Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 45 of 214
Found at i:12323334 original size:18 final size:18
Alignment explanation
Indices: 12323313--12323395 Score: 61
Period size: 19 Copynumber: 4.8 Consensus size: 18
12323303 ATTCAAAATC
12323313 TTTATAAAAATTTTAAAA
1 TTTATAAAAATTTTAAAA
*
12323331 TTTAT---ATTTTTAAAA
1 TTTATAAAAATTTTAAAA
* *
12323346 -ATATAAAAATTCTAAAAAA
1 TTTATAAAAATT-T-TAAAA
*
12323365 TATATAAAGAATTTTAAAA
1 TTTATAAA-AATTTTAAAA
12323384 TTT-T-AAAATTTT
1 TTTATAAAAATTTT
12323396 TCTAAAATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
14 3 0.06
15 9 0.17
16 6 0.12
17 5 0.10
18 7 0.13
19 10 0.19
20 8 0.15
21 4 0.08
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (18 bp):
TTTATAAAAATTTTAAAA
Found at i:12323371 original size:20 final size:20
Alignment explanation
Indices: 12323342--12323383 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
12323332 TTATATTTTT
12323342 AAAAATATAAA-AATTCTAA
1 AAAAATATAAAGAATTCTAA
*
12323361 AAAATATATAAAGAATTTTAA
1 AAAA-ATATAAAGAATTCTAA
12323382 AA
1 AA
12323384 TTTTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 7 0.35
21 9 0.45
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAATATAAAGAATTCTAA
Found at i:12326298 original size:50 final size:50
Alignment explanation
Indices: 12326223--12326325 Score: 170
Period size: 50 Copynumber: 2.1 Consensus size: 50
12326213 TCGCGAATAC
* *
12326223 GGTATTGCAGGATGTATGGATGGAGAAGACCTTATCCGCCTTGTGGAAAA
1 GGTATTGCAGGAGGTATGGATGGAGAAGACCTCATCCGCCTTGTGGAAAA
* *
12326273 GGTATTGCAGGAGGTATTGATGGAGAAGACCTCATCCGCCTTGTGGAATA
1 GGTATTGCAGGAGGTATGGATGGAGAAGACCTCATCCGCCTTGTGGAAAA
12326323 GGT
1 GGT
12326326 TAGAAACTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (50 bp):
GGTATTGCAGGAGGTATGGATGGAGAAGACCTCATCCGCCTTGTGGAAAA
Found at i:12339964 original size:11 final size:11
Alignment explanation
Indices: 12339950--12340000 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
12339940 CTCACAATAT
12339950 TCTCTCAAAAA
1 TCTCTCAAAAA
12339961 TCTCTC-AAAA
1 TCTCTCAAAAA
*
12339971 T-TCTCAAACCA
1 TCTCTCAAA-AA
*
12339982 -CTCTCAAAAT
1 TCTCTCAAAAA
12339992 TCTCTCAAA
1 TCTCTCAAA
12340001 TTCTCTCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
9 4 0.12
10 7 0.21
11 22 0.67
ACGTcount: A:0.39, C:0.31, G:0.00, T:0.29
Consensus pattern (11 bp):
TCTCTCAAAAA
Found at i:12339997 original size:22 final size:22
Alignment explanation
Indices: 12339939--12340000 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 22
12339929 CTTACTCATT
* *
12339939 TCTCACAATATTCTCTCAAAAA
1 TCTCTCAAAATTCTCTCAAAAA
*
12339961 TCTCTCAAAA-T-TCTCAAACCA
1 TCTCTCAAAATTCTCTCAAA-AA
12339982 -CTCTCAAAATTCTCTCAAA
1 TCTCTCAAAATTCTCTCAAA
12340001 TTCTCTCTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 16 0.47
21 3 0.09
22 15 0.44
ACGTcount: A:0.39, C:0.31, G:0.00, T:0.31
Consensus pattern (22 bp):
TCTCTCAAAATTCTCTCAAAAA
Found at i:12340013 original size:12 final size:10
Alignment explanation
Indices: 12339938--12340007 Score: 52
Period size: 11 Copynumber: 6.7 Consensus size: 10
12339928 CCTTACTCAT
*
12339938 TTCTCACAATA
1 TTCTCTCAA-A
12339949 TTCTCTCAAAA
1 TTCTCTC-AAA
*
12339960 ATCTCTCAAA
1 TTCTCTCAAA
*
12339970 AT-TCTCAAA
1 TTCTCTCAAA
**
12339979 CCACTCTCAAAA
1 -TTCTCTC-AAA
12339991 TTCTCTCAAA
1 TTCTCTCAAA
12340001 TTCTCTC
1 TTCTCTC
12340008 TTAAATATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
9 7 0.14
10 15 0.31
11 22 0.45
12 5 0.10
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:12344772 original size:13 final size:14
Alignment explanation
Indices: 12344754--12344787 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
12344744 AAACTAACCC
12344754 AAAACCCT-ACTTT
1 AAAACCCTAACTTT
12344767 AAAACCCTAACTTT
1 AAAACCCTAACTTT
12344781 -AAACCCT
1 AAAACCCT
12344788 TAAACACTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAACCCTAACTTT
Found at i:12345217 original size:31 final size:31
Alignment explanation
Indices: 12345179--12345251 Score: 146
Period size: 31 Copynumber: 2.4 Consensus size: 31
12345169 ACAAAAATGA
12345179 TCACCCAACTATACCTTTCATTTTATTTTGG
1 TCACCCAACTATACCTTTCATTTTATTTTGG
12345210 TCACCCAACTATACCTTTCATTTTATTTTGG
1 TCACCCAACTATACCTTTCATTTTATTTTGG
12345241 TCACCCAACTA
1 TCACCCAACTA
12345252 ATAGTTTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.25, C:0.29, G:0.05, T:0.41
Consensus pattern (31 bp):
TCACCCAACTATACCTTTCATTTTATTTTGG
Found at i:12345902 original size:35 final size:35
Alignment explanation
Indices: 12345861--12345928 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
12345851 CTTTTGGCTG
12345861 AAATTTTTAGCTTTTCAGAAGTGCTTTTCAAAAGC
1 AAATTTTTAGCTTTTCAGAAGTGCTTTTCAAAAGC
* * *
12345896 AAATTTTTGGCTTTTTATAAGTGCTTTTCAAAA
1 AAATTTTTAGCTTTTCAGAAGTGCTTTTCAAAA
12345929 ACACTTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (35 bp):
AAATTTTTAGCTTTTCAGAAGTGCTTTTCAAAAGC
Found at i:12355933 original size:23 final size:23
Alignment explanation
Indices: 12355907--12355981 Score: 132
Period size: 23 Copynumber: 3.3 Consensus size: 23
12355897 ATAAGTGCCA
*
12355907 CACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
12355930 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
12355953 CACTGAAATGTAGCCGAAGCTAT
1 CACTGAAATGTAGCCGAAGCTAC
12355976 CACTGA
1 CACTGA
12355982 TCAATAACAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:12357673 original size:25 final size:25
Alignment explanation
Indices: 12357614--12357677 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
12357604 TTTGAGCCAG
12357614 CATTCTTTTATTCTTTTTCGAGTAAT
1 CATTCTTTTATTCTTTTTCGAG-AAT
* *
12357640 TATTATTTTATTCTTTTTTC-A-ACAT
1 CATTCTTTTATTC-TTTTTCGAGA-AT
12357665 CATTCTTTTATTC
1 CATTCTTTTATTC
12357678 ATTTCATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
24 1 0.03
25 13 0.41
26 12 0.38
27 6 0.19
ACGTcount: A:0.20, C:0.16, G:0.03, T:0.61
Consensus pattern (25 bp):
CATTCTTTTATTCTTTTTCGAGAAT
Found at i:12362517 original size:50 final size:50
Alignment explanation
Indices: 12362439--12362922 Score: 333
Period size: 50 Copynumber: 9.7 Consensus size: 50
12362429 TAATCATATC
* * *
12362439 TCCCTGGCATTGTAGTGGAGCAGATTGAAGCCACAACGGCAGATCTTACT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* * * * * * ***
12362489 TCTCTGGCGGTGTAGTGGAGCCGATTGAAGTCACAACGGCAGATCTGGTT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* * * ** * **
12362539 TCCCCGACAGCGTAATTAAAAAGATTGAAGCCACAACGGTGGATCTTACT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* * ** * * *
12362589 TCCCTGGCGGTACAGTGGAGCAGATTGAAGTCACAACGGCAGATC-TAGTTT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTA--CT
* * ** * * *
12362640 TCCC-GACAGCGTAATTAAAAAGATTGAAGCCACGACGGCGGATCTTACT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* * * * * ***
12362689 TCCCTGGCAGTGTAGTGGAGCAGATTAAAGTCACAACGGCGGATCTGGTT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* * * * ** *
12362739 TCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* * * * * * * ***
