATAAAATTTTACAATTTTAAAA
1 TTTTTTATGATTTTTTAAAAAATTCTACAATTTTAAAA
*
102990984 TTTTTTATGATTTTTATAAAAAATTCTA-ATTTTTAA
1 TTTTTTATGATTTTT-TAAAAAATTCTACAATTTTAA
102991020 TAAATTCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 22 0.69
39 10 0.31
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (38 bp):
TTTTTTATGATTTTTTAAAAAATTCTACAATTTTAAAA
Found at i:102992232 original size:19 final size:16
Alignment explanation
Indices: 102992188--102992232 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 16
102992178 ACTTTTCCTC
102992188 AAACTTTTATTCCCCA
1 AAACTTTTATTCCCCA
102992204 AAACTTTTTATTTTCCCCA
1 AAAC-TTTTA--TTCCCCA
102992223 TAAACTTTTA
1 -AAACTTTTA
102992233 CTTCTCACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.16
17 5 0.20
19 12 0.48
20 4 0.16
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.44
Consensus pattern (16 bp):
AAACTTTTATTCCCCA
Found at i:102996498 original size:36 final size:36
Alignment explanation
Indices: 102996451--102996522 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
102996441 TTATACAAAT
102996451 GACCTTAAAATTTTGATTAATTATGAAAATGACTAA
1 GACCTTAAAATTTTGATTAATTATGAAAATGACTAA
102996487 GACCTTAAAATTTTGATTAATTATGAAAATGACTAA
1 GACCTTAAAATTTTGATTAATTATGAAAATGACTAA
102996523 CTTTTTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.36
Consensus pattern (36 bp):
GACCTTAAAATTTTGATTAATTATGAAAATGACTAA
Found at i:102997292 original size:13 final size:13
Alignment explanation
Indices: 102997274--102997310 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
102997264 GGTCAGGAGA
102997274 CAAGCCTGTGTCT
1 CAAGCCTGTGTCT
102997287 CAAGCCTGTGTCT
1 CAAGCCTGTGTCT
102997300 CAAGCCATGTG
1 CAAGCC-TGTG
102997311 GGCATTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.19, C:0.30, G:0.24, T:0.27
Consensus pattern (13 bp):
CAAGCCTGTGTCT
Found at i:102998650 original size:60 final size:60
Alignment explanation
Indices: 102998567--102998692 Score: 209
Period size: 60 Copynumber: 2.1 Consensus size: 60
102998557 TTTTTTTGTT
* *
102998567 TGTTTATAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATT-ATGTTATAAATTTTTG
1 TGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAT-TTATAAATTATTG
*
102998627 TGTTTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAATTTATAAATTATTG
1 TGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAATTTATAAATTATTG
102998687 TGTTTA
1 TGTTTA
102998693 GTTTAGTATT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
60 59 0.97
61 2 0.03
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (60 bp):
TGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAATTTATAAATTATTG
Found at i:102999498 original size:3 final size:3
Alignment explanation
Indices: 102999490--102999526 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
102999480 GTTCTTTGAT
102999490 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
102999527 CACATATCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:103001274 original size:32 final size:33
Alignment explanation
Indices: 103001238--103001319 Score: 96
Period size: 32 Copynumber: 2.5 Consensus size: 33
103001228 ACTTCGCTCT
103001238 TTCCGGCCAGTATCTACCGCCGTA-TCCACTCC
1 TTCCGGCCAGTATCTACCGCCGTACTCCACTCC
* * * *
103001270 TTCCGGTCTGTATCCACCGTCGTACTCCACTCC
1 TTCCGGCCAGTATCTACCGCCGTACTCCACTCC
*
103001303 TCCCGGCCCA-TATCTAC
1 TTCCGG-CCAGTATCTAC
103001320 TTTCGTAATG
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
32 20 0.50
33 19 0.47
34 1 0.03
ACGTcount: A:0.15, C:0.44, G:0.15, T:0.27
Consensus pattern (33 bp):
TTCCGGCCAGTATCTACCGCCGTACTCCACTCC
Found at i:103001373 original size:19 final size:19
Alignment explanation
Indices: 103001324--103001373 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
103001314 ATCTACTTTC
*
103001324 GTAATGACTTTGTATTTAT
1 GTAATAACTTTGTATTTAT
*
103001343 GTAGTCAACTTTGTATTTAT
1 GTAAT-AACTTTGTATTTAT
103001363 GTAATAACTTT
1 GTAATAACTTT
103001374 TTTGCCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.50
Consensus pattern (19 bp):
GTAATAACTTTGTATTTAT
Found at i:103004388 original size:23 final size:25
Alignment explanation
Indices: 103004362--103004417 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
103004352 GTTTTCATAC
103004362 ATATTATGCATATGCAT-T-TTTTA
1 ATATTATGCATATGCATATATTTTA
*
103004385 ATATTAT--ATATGTATATATTTTA
1 ATATTATGCATATGCATATATTTTA
103004408 ATATGTATGC