12362789 TCCTTGGCGGTGCAGTGGAGCAGATTGAAGTCACAACGGCGGATCTGGTT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* * * ** *
12362839 TCCCCGACATTGTAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACT
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
* *
12362889 TCCCTGACGGTGCAGTGGAACAGATTGAAGCCAC
1 TCCCTGACAGTGTAGTGGAACAGATTGAAGCCAC
12362923 GGCGGCGGGT
Statistics
Matches: 309, Mismatches: 121, Indels: 8
0.71 0.28 0.02
Matches are distributed among these distances:
49 7 0.02
50 295 0.95
51 7 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (50 bp):
TCCCTGACAGTGTAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACT
Found at i:12362587 original size:100 final size:100
Alignment explanation
Indices: 12362460--12363049 Score: 770
Period size: 100 Copynumber: 5.9 Consensus size: 100
12362450 GTAGTGGAGC
* * *
12362460 AGATTGAAGCCACAACGGCAGATCTTACTTCTCTGGCGGTGTAGTGGAGCCGATTGAAGTCACAA
1 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACAA
* **
12362525 CGGCAGATCTGGTTTCCCCGACAGCGTAATTAAAA
66 CGGCGGATCTGGTTTCCCCGACATTGTAATTAAAA
** *
12362560 AGATTGAAGCCACAACGGTGGATCTTACTTCCCTGGCGGTACAGTGGAGCAGATTGAAGTCACAA
1 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACAA
* * * **
12362625 CGGCAGATCTAGTTTTCCCGACAGCGTAATTAAAA
66 CGGCGGATCTGGTTTCCCCGACATTGTAATTAAAA
* * * * *
12362660 AGATTGAAGCCACGACGGCGGATCTTACTTCCCTGGCAGTGTAGTGGAGCAGATTAAAGTCACAA
1 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACAA
*
12362725 CGGCGGATCTGGTTTCCCCGACATTGCAATTAAAA
66 CGGCGGATCTGGTTTCCCCGACATTGTAATTAAAA
*
12362760 AGATTGAAGCCACAACGGCAGATCTTACTTCCTTGGCGGTGCAGTGGAGCAGATTGAAGTCACAA
1 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACAA
12362825 CGGCGGATCTGGTTTCCCCGACATTGTAATTAAAA
66 CGGCGGATCTGGTTTCCCCGACATTGTAATTAAAA
* * * **
12362860 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGACGGTGCAGTGGAACAGATTGAAGCCACGG
1 AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACAA
* * *
12362925 CGGCGGGTCTGGTTTCTCCGACATTGCAATTAAAA
66 CGGCGGATCTGGTTTCCCCGACATTGTAATTAAAA
* * * * ** * *
12362960 AGATTGAAGCTACAATGGC-GAATCTTATTTCCTTGATGGTGTAGTGGAACAGATTGAAG-CTAC
1 AGATTGAAGCCACAACGGCAG-ATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTC-AC
* * * * *
12363023 GATGGCGAATCTTGTTTCCTCGACATT
64 AACGGCGGATCTGGTTTCCCCGACATT
12363050 ACACGGAGTG
Statistics
Matches: 439, Mismatches: 49, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
99 2 0.00
100 437 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (100 bp):
AGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACAA
CGGCGGATCTGGTTTCCCCGACATTGTAATTAAAA
Found at i:12362964 original size:50 final size:49
Alignment explanation
Indices: 12362511--12362984 Score: 246
Period size: 50 Copynumber: 9.5 Consensus size: 49
12362501 TAGTGGAGCC
* * ** *
12362511 GATTGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGTAATTAAAAA
1 GATTGAAGCCACAACGGCGGATCTGGTTT-CCCGACATTGCAATTAAAAA
* *** * ** * * ** **
12362561 GATTGAAGCCACAACGGTGGATCTTACTTCCCTGGCGGTACAGTGGAGCA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCC-GACATTGCAATTAAAAA
* * * ** *
12362611 GATTGAAGTCACAACGGCAGATCTAGTTTTCCCGACAGCGTAATTAAAAA
1 GATTGAAGCCACAACGGCGGATCT-GGTTTCCCGACATTGCAATTAAAAA
* *** * * * * ** **
12362661 GATTGAAGCCACGACGGCGGATCTTACTTCCCTGGCAGTGTAGTGGAGCA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCC-GACATTGCAATTAAAAA
* *
12362711 GATTAAAGTCACAACGGCGGATCTGGTTTCCCCGACATTGCAATTAAAAA
1 GATTGAAGCCACAACGGCGGATCTGGTTT-CCCGACATTGCAATTAAAAA
* *** * * ** * ** **
12362761 GATTGAAGCCACAACGGCAGATCTTACTTCCTTGGCGGTGCAGTGGAGCA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCC-CGACATTGCAATTAAAAA
* *
12362811 GATTGAAGTCACAACGGCGGATCTGGTTTCCCCGACATTGTAATTAAAAA
1 GATTGAAGCCACAACGGCGGATCTGGTTT-CCCGACATTGCAATTAAAAA
* *** ** * ** *
12362861 GATTGAAGCCACAACGGCAGATCTTACTTCCCTGACGGTGCAGTGGAACA
1 GATTGAAGCCACAACGGCGGATCTGGTTTCCC-GACATTGCAATTAAAAA
** *
12362911 GATTGAAGCCACGGCGGCGGGTCTGGTTTCTCCGACATTGCAATTAAAAA
1 GATTGAAGCCACAACGGCGGATCTGGTTTC-CCGACATTGCAATTAAAAA
* * *
12362961 GATTGAAGCTACAATGGCGAATCT
1 GATTGAAGCCACAACGGCGGATCT
12362985 TATTTCCTTG
Statistics
Matches: 296, Mismatches: 120, Indels: 16
0.69 0.28 0.04
Matches are distributed among these distances:
49 13 0.04
50 271 0.92
51 12 0.04
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (49 bp):
GATTGAAGCCACAACGGCGGATCTGGTTTCCCGACATTGCAATTAAAAA
Found at i:12365588 original size:13 final size:13
Alignment explanation
Indices: 12365572--12365650 Score: 88
Period size: 13 Copynumber: 6.1 Consensus size: 13
12365562 TTTAAACCAA
*
12365572 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
12365585 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
*
12365598 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
* *
12365611 ACTTTTTAAAAAC
1 ACTTTTCAAAAGC
*
12365624 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
12365637 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
12365650 A
1 A
12365651 ATGAAGAATT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
12 3 0.05
13 49 0.88
14 4 0.07
ACGTcount: A:0.41, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:12367028 original size:24 final size:24
Alignment explanation
Indices: 12366992--12367040 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
12366982 AGTATGTAGC
*
12366992 ATCATTCACAATAGTGGAATTTAT
1 ATCATTCAAAATAGTGGAATTTAT
12367016 ATCATTCAAAATAGTGGAATTTAT
1 ATCATTCAAAATAGTGGAATTTAT
12367040 A
1 A
12367041 GCCCAACCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (24 bp):
ATCATTCAAAATAGTGGAATTTAT
Found at i:12367711 original size:36 final size:36
Alignment explanation
Indices: 12367668--12367739 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
12367658 TTAATTGGTC
12367668 ATTGTGAATCCATTGAATATATAAATTAAATATATT
1 ATTGTGAATCCATTGAATATATAAATTAAATATATT
12367704 ATTGTGAATCCATTGAATATATAAATTAAATATATT
1 ATTGTGAATCCATTGAATATATAAATTAAATATATT
12367740 TTCTCATAGA
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:0.06, G:0.08, T:0.42
Consensus pattern (36 bp):
ATTGTGAATCCATTGAATATATAAATTAAATATATT
Found at i:12372085 original size:261 final size:261
Alignment explanation
Indices: 12371621--12372144 Score: 1012
Period size: 261 Copynumber: 2.0 Consensus size: 261
12371611 AAGCACTTAT
*
12371621 TGGAGGAATTCAGTCTAATTTACATACAGGCGTAGTAGGATTTAAAGTTAAACCCAATTACTTTA
1 TGGAGGAATTCAGTCTAATTTACATACAGGCGTAATAGGATTTAAAGTTAAACCCAATTACTTTA
*
12371686 TTACCATTACAGACCCTCTAATAGAAGAGAGTCTTTGCCTTAGAATTCAGACAAAAAATTTTGAT
66 TTACCATTACAGACCCTCTAATAGAAGAGAGTCTTTGCCTTAGAATTCAGACAAAAAATTCTGAT
12371751 ATTAATGATTTAGCAGAAGATCTAGCAATCAGTTGGACTTCTATTAATGAATATACAAATACTGC
131 ATTAATGATTTAGCAGAAGATCTAGCAATCAGTTGGACTTCTATTAATGAATATACAAATACTGC
12371816 TGAAGTAGAAATAAAAGAGATTAATAACAAAATTATTGAACTCTTTGAACCAAACCGGTTCACTA
196 TGAAGTAGAAATAAAAGAGATTAATAACAAAATTATTGAACTCTTTGAACCAAACCGGTTCACTA
12371881 C
261 C
12371882 TGGAGGAATTCAGTCTAATTTACATACAGGCGTAATAGGATTTAAAGTTAAACCCAATTACTTTA
1 TGGAGGAATTCAGTCTAATTTACATACAGGCGTAATAGGATTTAAAGTTAAACCCAATTACTTTA
* *