1 ATAT-TATGC
103004418 GTATATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
21 7 0.26
22 1 0.04
23 16 0.59
24 3 0.11
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.52
Consensus pattern (25 bp):
ATATTATGCATATGCATATATTTTA
Found at i:103004502 original size:2 final size:2
Alignment explanation
Indices: 103004495--103004528 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
103004485 ATATTATGTG
*
103004495 TA TA TA TA TA TA TA TA -A TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
103004529 TATGTACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:103004514 original size:15 final size:15
Alignment explanation
Indices: 103004496--103004525 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
103004486 TATTATGTGT
103004496 ATATATATATATATA
1 ATATATATATATATA
*
103004511 ATATATATATTTATA
1 ATATATATATATATA
103004526 TATTATGTAC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:103004515 original size:17 final size:17
Alignment explanation
Indices: 103004495--103004527 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
103004485 ATATTATGTG
103004495 TATATATATATATATAA
1 TATATATATATATATAA
*
103004512 TATATATATTTATATA
1 TATATATATATATATA
103004528 TTATGTACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATATATATATATAA
Found at i:103008622 original size:4 final size:4
Alignment explanation
Indices: 103008615--103008642 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
103008605 GACATTTATG
103008615 CATT CATT CATT CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT
103008643 GCATATCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
CATT
Found at i:103017233 original size:14 final size:14
Alignment explanation
Indices: 103017199--103017225 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
103017189 TGTTGAGGTA
103017199 TTTTCAATTTATGC
1 TTTTCAATTTATGC
103017213 TTTTCAATTTATG
1 TTTTCAATTTATG
103017226 TGTTTCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.11, G:0.07, T:0.59
Consensus pattern (14 bp):
TTTTCAATTTATGC
Found at i:103017244 original size:89 final size:89
Alignment explanation
Indices: 103017055--103017395 Score: 469
Period size: 87 Copynumber: 3.9 Consensus size: 89
103017045 TCTGTTTGTT
*
103017055 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCCCACGTGCTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC--GCTGAGGTATTTTCAA
* * *
103017119 TTTCTATTTTTCAAATTTCTGT-TTTC-
63 TTTTTGTTTTTC-AATTTATGTGTTTCA
* * * * *
103017145 AGAAAA-CAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* *
103017209 ATGCTTTTCAATTTATGTGTTTCA
66 TTGTTTTTCAATTTATGTGTTTCA
* * *
103017233 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATGTTCAGTTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
*
103017298 TTGTTTTTTAATTTA--TGTTTCA
66 TTGTTTTTCAATTTATGTGTTTCA
103017320 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
103017385 TTGTTTTTCAA
66 TTGTTTTTCAA
103017396 AAAAATCAAC
Statistics
Matches: 222, Mismatches: 25, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
86 8 0.04
87 107 0.48
88 5 0.02
89 96 0.43
90 6 0.03
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.36
Consensus pattern (89 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
TTGTTTTTCAATTTATGTGTTTCA
Found at i:103017355 original size:87 final size:87
Alignment explanation
Indices: 103017055--103017559 Score: 644
Period size: 89 Copynumber: 5.9 Consensus size: 87
103017045 TCTGTTTGTT
*
103017055 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCCCACGTGCTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC--GCTGAGGTATTTTCAA
* *
103017119 TTTCTATTTTTCAAATTTCTGTTTTC-
63 TTTCTGTTTTTC-AATTTATG-TTTCA
* * * * *
103017145 AGAAAA-CAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* *
103017209 ATGCTTTTCAATTTATGTGTTTCA
66 CTGTTTTTCAATTTA--TGTTTCA
* * *
103017233 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATGTTCAGTTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* *
103017298 TTGTTTTTTAATTTATGTTTCA
66 CTGTTTTTCAATTTATGTTTCA
103017320 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA---
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
*
103017382 ----TTTT---TGT-T-TTTCA
66 CTGTTTTTCAATTTATGTTTCA
* *
103017395 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
103017460 CTGTTTTTCAATTTATGTTTTTCA
66 CTGTTTTTCAATTTATG--TTTCA
*