12371947 TTTCCATTACAGACCCTCTAATAGAAGAGTGTCTTTGCCTTAGAATTCAGACAAAAAATTCTGAT
66 TTACCATTACAGACCCTCTAATAGAAGAGAGTCTTTGCCTTAGAATTCAGACAAAAAATTCTGAT
12372012 ATTAATGATTTAGCAGAAGATCTAGCAATCAGTTGGACTTCTATTAATGAATATACAAATACTGC
131 ATTAATGATTTAGCAGAAGATCTAGCAATCAGTTGGACTTCTATTAATGAATATACAAATACTGC
12372077 TGAAGTAGAAATAAAAGAGATTAATAACAAAATTATTGAACTCTTTGAACCAAACCGGTTCACTA
196 TGAAGTAGAAATAAAAGAGATTAATAACAAAATTATTGAACTCTTTGAACCAAACCGGTTCACTA
12372142 C
261 C
12372143 TG
1 TG
12372145 AAATCTAGCC
Statistics
Matches: 259, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
261 259 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (261 bp):
TGGAGGAATTCAGTCTAATTTACATACAGGCGTAATAGGATTTAAAGTTAAACCCAATTACTTTA
TTACCATTACAGACCCTCTAATAGAAGAGAGTCTTTGCCTTAGAATTCAGACAAAAAATTCTGAT
ATTAATGATTTAGCAGAAGATCTAGCAATCAGTTGGACTTCTATTAATGAATATACAAATACTGC
TGAAGTAGAAATAAAAGAGATTAATAACAAAATTATTGAACTCTTTGAACCAAACCGGTTCACTA
C
Found at i:12377954 original size:20 final size:21
Alignment explanation
Indices: 12377919--12377959 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
12377909 CACCAGTTAA
12377919 AATTAATTAGCTAATACTTGC
1 AATTAATTAGCTAATACTTGC
* *
12377940 AATTTATTA-CTAATATTTGC
1 AATTAATTAGCTAATACTTGC
12377960 TGATTTCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (21 bp):
AATTAATTAGCTAATACTTGC
Found at i:12391258 original size:5 final size:5
Alignment explanation
Indices: 12391248--12391272 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12391238 CTTAAATTGC
12391248 CTCAT CTCAT CTCAT CTCAT CTCAT
1 CTCAT CTCAT CTCAT CTCAT CTCAT
12391273 ATTCATATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (5 bp):
CTCAT
Found at i:12391974 original size:2 final size:2
Alignment explanation
Indices: 12391967--12391995 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12391957 ACATGACAAT
12391967 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
12391996 GAAAGAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:12396874 original size:40 final size:38
Alignment explanation
Indices: 12396828--12396909 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 38
12396818 GTTTAGATAA
* * *
12396828 AAAACGCCACTAAAAGTCGAGTATTAGTAGCGTTTTTTGG
1 AAAACGCCACTAAAAAT-AAGCATTAGTAGCGTTTTTT-G
* *
12396868 AAAACGCCGCTAAAAATAAGCATTAGTGGCGTTTTTTG
1 AAAACGCCACTAAAAATAAGCATTAGTAGCGTTTTTTG
12396906 AAAA
1 AAAA
12396910 GCGTCGCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 5 0.14
39 17 0.46
40 15 0.41
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.28
Consensus pattern (38 bp):
AAAACGCCACTAAAAATAAGCATTAGTAGCGTTTTTTG
Found at i:12396991 original size:41 final size:41
Alignment explanation
Indices: 12396944--12397184 Score: 283
Period size: 41 Copynumber: 5.9 Consensus size: 41
12396934 GAGTTTTTGG
*
12396944 GGCCTTTAGCGTCGTTTTTAAAGAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCT
* *
12396985 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
1 GGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCT
* *
12397026 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCAGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCT
* * * *
12397067 GTCCTTTCGCGGCGTTTTTGATA-TAGCGCCGCTAATGCTC-
1 GGCCTTTAGCGGCGTTTTT-AAAGAAGCGCCGCTAATGCTCT
* * * *
12397107 GGATCTTTAGCGGCGTTTTT-GAGAAAGCGCCACTAGTGCTCT
1 GG-CCTTTAGCGGCGTTTTTAAAG-AAGCGCCGCTAATGCTCT
* *
12397149 GACCTTTAGCGGCG-TTTTAACAAAAGCGCCGCTAAT
1 GGCCTTTAGCGGCGTTTTTAA-AGAAGCGCCGCTAAT
12397185 AATAATAAAA
Statistics
Matches: 169, Mismatches: 24, Indels: 14
0.82 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 5 0.03
41 160 0.95
42 3 0.02
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTCT
Found at i:12397080 original size:82 final size:82
Alignment explanation
Indices: 12396943--12397184 Score: 312
Period size: 82 Copynumber: 3.0 Consensus size: 82
12396933 AGAGTTTTTG
* * * *
12396943 GGGCCTTTAGCGTCGTTTTTAAAGAAGCGCCGCTAATGCTCTGGCCTTTAGCGGCGTTTTTGA-A
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCAGCTAATGCTCTGACCTTTAGCGGCGTTTTTGACA
12397007 GAAGCGCCGCTAATGCTC
66 -AAGCGCCGCTAATGCTC
* * *
12397025 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCAGCTAATGCTCTGTCCTTTCGCGGCGTTTTTGATA
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCAGCTAATGCTCTGACCTTTAGCGGCGTTTTTGACA
*
12397090 TAGCGCCGCTAATGCTC
66 AAGCGCCGCTAATGCTC
** * *
12397107 GGATCTTTAGCGGCGTTTTTG-AGAAAGCGCCA-CTAGTGCTCTGACCTTTAGCGGCG-TTTTAA
1 GGGCCTTTAGCGGCGTTTTTGAAG-AAGCG-CAGCTAATGCTCTGACCTTTAGCGGCGTTTTTGA
12397169 CAAAAGCGCCGCTAAT
64 C-AAAGCGCCGCTAAT
12397185 AATAATAAAA
Statistics
Matches: 142, Mismatches: 14, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
81 7 0.05
82 132 0.93
83 3 0.02
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (82 bp):
GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCAGCTAATGCTCTGACCTTTAGCGGCGTTTTTGACA
AAGCGCCGCTAATGCTC
Found at i:12397948 original size:7 final size:7
Alignment explanation
Indices: 12397926--12397964 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
12397916 AGGTTTATGT
12397926 GTTAGGG
1 GTTAGGG
*
12397933 GCTAGGG
1 GTTAGGG
12397940 GTTAGGG
1 GTTAGGG
*
12397947 GTTAGAG
1 GTTAGGG
*
12397954 GTTAGAG
1 GTTAGGG
12397961 GTTA
1 GTTA
12397965 AGATCAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.21, C:0.03, G:0.49, T:0.28
Consensus pattern (7 bp):
GTTAGGG
Found at i:12398079 original size:33 final size:33
Alignment explanation
Indices: 12398034--12398102 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
12398024 TTAAATAATA
* *
12398034 TTTATGGGTTAGGAATTCTGGGTCAGGTTAGGG
1 TTTATGGATTAGGAATTCAGGGTCAGGTTAGGG
* **
12398067 TTTATGGATTAGGGATTCAGGGTTGGGTTAGGG
1 TTTATGGATTAGGAATTCAGGGTCAGGTTAGGG
12398100 TTT
1 TTT
12398103 TGGGTTTAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.17, C:0.04, G:0.39, T:0.39
Consensus pattern (33 bp):
TTTATGGATTAGGAATTCAGGGTCAGGTTAGGG
Found at i:12398290 original size:15 final size:14
Alignment explanation
Indices: 12398252--12398286 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
12398242 TATATTTTAA
*
12398252 GGTTTAGGGAGTAT
1 GGTTTAGGGACTAT
12398266 GGATTTAGGGACTAT
1 GG-TTTAGGGACTAT
12398281 GGTTTA
1 GGTTTA
12398287 AGGGTCGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.03, G:0.37, T:0.37
Consensus pattern (14 bp):
GGTTTAGGGACTAT
Found at i:12398320 original size:14 final size:14
Alignment explanation
Indices: 12398303--12398356 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 14
12398293 GGGATTTAAG
*
12398303 GTTTAGGGGTTAGA
1 GTTTAGGGATTAGA
12398317 GTTTAGGGATTAGA
1 GTTTAGGGATTAGA
12398331 -TGTTAGGGACTTA-A
1 GT-TTAGGGA-TTAGA
12398345 GGTTTAGGGATT
1 -GTTTAGGGATT
12398357 CAGGGGTCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 1 0.03
14 23 0.66
15 10 0.29
16 1 0.03
ACGTcount: A:0.24, C:0.02, G:0.37, T:0.37
Consensus pattern (14 bp):
GTTTAGGGATTAGA
Found at i:12398928 original size:15 final size:15
Alignment explanation
Indices: 12398908--12398937 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
12398898 ACTTTTTATT