103017484 AAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
*
103017549 CTGTTTGTCAA
66 CTGTTTTTCAA
103017560 AAAATCAACT
Statistics
Matches: 365, Mismatches: 31, Indels: 39
0.84 0.07 0.09
Matches are distributed among these distances:
75 66 0.18
76 1 0.00
77 2 0.01
80 4 0.01
82 4 0.01
85 2 0.01
86 6 0.02
87 94 0.26
88 7 0.02
89 173 0.47
90 6 0.02
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (87 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
CTGTTTTTCAATTTATGTTTCA
Found at i:103017428 original size:75 final size:75
Alignment explanation
Indices: 103017315--103017470 Score: 285
Period size: 75 Copynumber: 2.1 Consensus size: 75
103017305 TTAATTTATG
*
103017315 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
* *
103017380 AATTTTTGTT
66 AAATTCTGTT
103017390 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
103017455 AAATTCTGTT
66 AAATTCTGTT
103017465 TTTCAA
1 TTTCAA
103017471 TTTATGTTTT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (75 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
AAATTCTGTT
Found at i:103017469 original size:14 final size:14
Alignment explanation
Indices: 103017450--103017485 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
103017440 CGCTGAGGTA
*
103017450 TTTTCAAATTCTGT
1 TTTTCAAATTATGT
*
103017464 TTTTCAATTTATGT
1 TTTTCAAATTATGT
103017478 TTTTCAAA
1 TTTTCAAA
103017486 AAAACCAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (14 bp):
TTTTCAAATTATGT
Found at i:103017586 original size:74 final size:75
Alignment explanation
Indices: 103017464--103017721 Score: 302
Period size: 74 Copynumber: 3.3 Consensus size: 75
103017454 CAAATTCTGT
*
103017464 TTTTCAATTTATGTTTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTATGTTTGTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
103017529 CGCTGAGGTA
66 CGCTGAGGTA
* * *
103017539 TTTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAATTTATGTTTGTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
103017603 CGCTGAGGTA
66 CGCTGAGGTA
* * * *
103017613 TGTTCAGTTTTTGTTTTTTAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTTCAATTTATG---------TT-TG--TCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTG
103017678 AGCCTCAGGACACGCTGAGGTA
54 AGCCTCAGGACACGCTGAGGTA
* * *
103017700 TTTTCAAATTCTGTTTTTCAAA
1 TTTTCAATTTATGTTTGTCAAA
103017722 TTTTGTTTTT
Statistics
Matches: 157, Mismatches: 13, Indels: 26
0.80 0.07 0.13
Matches are distributed among these distances:
74 63 0.40
75 22 0.14
77 1 0.01
78 2 0.01
83 2 0.01
84 2 0.01
86 2 0.01
87 63 0.40
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (75 bp):
TTTTCAATTTATGTTTGTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTA
Found at i:103017719 original size:14 final size:14
Alignment explanation
Indices: 103017700--103017735 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
103017690 CGCTGAGGTA
103017700 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
103017714 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
103017728 TTTTCAAA
1 TTTTCAAA
103017736 AAATCAACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:103017774 original size:88 final size:89
Alignment explanation
Indices: 103017539--103017809 Score: 408
Period size: 88 Copynumber: 3.1 Consensus size: 89
103017529 CGCTGAGGTA
* * *
103017539 TTTTC-AATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 TTTTCAAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * *
103017603 CGCTGAGGTATGTTCAGTTTTTGT
66 CGCTGAGGTATTTTCAATTTCTGT
*
103017627 TTTT-TAATTTATG--TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAAATTTATGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
103017689 ACGCTGAGGTATTTTCAAATTCTGT
65 ACGCTGAGGTATTTTCAATTTCTGT
*
103017714 TTTTCAAATTT-TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGACA
1 TTTTCAAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
103017778 CGCTGAGGTATTTTCAATTTCTGT
66 CGCTGAGGTATTTTCAATTTCTGT
*
103017802 TTCTCAAA
1 TTTTCAAA
103017810 AATCAACTCA
Statistics
Matches: 167, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
86 3 0.02
87 70 0.42
88 90 0.54
89 4 0.02
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.37
Consensus pattern (89 bp):
TTTTCAAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTATTTTCAATTTCTGT
Found at i:103017813 original size:161 final size:160
Alignment explanation
Indices: 103017627--103017928 Score: 444
Period size: 161 Copynumber: 1.9 Consensus size: 160
103017617 CAGTTTTTGT
* * *
103017627 TTTTTAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGAACACG
* *
103017692 CTGAGGTATTTTCAAATTCTG-TTTTTCAAATTTTGTTTTTCAAAAAATCAACTCATATTGCGAG
66 CTGAGGTATTTTCAAATTCAGCCTTTT-AAATTTTGTTTTTC-AAAAATCAACTCATATTGCGAG
*
103017756 AGGTGAGTTGAGCTTCAGGACACGCTGAGGTA
129 AAGTGAGTTGAGCTTCAGGACACGCTGAGGTA
* ** *
103017788 TTTTCAATTTCTGTTTCTCAAAAATCAACTCATATTGCGAAATGTGAGTTGAGCCTCAGAACACG
1 TTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGAACACG
* * * * *
103017853 CTGATGTATTTTCAATTTGAGCCTTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGTGAGAA
66 CTGAGGTATTTTCAAATTCAGCCTTTTAAATTTTGTTTTTCAAAAATCAACTCATATTGCGAGAA
103017918 GTGAGTTGAGC
131 GTGAGTTGAGC
103017929 CTTTTAATTT
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
160 33 0.26
161 88 0.70
162 4 0.03
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (160 bp):
TTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGAACACG
CTGAGGTATTTTCAAATTCAGCCTTTTAAATTTTGTTTTTCAAAAATCAACTCATATTGCGAGAA
GTGAGTTGAGCTTCAGGACACGCTGAGGTA
Found at i:103017835 original size:73 final size:73
Alignment explanation
Indices: 103017714--103017870 Score: 235
Period size: 73 Copynumber: 2.1 Consensus size: 73
103017704 CAAATTCTGT
* * * *
103017714 TTTTCAAATTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGACAC
1 TTTTC-AATTTTGTTTCTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGAACAC
103017779 GCTGAGGTA
65 GCTGAGGTA
*
103017788 TTTTCAATTTCTGTTTCTC-AAAAATCAACTCATATTGCGAAATGTGAGTTGAGCCTCAGAACAC
1 TTTTCAATTT-TGTTTCTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGAACAC
*
103017852 GCTGATGTA
65 GCTGAGGTA
103017861 TTTTCAATTT
1 TTTTCAATTT
103017871 GAGCCTTTTA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
73 64 0.84
74 12 0.16
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (73 bp):
TTTTCAATTTTGTTTCTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGAACACG
CTGAGGTA
Found at i:103017951 original size:54 final size:54
Alignment explanation
Indices: 103017869--103018201 Score: 540
Period size: 54 Copynumber: 6.1 Consensus size: 54
103017859 TATTTTCAAT
* *
103017869 TTGAGCCTTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGTGAGAAGTGAG
1 TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAG
*
103017923 TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
1 TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAG
* *
103017977 TTGAGCCTTTTAATTCCTGTTTTTCAAAAATCAACTCATATTGTGAGAAGTGAG
1 TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAG
* *
103018031 TTGAGCCTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAAGTAAG
1 TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAG
* *
103018085 TTGAGCCTTTTAATTTTTGTTTTTCAAAAAAAATCAACTCATATTGCGGGAAGTGAG
1 TTGAGCCTTTTAATTTCTGTTTTTC---AAAAATCAACTCATATTGCGAGAAGTGAG
* *
103018142 TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAGCTCATATTGCGAGAAATGAG
1 TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAG
103018196 TTGAGC
1 TTGAGC
103018202 TCAGGATCAC
Statistics
Matches: 259, Mismatches: 17, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
54 208 0.80
57 51 0.20
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (54 bp):
TTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAG
Found at i:103020485 original size:16 final size:17
Alignment explanation
Indices: 103020450--103020489 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
103020440 TTATGTATAT
* *
103020450 TATTATTTTTTTTACTA
1 TATTATGTTTTATACTA
103020467 TATTATGTTTTATAC-A
1 TATTATGTTTTATACTA
103020483 TATTATG
1 TATTATG
103020490 CATATACATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (17 bp):
TATTATGTTTTATACTA
Found at i:103020613 original size:16 final size:15
Alignment explanation
Indices: 103020587--103020642 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 15
103020577 TTCTAGTATG
*
103020587 TATACATTATGTAAA
1 TATATATTATGTAAA
103020602 TATCATATTATGT--A
1 TAT-ATATTATGTAAA
* *
103020616 TATATA-TATATATA
1 TATATATTATGTAAA
103020630 TATATATTATGTA
1 TATATATTATGTA
103020643 CATTTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
12 4 0.12
13 3 0.09
14 11 0.32
15 8 0.24
16 8 0.24
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (15 bp):
TATATATTATGTAAA
Found at i:103020636 original size:27 final size:27