12398908 TTAATTTATAAAAAA
1 TTAATTTATAAAAAA
12398923 TTAATTTATAAAAAA
1 TTAATTTATAAAAAA
12398938 CAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAATTTATAAAAAA
Found at i:12399020 original size:38 final size:38
Alignment explanation
Indices: 12398976--12399050 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
12398966 AACGGCGTTG
12398976 TTTTGTTCAAAATGAAAAAAAAATTTGCGGCGTTTTTA
1 TTTTGTTCAAAATGAAAAAAAAATTTGCGGCGTTTTTA
12399014 TTTTGTTCAAAATGAAAAAAAAATTTGCGGCGTTTTT
1 TTTTGTTCAAAATGAAAAAAAAATTTGCGGCGTTTTT
12399051 CATAAAAACG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (38 bp):
TTTTGTTCAAAATGAAAAAAAAATTTGCGGCGTTTTTA
Found at i:12399354 original size:105 final size:106
Alignment explanation
Indices: 12399076--12399375 Score: 401
Period size: 105 Copynumber: 2.8 Consensus size: 106
12399066 AAAGGTAAGC
*
12399076 AATAGCGGCGTTTTTTAT-AAAAACGCCAC-AAAATAAATCAATTTATAAAAAACAAAATAAAAA
1 AATAGCGGCG-TTTTTATGAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAA
* *
12399139 ATTTTTAGAATAGCAAAACGGCGTCGTTTTATTCAAAATGAAAA
65 ATTTTTAGAATAACAAAACGGCGTCATTTTATTCAAAATG--AA
* * * *
12399183 AATTTTGTGGCGTTTTTATGAAAAACGTCGCAAAAAATAAATCAATTTATAAAAAATAAAAT-AA
1 AA--TAGCGGCGTTTTTATGAAAAACGCCGC-AAAAATAAATCAATTTATAAAAAACAAAATAAA
* * *
12399247 AAATTTTTAGCATAACAAAACGGTGTCATTTTGTTCAAAATG-A
63 AAATTTTTAGAATAACAAAACGGCGTCATTTTATTCAAAATGAA
*
12399290 AATAGCGGCGTTTTTATGAAAAACGCCGCAAAAATAAATCAATTTATAGAAAACAAAATAAAAAA
1 AATAGCGGCGTTTTTATGAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAA
**
12399355 TTTTTAGAATAGTAAAACGGC
66 TTTTTAGAATAACAAAACGGC
12399376 ATGTTTTTGT
Statistics
Matches: 168, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
104 28 0.17
105 46 0.27
107 5 0.03
108 7 0.04
109 15 0.09
110 39 0.23
111 28 0.17
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.28
Consensus pattern (106 bp):
AATAGCGGCGTTTTTATGAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAA
TTTTTAGAATAACAAAACGGCGTCATTTTATTCAAAATGAA
Found at i:12399384 original size:105 final size:105
Alignment explanation
Indices: 12399078--12399422 Score: 402
Period size: 104 Copynumber: 3.3 Consensus size: 105
12399068 AGGTAAGCAA
*
12399078 TAGCGGCGTTTTTTAT-AAAAACGCCAC-AAAATAAATCAATTTATAAAAAACAAAATAAAAAAT
1 TAGCGGCG-TTTTTATGAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAAT
*
12399141 TTTTAGAATAGCAAAACGGC-GTCGTTTTATTCAAAATGAAAAAATT
65 TTTTAGAATAGCAAAACGGCTGT--TTTTGTTCAAAATG---AAA-T
* * * *
12399187 TTGTGGCGTTTTTATGAAAAACGTCGCAAAAAATAAATCAATTTATAAAAAATAAAAT-AAAAAT
1 TAGCGGCGTTTTTATGAAAAACGCCGC-AAAAATAAATCAATTTATAAAAAACAAAATAAAAAAT
* *
12399251 TTTTAGCATAACAAAACGG-TGTCATTTTGTTCAAAATGAAA-
65 TTTTAGAATAGCAAAACGGCTGT--TTTTGTTCAAAATGAAAT
*
12399292 TAGCGGCGTTTTTATGAAAAACGCCGCAAAAATAAATCAATTTATAGAAAACAAAATAAAAAATT
1 TAGCGGCGTTTTTATGAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATT
*
12399357 TTTAGAATAGTAAAACGGCATGTTTTTGTT-AAAA--AAATT
66 TTTAGAATAGCAAAACGGC-TGTTTTTGTTCAAAATGAAA-T
* * *
12399396 TTGCGGCGTTTGTATGAGAAACGCCGC
1 TAGCGGCGTTTTTATGAAAAACGCCGC
12399423 TAAAGGTAAC
Statistics
Matches: 207, Mismatches: 20, Indels: 23
0.83 0.08 0.09
Matches are distributed among these distances:
102 3 0.01
104 56 0.27
105 53 0.26
107 6 0.03
108 7 0.03
109 15 0.07
110 39 0.19
111 28 0.14
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (105 bp):
TAGCGGCGTTTTTATGAAAAACGCCGCAAAAATAAATCAATTTATAAAAAACAAAATAAAAAATT
TTTAGAATAGCAAAACGGCTGTTTTTGTTCAAAATGAAAT
Found at i:12399467 original size:15 final size:15
Alignment explanation
Indices: 12399447--12399498 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
12399437 AAAAAGGCCA
12399447 AAAAAATCAATTTAT
1 AAAAAATCAATTTAT
12399462 AAAAAAT-AA---A-
1 AAAAAATCAATTTAT
12399472 AAATAAATCAATTTAT
1 AAA-AAATCAATTTAT
*
12399488 AAAAAAACAAT
1 AAAAAATCAAT
12399499 AGTGGCGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
10 3 0.10
11 5 0.17
12 2 0.07
14 2 0.07
15 15 0.50
16 3 0.10
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAAAATCAATTTAT
Found at i:12399475 original size:22 final size:24
Alignment explanation
Indices: 12399446--12399493 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
12399436 TAAAAAGGCC
12399446 AAAA-AAATCAATTTATAAAAAAT
1 AAAATAAATCAATTTATAAAAAAT
12399469 AAAAAATAAATCAATTTATAAAAAA
1 --AAAATAAATCAATTTATAAAAAA
12399494 ACAATAGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (24 bp):
AAAATAAATCAATTTATAAAAAAT
Found at i:12400167 original size:27 final size:27
Alignment explanation
Indices: 12400129--12400183 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
12400119 CTCTTGCTTC
*
12400129 TCTTCGTCTTCATCTCCCTTTCATTTA
1 TCTTCGTCTTCATCTCCCTTCCATTTA
12400156 TCTTCGTCTTCATCTCCCTTCCATTTA
1 TCTTCGTCTTCATCTCCCTTCCATTTA
12400183 T
1 T
12400184 TCTACCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.11, C:0.35, G:0.04, T:0.51
Consensus pattern (27 bp):
TCTTCGTCTTCATCTCCCTTCCATTTA
Found at i:12403108 original size:23 final size:23
Alignment explanation
Indices: 12403078--12403538 Score: 296
Period size: 23 Copynumber: 20.3 Consensus size: 23
12403068 GAAATTTGAT
12403078 AGTGCTGCAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
*
12403101 AGTGCTGCAAATTGAAGTATTT-
1 AGTGCTGCAAATTGAAGTGTTTA
* *
12403123 AGTTGCTGGAAATTG-AGATGTTTT
1 AG-TGCTGCAAATTGAAG-TGTTTA
* * *
12403147 A-TCGCTG-TAATTGAGGTGTGTA
1 AGT-GCTGCAAATTGAAGTGTTTA
* * **
12403169 AATGTTGTTAATTGATA-TGTTTA
1 AGTGCTGCAAATTGA-AGTGTTTA
*
12403192 AGTGCTGCAAATTTAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
* *
12403215 AATGCTGTAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
12403238 AGTGCTGCAAATTGAAGTGTTT-
1 AGTGCTGCAAATTGAAGTGTTTA
*
12403260 AGTTGCTAG-AAATTG-AGATGTTTT
1 AG-TGCT-GCAAATTGAAG-TGTTTA
* * * *
12403284 ATTGCTG-TAATTGAGGTGTATA
1 AGTGCTGCAAATTGAAGTGTTTA
* * **
12403306 AATGTTGTTAATTGATA-TG-TTA
1 AGTGCTGCAAATTGA-AGTGTTTA
*
12403328 AGTGCTGCAAATTTAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
* *
12403351 AATGCTGTAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
*
12403374 AGTGCTGCAAATTGAAGTATTT-
1 AGTGCTGCAAATTGAAGTGTTTA
* *
12403396 AGTTGCTGGAAATTG-AGATGTTTT
1 AG-TGCTGCAAATTGAAG-TGTTTA
* * *
12403420 A-TCGCTG-TAATTGAGGTG-TAA
1 AGT-GCTGCAAATTGAAGTGTTTA
* * **
12403441 AATGTTGTTAATTGATA-TGTTTA
1 AGTGCTGCAAATTGA-AGTGTTTA
12403464 AGTGCTGCAAATTGAAGTGTTT-
1 AGTGCTGCAAATTGAAGTGTTTA
* *
12403486 AGTTGTTGCAAATTG-AGATGTTTT
1 AG-TGCTGCAAATTGAAG-TGTTTA
* *
12403510 A-TCGCTGTAAATTGAAGTGTTAA
1 AGT-GCTGCAAATTGAAGTGTTTA
12403533 AGTGCT
1 AGTGCT
12403539 ACTTTCCATT
Statistics
Matches: 346, Mismatches: 58, Indels: 68
0.73 0.12 0.14
Matches are distributed among these distances:
21 6 0.02
22 80 0.23
23 252 0.73
24 8 0.02
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.40
Consensus pattern (23 bp):
AGTGCTGCAAATTGAAGTGTTTA
Found at i:12403228 original size:46 final size:46
Alignment explanation
Indices: 12403080--12403538 Score: 386
Period size: 46 Copynumber: 10.1 Consensus size: 46
12403070 AATTTGATAG
* * **