Alignment explanation
Indices: 103020583--103020642 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
103020573 CTATTTCTAG
*
103020583 TATGTATACATTATGTAAATATCATAT
1 TATGTATACATTATATAAATATCATAT
* *
103020610 TATGTATATATATATATATATAT-ATAT
1 TATGTATACAT-TATATAAATATCATAT
103020637 TATGTA
1 TATGTA
103020643 CATTTTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 20 0.69
28 9 0.31
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (27 bp):
TATGTATACATTATATAAATATCATAT
Found at i:103020864 original size:24 final size:22
Alignment explanation
Indices: 103020829--103020872 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 22
103020819 TCTAATATAG
103020829 ATATATATTGTA-TATATTTTAC
1 ATATATATTGTACT-TATTTTAC
103020851 ATATATATTATGTACTTATTTT
1 ATATATA-T-TGTACTTATTTT
103020873 TAATGTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 7 0.37
23 1 0.05
24 10 0.53
25 1 0.05
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
ATATATATTGTACTTATTTTAC
Found at i:103023941 original size:136 final size:136
Alignment explanation
Indices: 103023697--103024115 Score: 775
Period size: 136 Copynumber: 3.1 Consensus size: 136
103023687 TATTGGGCCT
* * *
103023697 AAGCCCATTCAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
103023762 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
103023827 ATATGC
131 ATATGC
103023833 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
103023898 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
103023963 ATATGC
131 ATATGC
*
103023969 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
103024034 AGACCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
103024099 CATATGC
130 CATATGC
103024106 AAGCCCATTT
1 AAGCCCATTT
103024116 GGGGAGACTA
Statistics
Matches: 276, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
136 257 0.93
137 19 0.07
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:103024403 original size:25 final size:27
Alignment explanation
Indices: 103024366--103024419 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
103024356 TCAAACATGC
103024366 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
103024392 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
103024418 AT
1 AT
103024420 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:103024427 original size:26 final size:27
Alignment explanation
Indices: 103024383--103024458 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
103024373 TCAATTTAAC
* * *
103024383 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
103024409 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
103024437 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
103024459 AGTTGCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:103025942 original size:26 final size:26
Alignment explanation
Indices: 103025906--103026041 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
103025896 CATGATATTC
103025906 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
103025932 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
103025958 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
103025984 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
103026010 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
103026036 TTATCA
1 TTATCA
103026042 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:103026603 original size:26 final size:26
Alignment explanation
Indices: 103026567--103026619 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
103026557 TATGCCTCAC
103026567 TTAAATTCATTATCATTGATTATACA
1 TTAAATTCATTATCATTGATTATACA
103026593 TTAAATTCATTATCATTGATTATACA
1 TTAAATTCATTATCATTGATTATACA
103026619 T
1 T
103026620 GAATAAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (26 bp):
TTAAATTCATTATCATTGATTATACA
Found at i:103030620 original size:27 final size:27
Alignment explanation
Indices: 103030583--103030666 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
103030573 TGTGGGCCTC
* *
103030583 ACCAGTCGCGCCTCTGAGATAGGCTCA
1 ACCAGTCGCGCCTCTCAGATAGGCCCA
* *
103030610 ACCAGTTGCGCCTGTCAGATAGGCCCA
1 ACCAGTCGCGCCTCTCAGATAGGCCCA
* * *
103030637 ACCAGTCGCGCCTGTCACATAGGCGCA
1 ACCAGTCGCGCCTCTCAGATAGGCCCA
103030664 ACC
1 ACC
103030667 CGTATACTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.23, C:0.36, G:0.25, T:0.17
Consensus pattern (27 bp):
ACCAGTCGCGCCTCTCAGATAGGCCCA
Done.