12403080 TGCTGCAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTATTTAGT
1 TGCTGTAAATTGAGA-TGTTTAAGTGCTGCAAATTGAAGTGTTTAAA
* * * * *
12403126 TGCTGGAAATTGAGATGTTTTA-TCGCTG-TAATTGAGGTGTGTAAA
1 TGCTGTAAATTGAGATGTTTAAGT-GCTGCAAATTGAAGTGTTTAAA
* * * *
12403171 TGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAA
1 TGCTGTAAATTGAGATGTTTAAGTGCTGCAAATTGAAGTGTTTAAA
**
12403217 TGCTGTAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGT
1 TGCTGTAAATTGAGA-TGTTTAAGTGCTGCAAATTGAAGTGTTTAAA
* * * * *
12403263 TGCTAG-AAATTGAGATGTTTTATTGCTG-TAATTGAGGTGTATAAA
1 TGCT-GTAAATTGAGATGTTTAAGTGCTGCAAATTGAAGTGTTTAAA
* * * *
12403308 TGTTGTTAATTGATATG-TTAAGTGCTGCAAATTTAAGTGTTTAAA
1 TGCTGTAAATTGAGATGTTTAAGTGCTGCAAATTGAAGTGTTTAAA
* **
12403353 TGCTGTAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTATTTAGT
1 TGCTGTAAATTGAGA-TGTTTAAGTGCTGCAAATTGAAGTGTTTAAA
* * * * *
12403399 TGCTGGAAATTGAGATGTTTTA-TCGCTG-TAATTGAGGTG-TAAAA
1 TGCTGTAAATTGAGATGTTTAAGT-GCTGCAAATTGAAGTGTTTAAA
* * * **
12403443 TGTTGTTAATTGATATGTTTAAGTGCTGCAAATTGAAGTGTTTAGT
1 TGCTGTAAATTGAGATGTTTAAGTGCTGCAAATTGAAGTGTTTAAA
* * * *
12403489 TGTTGCAAATTGAGATGTTTTA-TCGCTGTAAATTGAAGTG-TTAAA
1 TGCTGTAAATTGAGATGTTTAAGT-GCTGCAAATTGAAGTGTTTAAA
12403534 GTGCT
1 -TGCT
12403539 ACTTTCCATT
Statistics
Matches: 325, Mismatches: 70, Indels: 36
0.75 0.16 0.08
Matches are distributed among these distances:
44 33 0.10
45 107 0.33
46 181 0.56
47 4 0.01
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (46 bp):
TGCTGTAAATTGAGATGTTTAAGTGCTGCAAATTGAAGTGTTTAAA
Found at i:12403357 original size:113 final size:112
Alignment explanation
Indices: 12403212--12403533 Score: 359
Period size: 113 Copynumber: 2.8 Consensus size: 112
12403202 ATTTAAGTGT
12403212 TTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTAG-AAATTGA
1 TTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCT-GCAAATTGA
* *
12403276 GATGTTTTATTGCTGTAATTGAGGTGTATAAAT-GTTGTTAATTGATATG
65 GATGTTTTATTGCTGTAATTGAGGTGT-TAAATCGCTG-TAATTGAGATG
* * * * *
12403325 TTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAG-TGCTGCAAATTGA
1 TTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTT-AGTTGCTGCAAATTGA
* * ** *
12403389 -A-GTATTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTG
65 GATGT-TTTA-TTGCT-GTAATTGAGGTGTTAAATCGCTGTAATTGAGATG
* * * *
12403438 TAAAATGTTGTTAATTGATA-TGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGTTGCAAATTGA
1 TTAAATGCTGTAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGCAAATTGA
* *
12403502 GATGTTTTATCGCTGTAAATTGAAGTGTTAAA
65 GATGTTTTATTGCTGT-AATTGAGGTGTTAAA
12403534 GTGCTACTTT
Statistics
Matches: 171, Mismatches: 27, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
111 2 0.01
112 9 0.05
113 136 0.80
114 22 0.13
115 2 0.01
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.41
Consensus pattern (112 bp):
TTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGCAAATTGAG
ATGTTTTATTGCTGTAATTGAGGTGTTAAATCGCTGTAATTGAGATG
Found at i:12403397 original size:136 final size:137
Alignment explanation
Indices: 12403080--12403486 Score: 746
Period size: 136 Copynumber: 3.0 Consensus size: 137
12403070 AATTTGATAG
*
12403080 TGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTT
1 TGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTT
*
12403145 TTATCGCTGTAATTGAGGTGTGTAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGT
66 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGT
12403210 GTTTAAA
131 GTTTAAA
* *
12403217 TGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTAGAAATTGAGATGTT
1 TGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTT
*
12403282 TTATTGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATG-TTAAGTGCTGCAAATTTAAGT
66 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGT
12403346 GTTTAAA
131 GTTTAAA
12403353 TGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTT
1 TGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTT
*
12403418 TTATCGCTGTAATTGAGGTGTA-AAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTGAAGT
66 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGT
12403482 GTTTA
131 GTTTA
12403487 GTTGTTGCAA
Statistics
Matches: 260, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
135 20 0.08
136 137 0.53
137 103 0.40
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (137 bp):
TGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTT
TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGT
GTTTAAA
Found at i:12410131 original size:5 final size:5
Alignment explanation
Indices: 12410118--12410151 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
12410108 TGCATTACAA
* *
12410118 AAAAT AAAAG AAAAG AAAAG AAAAA AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
12410152 AACAACATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:12410136 original size:10 final size:10
Alignment explanation
Indices: 12410117--12410153 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
12410107 GTGCATTACA
12410117 AAAAATAAAAG
1 AAAAA-AAAAG
*
12410128 AAAAGAAAAG
1 AAAAAAAAAG
12410138 AAAAAAAAAG
1 AAAAAAAAAG
12410148 AAAAAA
1 AAAAAA
12410154 CAACATACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 20 0.83
11 4 0.17
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:12413591 original size:376 final size:377
Alignment explanation
Indices: 12412891--12413630 Score: 1446
Period size: 376 Copynumber: 2.0 Consensus size: 377
12412881 AAGTGGCGTG
12412891 CATATATTAAAAACATGATTACGCGTATGTGCCTCCAGTAGTAGTATGGTTGTAATCTCTTCCAG
1 CATATATTAAAAACATGATTACGCGTATGTGCCTCCAGTAGTAGTATGGTTGTAATCTCTTCCAG
12412956 TTGGTACAACATCCACAGAAATTTAAAAAATAAATAGAAGTATTGCATTTAAATTATATTATGAG
66 TTGGTACAACATCCACAGAAATTTAAAAAATAAATAGAAGTATTGCATTTAAATTATATTATGAG
12413021 ATGATATTAATAAAAGTCCATAAACACAACAATATAAAACATGAATTACCTAATCAATAGATTGC
131 ATGATATTAATAAAAGTCCATAAACACAACAATATAAAACATGAATTACCTAATCAATAGATTGC
12413086 ATATCAATGGATGTTCGTATCGCTAACAAGTCATCCTTCTAATAAGTTTTATAGTCATGATGCCT
196 ATATCAATGGATGTTCGTATCGCTAACAAGTCATCCTTCTAATAAGTTTTATAGTCATGATGCCT
12413151 AGACCACATATTAAAATATAAAATGTTAGTACATATATAAACCATTTAGAAAGTAATGGATTTTA
261 AGACCACATATTAAAATATAAAATGTTAGTACATATATAAACCATTTAGAAAGTAATGGATTTTA
12413216 AGGTTTGGGGTTTTATTTTTACTTTATAAGGGAAACTGATTACGCGTATGTA
326 AGGTTTGGGGTTTTATTTTTACTTTATAAGGGAAACTGATTACGCGTATGTA
12413268 CATATA-TAAAAACATGATTACGCGTATGTGCCTCCAGTAGTAGTATGGTTGTAATCTCTTCCAG
1 CATATATTAAAAACATGATTACGCGTATGTGCCTCCAGTAGTAGTATGGTTGTAATCTCTTCCAG
12413332 TTGGTACAACATCCACAGAAATTTAAAAAATAAATAGAAGTATTGCATTTAAATTATATTATGAG
66 TTGGTACAACATCCACAGAAATTTAAAAAATAAATAGAAGTATTGCATTTAAATTATATTATGAG
*
12413397 ATGATATTAATAAAAGTCCATAAATACAACAATATAAAACATGAATTACCTAATCAATAGATTGC
131 ATGATATTAATAAAAGTCCATAAACACAACAATATAAAACATGAATTACCTAATCAATAGATTGC
* *
12413462 ATATCAGTGGATGTTCGTATCGCTAACAATTCATCCTTCTAATAAGTTTTATAGTCATGATGCCT
196 ATATCAATGGATGTTCGTATCGCTAACAAGTCATCCTTCTAATAAGTTTTATAGTCATGATGCCT
12413527 AGACCACATATTAAAATATAAAATGTTAGTACATATATAAACCATTTAGAAAGTAATGGATTTTA
261 AGACCACATATTAAAATATAAAATGTTAGTACATATATAAACCATTTAGAAAGTAATGGATTTTA
12413592 AGGTTTGGGGTTTTATTTTTACTTTATAAGGGAAACTGA
326 AGGTTTGGGGTTTTATTTTTACTTTATAAGGGAAACTGA
12413631 GAGCTTTGGA
Statistics
Matches: 360, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
376 354 0.98
377 6 0.02
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (377 bp):
CATATATTAAAAACATGATTACGCGTATGTGCCTCCAGTAGTAGTATGGTTGTAATCTCTTCCAG
TTGGTACAACATCCACAGAAATTTAAAAAATAAATAGAAGTATTGCATTTAAATTATATTATGAG
ATGATATTAATAAAAGTCCATAAACACAACAATATAAAACATGAATTACCTAATCAATAGATTGC
ATATCAATGGATGTTCGTATCGCTAACAAGTCATCCTTCTAATAAGTTTTATAGTCATGATGCCT
AGACCACATATTAAAATATAAAATGTTAGTACATATATAAACCATTTAGAAAGTAATGGATTTTA
AGGTTTGGGGTTTTATTTTTACTTTATAAGGGAAACTGATTACGCGTATGTA
Found at i:12416155 original size:44 final size:44
Alignment explanation
Indices: 12416062--12416158 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
12416052 CATTTAATCG
* *
12416062 TTCACTGTGTACTCACAGTTACAATATATTCCAACTACGATGAT
1 TTCACTGTGTACTCACAGTTACAATATAATCCAACTACGATCAT
* * *
12416106 CTCACTGTGTATTCACAGTTACAGTA-AATCCTAACTACGA-CATT
1 TTCACTGTGTACTCACAGTTACAATATAATCC-AACTACGATCA-T
12416150 TTCACTGTG
1 TTCACTGTG
12416159 CTCTCACGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 5 0.11
44 40 0.89
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (44 bp):
TTCACTGTGTACTCACAGTTACAATATAATCCAACTACGATCAT
Found at i:12423157 original size:16 final size:15
Alignment explanation
Indices: 12423132--12423177 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
12423122 AAAAAAAGGC
12423132 AAAA-AAAAAGAACAA
1 AAAATAAAAAGAA-AA
12423147 AAAATAAAAAGAAAA
1 AAAATAAAAAGAAAA
12423162 AGAAATAGAAAA-AAAA
1 A-AAATA-AAAAGAAAA
12423178 CTCTCTACCG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 7 0.25
16 17 0.61
17 4 0.14
ACGTcount: A:0.85, C:0.02, G:0.09, T:0.04
Consensus pattern (15 bp):
AAAATAAAAAGAAAA
Found at i:12423822 original size:42 final size:42
Alignment explanation
Indices: 12423763--12423866 Score: 163
Period size: 42 Copynumber: 2.5 Consensus size: 42
12423753 AAACCCGAAA
*
12423763 AGGGCAGCTCAAATTTTGATCAGGATAGGGCTGGAAGTGATC
1 AGGGCAGCTCAAATTTTGATCAGAATAGGGCTGGAAGTGATC
12423805 AGGGCAGCTCAAATTTTGATCAGAATAGGGCTGGAAGTGATC
1 AGGGCAGCTCAAATTTTGATCAGAATAGGGCTGGAAGTGATC
* ** *
12423847 AGAGTGGCTCAGATTTTGAT
1 AGGGCAGCTCAAATTTTGAT
12423867 TGGAATGGGG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (42 bp):
AGGGCAGCTCAAATTTTGATCAGAATAGGGCTGGAAGTGATC
Found at i:12425236 original size:50 final size:50
Alignment explanation
Indices: 12425176--12425640 Score: 339
Period size: 50 Copynumber: 9.3 Consensus size: 50
12425166 TTAAAAAGAA
12425176 TGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAACAGAT
1 TGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAACAGAT
* * *** * * * *
12425226 TGAAGTCACAATGGCAGATCTGGTTTCCCCGACAGTGCAAT--TACAAGGAT
1 TGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAAC-A-GAT
* * * *
12425276 TGAAGCCACAGCGGCAGATCTTACTTCCCTAGCGGTGCAGTGGAGCAGAT
1 TGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAACAGAT
* *** * * * * * *
12425326 TGAAGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCAAT-TACAAAGAT
1 TGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGA-ACAGAT
* * * *
12425376 TGAAGCCACAACGGCAGAACGTACTTCCCTGGCGGTGCAGTGGAGCAGAT
1 TGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAACAGAT
* * *** * * * * * *
12425426 TGAAGTCACAACAGCAGATCTGGTTTCCCCGACAGCGCAAT-TACAAAGAT
1 TGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGA-ACAGAT
*
12425476 TGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGA-GGAGCAGAT
1 TGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCA-ATGGAACAGAT
** * * * * * ** *
12425526 TGAAGTTACAACGGCAGATC-TAGTTTCCCCGACAGCGCAATTAAAAAGAT
1 TGAAGCCACAACGGCAGATCTTA-CTTCCCTGGCGGTGCAATGGAACAGAT
* * * *
12425576 TGAAGCCACAACGACAGATCTTACTTCCCTGGCGGAGCAGTGGAGCATGAT
1 TGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAACA-GAT
*
12425627 TGAAGTCACAACGG
1 TGAAGCCACAACGG
12425641 TGGATCTGGT
Statistics
Matches: 299, Mismatches: 103, Indels: 25
0.70 0.24 0.06
Matches are distributed among these distances:
48 2 0.01
49 6 0.02
50 269 0.90
51 21 0.07
52 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.26, T:0.20
Consensus pattern (50 bp):
TGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAACAGAT
Found at i:12425349 original size:100 final size:100
Alignment explanation
Indices: 12425165--12425760 Score: 843
Period size: 100 Copynumber: 6.0 Consensus size: 100
12425155 TTTGGCATTG
* * * *
12425165 ATTAAAAAGAATGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAATGGAACAGATTGAA
1 ATTACAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAA
* *
12425230 GTCACAATGGCAGATCTGGTTTCCCCGACAGTGCA
66 GTCACAACGGCAGATCTGGTTTCCCCGACAGCGCA
* * *
12425265 ATTACAAGGATTGAAGCCACAGCGGCAGATCTTACTTCCCTAGCGGTGCAGTGGAGCAGATTGAA
1 ATTACAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAA
12425330 GTCACAACGGCAGATCTGGTTTCCCCGACAGCGCA
66 GTCACAACGGCAGATCTGGTTTCCCCGACAGCGCA
* *
12425365 ATTACAAAGATTGAAGCCACAACGGCAGAACGTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAA
1 ATTACAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAA
*
12425430 GTCACAACAGCAGATCTGGTTTCCCCGACAGCGCA
66 GTCACAACGGCAGATCTGGTTTCCCCGACAGCGCA
*
12425465 ATTACAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGAGGAGCAGATTGAA
1 ATTACAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAA
* *
12425530 GTTACAACGGCAGATCTAGTTTCCCCGACAGCGCA
66 GTCACAACGGCAGATCTGGTTTCCCCGACAGCGCA
* * *
12425565 ATTAAAAAGATTGAAGCCACAACGACAGATCTTACTTCCCTGGCGGAGCAGTGGAGCATGATTGA
1 ATTACAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCA-GATTGA
** *
12425630 AGTCACAACGGTGGATCTGGTTTCCCCGACAACGCA
65 AGTCACAACGGCAGATCTGGTTTCCCCGACAGCGCA
* * ** * * * * * * *
12425666 ATTAAAAAGATTGAAGGCACAACGGTGGATTTTACCTCCTTAGCTGTGCAGTTGAACAGATTGAA
1 ATTACAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAA
* * * *
12425731 G-CTACAACGACGGATCTTGTTTCCTCGACA
66 GTC-ACAACGGCAGATCTGGTTTCCCCGACA
12425761 TTGTAATTGG
Statistics
Matches: 448, Mismatches: 46, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
99 1 0.00
100 364 0.81
101 83 0.19
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (100 bp):
ATTACAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAA
GTCACAACGGCAGATCTGGTTTCCCCGACAGCGCA
Found at i:12429178 original size:506 final size:506
Alignment explanation
Indices: 12428226--12429240 Score: 1994
Period size: 506 Copynumber: 2.0 Consensus size: 506
12428216 ACTGGGTGTG
*
12428226 ATGTTTTATGTCTTTGAGATAAGAATGTTTTGTTGTTTTAATTCATTCATGAGTAAAAAGTTTTC
1 ATGTTTTATGGCTTTGAGATAAGAATGTTTTGTTGTTTTAATTCATTCATGAGTAAAAAGTTTTC
12428291 TTTTAAAATCTTTTCAAATTTTCGACACCAAGACATAAAACAATCAATTCGGTACCGATTTTGGG
66 TTTTAAAATCTTTTCAAATTTTCGACACCAAGACATAAAACAATCAATTCGGTACCGATTTTGGG
12428356 CGTTACGAGGGTGTTAAACCCTTCCTCATGCTTAACTAACTCCCGAACCCATTTTTCTCAGATTT
131 CGTTACGAGGGTGTTAAACCCTTCCTCATGCTTAACTAACTCCCGAACCCATTTTTCTCAGATTT
12428421 TGTAGACCAGAATTGTTTTTATGGTGAGCCGATCACACCTTAATAAATGATCAGTGGCGACTCCA
196 TGTAGACCAGAATTGTTTTTATGGTGAGCCGATCACACCTTAATAAATGATCAGTGGCGACTCCA
12428486 ATTTTTGTTTTTAAAGTCGACAACTAAATTTTTGTTTTCAAAAAATTGGTTTCGATAGCTATGAT
261 ATTTTTGTTTTTAAAGTCGACAACTAAATTTTTGTTTTCAAAAAATTGGTTTCGATAGCTATGAT
* * *
12428551 TTACGATGTGATTTGCTTATGATAATAAAATGTTTAGTATATGATGTTATGCTCCGGTTACTTCG
326 TTACGATGTGATTTGATTATGAGAATAAAATGTTCAGTATATGATGTTATGCTCCGGTTACTTCG
12428616 TAGCCCAAATCCAGTGACAGATATGGGCTAGGGGTGTTACAAAAGTAGCAACATCGAATTACCGC
391 TAGCCCAAATCCAGTGACAGATATGGGCTAGGGGTGTTACAAAAGTAGCAACATCGAATTACCGC
12428681 GTTTAAAATTGACAGATATTTATAACCGATTGTTATTCTTGATAATGATGT
456 GTTTAAAATTGACAGATATTTATAACCGATTGTTATTCTTGATAATGATGT
12428732 ATGTTTTATGGCTTTGAGATAAGAATGTTTTGTTGTTTTAATTCATTCATGAGTAAAAAGTTTTC
1 ATGTTTTATGGCTTTGAGATAAGAATGTTTTGTTGTTTTAATTCATTCATGAGTAAAAAGTTTTC
12428797 TTTTAAAATCTTTTCAAATTTTCGACACCAAGACATAAAACAATCAATTCGGTACCGATTTTGGG
66 TTTTAAAATCTTTTCAAATTTTCGACACCAAGACATAAAACAATCAATTCGGTACCGATTTTGGG
12428862 CGTTACGAGGGTGTTAAACCCTTCCTCATGCTTAACTAACTCCCGAACCCATTTTTCTCAGATTT
131 CGTTACGAGGGTGTTAAACCCTTCCTCATGCTTAACTAACTCCCGAACCCATTTTTCTCAGATTT
12428927 TGTAGACCAGAATTGTTTTTATGGTGAGCCGATCACACCTTAATAAATGATCAGTGGCGACTCCA
196 TGTAGACCAGAATTGTTTTTATGGTGAGCCGATCACACCTTAATAAATGATCAGTGGCGACTCCA
12428992 ATTTTTGTTTTTAAAGTCGACAACTAAATTTTTGTTTTCAAAAAATTGGTTTCGATAGCTATGAT
261 ATTTTTGTTTTTAAAGTCGACAACTAAATTTTTGTTTTCAAAAAATTGGTTTCGATAGCTATGAT
12429057 TTACGATGTGATTTGATTATGAGAATAAAATGTTCAGTATATGATGTTATGCTCCGGTTACTTCG
326 TTACGATGTGATTTGATTATGAGAATAAAATGTTCAGTATATGATGTTATGCTCCGGTTACTTCG
12429122 TAGCCCAAATCCAGTGACAGATATGGGCTAGGGGTGTTACAAAAGTAGCAACATCGAATTACCGC
391 TAGCCCAAATCCAGTGACAGATATGGGCTAGGGGTGTTACAAAAGTAGCAACATCGAATTACCGC
12429187 GTTTAAAATTGACAGATATTTATAACCGATTGTTATTCTTGATAATGATGT
456 GTTTAAAATTGACAGATATTTATAACCGATTGTTATTCTTGATAATGATGT
12429238 ATG
1 ATG
12429241 ATGTTATTTA
Statistics
Matches: 505, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
506 505 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (506 bp):
ATGTTTTATGGCTTTGAGATAAGAATGTTTTGTTGTTTTAATTCATTCATGAGTAAAAAGTTTTC
TTTTAAAATCTTTTCAAATTTTCGACACCAAGACATAAAACAATCAATTCGGTACCGATTTTGGG
CGTTACGAGGGTGTTAAACCCTTCCTCATGCTTAACTAACTCCCGAACCCATTTTTCTCAGATTT
TGTAGACCAGAATTGTTTTTATGGTGAGCCGATCACACCTTAATAAATGATCAGTGGCGACTCCA
ATTTTTGTTTTTAAAGTCGACAACTAAATTTTTGTTTTCAAAAAATTGGTTTCGATAGCTATGAT
TTACGATGTGATTTGATTATGAGAATAAAATGTTCAGTATATGATGTTATGCTCCGGTTACTTCG
TAGCCCAAATCCAGTGACAGATATGGGCTAGGGGTGTTACAAAAGTAGCAACATCGAATTACCGC
GTTTAAAATTGACAGATATTTATAACCGATTGTTATTCTTGATAATGATGT
Found at i:12430624 original size:27 final size:27
Alignment explanation
Indices: 12430594--12430678 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
12430584 CAAGTCTTCT
12430594 ATTTCATAGATTACCACAAAGGCTTTC
1 ATTTCATAGATTACCACAAAGGCTTTC
** *
12430621 ATTTCATAGATTGTCACAAAGACTTTC
1 ATTTCATAGATTACCACAAAGGCTTTC
* * *
12430648 ATTTCATGGATTTCCACAAAGGCTTCC
1 ATTTCATAGATTACCACAAAGGCTTTC
12430675 ATTT
1 ATTT
12430679 TTTGGCGTGT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (27 bp):
ATTTCATAGATTACCACAAAGGCTTTC
Found at i:12433083 original size:28 final size:28
Alignment explanation
Indices: 12433023--12433090 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 28
12433013 TGCCAAAAAT
*
12433023 ATAAAAAAT-AAAAAATTATTAATTTTA
1 ATAAAAAATAAAAAAATTATTAATATTA
12433050 ATAAAAATATAAAAAAATTATTAA-ATTA
1 ATAAAAA-ATAAAAAAATTATTAATATTA
*
12433078 GAAAAAAAATAAA
1 -ATAAAAAATAAA
12433091 TTATAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
27 7 0.19
28 10 0.28
29 19 0.53
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.29
Consensus pattern (28 bp):
ATAAAAAATAAAAAAATTATTAATATTA
Found at i:12433084 original size:29 final size:28
Alignment explanation
Indices: 12433025--12433090 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
12433015 CCAAAAATAT
*
12433025 AAAAAAT-AAAAAATTATTAATTTTAATA
1 AAAAAATAAAAAAATTATTAATATTAA-A
*
12433053 AAAATATAAAAAAATTATTAA-ATTAGAA
1 AAAAAATAAAAAAATTATTAATATTA-AA
12433081 AAAAAATAAA
1 AAAAAATAAA
12433091 TTATAAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 19 0.58
29 14 0.42
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (28 bp):
AAAAAATAAAAAAATTATTAATATTAAA
Found at i:12433118 original size:53 final size:55
Alignment explanation
Indices: 12433025--12433129 Score: 128
Period size: 53 Copynumber: 1.9 Consensus size: 55
12433015 CCAAAAATAT
* *
12433025 AAAAAATAAAAAATTATTAATTTTAATAAAAATATAAAAAAAT-TATTAAATTAG
1 AAAAAATAAAAAATTATAAATTTTAATAAAAATATAAAAAAATATATAAAATTAG
* *
12433079 AAAAAA-AATAAATTATAAAATTTT-ATAACAATCAT-AAAAAATATATAAAAT
1 AAAAAATAAAAAATTAT-AAATTTTAATAAAAAT-ATAAAAAAATATATAAAAT
12433130 GCATAAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
53 23 0.52
54 21 0.48
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (55 bp):
AAAAAATAAAAAATTATAAATTTTAATAAAAATATAAAAAAATATATAAAATTAG
Found at i:12433125 original size:20 final size:20
Alignment explanation
Indices: 12433102--12433139 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12433092 TATAAAATTT
12433102 TATAACAAT-CATAAAAAATA
1 TATAA-AATGCATAAAAAATA
12433122 TATAAAATGCATAAAAAA
1 TATAAAATGCATAAAAAA
12433140 AAACCCTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.66, C:0.08, G:0.03, T:0.24
Consensus pattern (20 bp):
TATAAAATGCATAAAAAATA
Found at i:12433172 original size:26 final size:26
Alignment explanation
Indices: 12433136--12433186 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
12433126 AAATGCATAA
12433136 AAAAAAACCCTTTAACCATTAATTTC
1 AAAAAAACCCTTTAACCATTAATTTC
*
12433162 AAAAAATCCCTTTAACCATTAATTT
1 AAAAAAACCCTTTAACCATTAATTT
12433187 TAATCGTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAAAAACCCTTTAACCATTAATTTC
Found at i:12433410 original size:37 final size:37
Alignment explanation
Indices: 12433333--12433411 Score: 90
Period size: 37 Copynumber: 2.1 Consensus size: 37
12433323 AATACGATAG
* **
12433333 TTTTTATACTTTTTTACGAATTTTATATTTCTTTACA
1 TTTTTATAATTTTTTACGAATTTTATAAATCTTTACA
*
12433370 TTTTTATAATTTTCTTACGAA-TTTATAAAAT-TTTATA
1 TTTTTATAATTTT-TTACGAATTTTAT-AAATCTTTACA
12433407 TTTTT
1 TTTTT
12433412 CTATATTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 27 0.75
38 9 0.25
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (37 bp):
TTTTTATAATTTTTTACGAATTTTATAAATCTTTACA
Found at i:12433440 original size:10 final size:10
Alignment explanation
Indices: 12433427--12433547 Score: 63
Period size: 10 Copynumber: 12.3 Consensus size: 10
12433417 TTTCTAAATA
12433427 TTTTATAATT
1 TTTTATAATT
*
12433437 TTTTACAA-T
1 TTTTATAATT
**
12433446 TTTTATAAAA
1 TTTTATAATT
* *
12433456 TTCTA-ATTT
1 TTTTATAATT
*
12433465 TTTTATAAAT
1 TTTTATAATT
*
12433475 TTTCAT-A-T
1 TTTTATAATT
*
12433483 TTTTATAGTT
1 TTTTATAATT
* **
12433493 TTTAATTAAAA
1 TTTTA-TAATT
*
12433504 TTTAATAATT
1 TTTTATAATT
12433514 TTTTATAA-T
1 TTTTATAATT
12433523 TTTTATTAATTT
1 TTTTA-TAA-TT
*
12433535 TTTTATCATT
1 TTTTATAATT
12433545 TTT
1 TTT
12433548 CTCACATATC
Statistics
Matches: 82, Mismatches: 21, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
8 6 0.07
9 20 0.24
10 41 0.50
11 9 0.11
12 6 0.07
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:12433449 original size:19 final size:19
Alignment explanation
Indices: 12433333--12433537 Score: 83
Period size: 19 Copynumber: 10.8 Consensus size: 19
12433323 AATACGATAG
*
12433333 TTTTTATACTTTTTTACGAA
1 TTTTTATAATTTTTTAC-AA
12433353 -TTTTAT-ATTTCTTTAC-A
1 TTTTTATAATTT-TTTACAA
12433370 TTTTTATAATTTTCTTACGAA
1 TTTTTATAATTTT-TTAC-AA
** *
12433391 --TTTATAAAATTTTA-TA
1 TTTTTATAATTTTTTACAA
* *
12433407 TTTTTCT-ATATTTCTA-AA
1 TTTTTATAAT-TTTTTACAA
12433425 TATTTTATAATTTTTTACAA
1 T-TTTTATAATTTTTTACAA
** * *
12433445 TTTTTATAAAATTCTA-ATT
1 TTTTTATAATTTTTTACA-A
*
12433464 TTTTTATAA-ATTTT-CATA
1 TTTTTATAATTTTTTACA-A
*
12433482 TTTTTATAGTTTTTAATTA-AA
1 TTTTTATA-ATTTT--TTACAA
* * *
12433503 ATTTAATAATTTTTTATAA
1 TTTTTATAATTTTTTACAA
12433522 TTTTTATTAATTTTTT
1 TTTTTA-TAATTTTTT
12433538 TATCATTTTT
Statistics
Matches: 140, Mismatches: 24, Indels: 42
0.68 0.12 0.20
Matches are distributed among these distances:
16 1 0.01
17 2 0.01
18 41 0.29
19 65 0.46
20 20 0.14
21 8 0.06
22 3 0.02
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.61
Consensus pattern (19 bp):
TTTTTATAATTTTTTACAA
Found at i:12433460 original size:38 final size:37
Alignment explanation
Indices: 12433391--12433489 Score: 103
Period size: 38 Copynumber: 2.6 Consensus size: 37
12433381 TTCTTACGAA
* * *
12433391 TTTATAAAATTTT-ATATTTTTCTATATTTCTAAATAT
1 TTTAT-AAATTTTCATATTTTTATAAAATTCTAAATAT
* * *
12433428 TTTATAATTTTTTACA-ATTTTTATAAAATTCTAATTTT
1 TTTATAA-ATTTT-CATATTTTTATAAAATTCTAAATAT
12433466 TTTATAAATTTTCATATTTTTATA
1 TTTATAAATTTTCATATTTTTATA
12433490 GTTTTTAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
36 4 0.08
37 22 0.43
38 24 0.47
39 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (37 bp):
TTTATAAATTTTCATATTTTTATAAAATTCTAAATAT
Found at i:12433474 original size:18 final size:18
Alignment explanation
Indices: 12433444--12433489 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
12433434 ATTTTTTACA
12433444 ATTTTTATAAAATTCTAAT
1 ATTTTTAT-AAATTCTAAT
* * *
12433463 TTTTTTATAAATTTTCAT
1 ATTTTTATAAATTCTAAT
12433481 ATTTTTATA
1 ATTTTTATA
12433490 GTTTTTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTATAAATTCTAAT
Found at i:12434656 original size:27 final size:25
Alignment explanation
Indices: 12434582--12434666 Score: 93
Period size: 27 Copynumber: 3.4 Consensus size: 25
12434572 TTTTAGATGG
* *
12434582 ATAT-AAAATTTTAATTTTTTAAAT
1 ATATAAAAATATTAAATTTTTAAAT
* *
12434606 ATA-AAAATTATTAAATTTAGTAAAT
1 ATATAAAAATATTAAATTT-TTAAAT
12434631 ATAATAAAAATATTATAATTTTTAAAT
1 AT-ATAAAAATATTA-AATTTTTAAAT
12434658 ATATAAAAA
1 ATATAAAAA
12434667 ATAAAAATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
24 14 0.28
25 7 0.14
26 8 0.16
27 16 0.32
28 5 0.10
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (25 bp):
ATATAAAAATATTAAATTTTTAAAT
Found at i:12434699 original size:33 final size:33
Alignment explanation
Indices: 12434633--12434699 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
12434623 TAGTAAATAT
** * *
12434633 AATAAAAATATTATAATTTTTAAATATATAAAA
1 AATAAAAATATTATAATTTGCAAATAAAAAAAA
12434666 AATAAAAATATTAATAATTTGCAAA-AAAAAAAA
1 AATAAAAATATT-ATAATTTGCAAATAAAAAAAA
12434699 A
1 A
12434700 TTGTGTTTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 19 0.66
34 10 0.34
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (33 bp):
AATAAAAATATTATAATTTGCAAATAAAAAAAA
Found at i:12437373 original size:9 final size:9
Alignment explanation
Indices: 12437356--12437386 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
12437346 TCGAGTTGAT
12437356 TCGAATAAC
1 TCGAATAAC
*
12437365 TCGATTAAC
1 TCGAATAAC
12437374 TCGAATAAC
1 TCGAATAAC
12437383 TCGA
1 TCGA
12437387 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:12437811 original size:16 final size:16
Alignment explanation
Indices: 12437790--12437872 Score: 68
Period size: 16 Copynumber: 5.2 Consensus size: 16
12437780 ATGAATATAG
12437790 TAATTATAATAAAATC
1 TAATTATAATAAAATC
12437806 TAATTA-ACATAAAAATC
1 TAATTATA-AT-AAAATC
*
12437823 --CTTATAATAAAATC
1 TAATTATAATAAAATC
12437837 TAATTA-ACATAAAAT-
1 TAATTATA-ATAAAATC
**
12437852 TCCTTATAATAAAAATC
1 TAATTATAAT-AAAATC
12437869 TAAT
1 TAAT
12437873 AAGCATAGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 17
0.69 0.08 0.23
Matches are distributed among these distances:
14 6 0.12
15 13 0.25
16 25 0.48
17 8 0.15
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATTATAATAAAATC
Found at i:12437828 original size:31 final size:31
Alignment explanation
Indices: 12437793--12437872 Score: 142
Period size: 31 Copynumber: 2.5 Consensus size: 31
12437783 AATATAGTAA
12437793 TTATAATAAAATCTAATTAACATAAAAATCC
1 TTATAATAAAATCTAATTAACATAAAAATCC
*
12437824 TTATAATAAAATCTAATTAACATAAAATTCC
1 TTATAATAAAATCTAATTAACATAAAAATCC
12437855 TTATAATAAAAATCTAAT
1 TTATAAT-AAAATCTAAT
12437873 AAGCATAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 37 0.79
32 10 0.21
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (31 bp):
TTATAATAAAATCTAATTAACATAAAAATCC
Found at i:12437834 original size:15 final size:15
Alignment explanation
Indices: 12437814--12437868 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
12437804 TCTAATTAAC
12437814 ATAAAAATCCTTATA
1 ATAAAAATCCTTATA
*
12437829 AT-AAAAT-CTAATTAA
1 ATAAAAATCCTTA-T-A
*
12437844 CATAAAATTCCTTATA
1 -ATAAAAATCCTTATA
12437860 ATAAAAATC
1 ATAAAAATC
12437869 TAATAAGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
13 3 0.10
14 6 0.19
15 11 0.35
16 3 0.10
17 5 0.16
18 3 0.10
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAAAATCCTTATA
Found at i:12442080 original size:43 final size:43
Alignment explanation
Indices: 12441942--12442148 Score: 222
Period size: 43 Copynumber: 4.8 Consensus size: 43
12441932 TTTTATCTTA
* * * *
12441942 AACATGGTCTTTAGCGGCG-TTTTTATATAAGCGCCGCTAAAG
1 AACATGATCTTTAGCGGCGCTTTGTATAAAAACGCCGCTAAAG
* * * * *
12441984 AACATGATCTTTAGTGGCGTTTTTTAT-TAAGCGCCGCTAAAG
1 AACATGATCTTTAGCGGCGCTTTGTATAAAAACGCCGCTAAAG
* *
12442026 AACATGTTCTTTAACGGCGCTTTGTATAAAAACGCCGCTAAAG
1 AACATGATCTTTAGCGGCGCTTTGTATAAAAACGCCGCTAAAG
* * * *
12442069 AATATGATCTTTAGCGACGCTTT-TTTCACAAACGCCGCTAAAG
1 AACATGATCTTTAGCGGCGCTTTGTAT-AAAAACGCCGCTAAAG
* *
12442112 AACATGTTCTTTAGCGGCGCTTTTGTACAAAAACGCC
1 AACATGATCTTTAGCGGCGC-TTTGTATAAAAACGCC
12442149 ACTATTTTTG
Statistics
Matches: 139, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
42 56 0.40
43 71 0.51
44 11 0.08
45 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (43 bp):
AACATGATCTTTAGCGGCGCTTTGTATAAAAACGCCGCTAAAG
Found at i:12442123 original size:86 final size:85
Alignment explanation
Indices: 12441942--12442148 Score: 274
Period size: 86 Copynumber: 2.4 Consensus size: 85
12441932 TTTTATCTTA
* * * * * *
12441942 AACATGGTCTTTAGCGGCG-TTTTTATATAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTT
1 AACATGTTCTTTAGCGGCGCTTTGTATAAAAACGCCGCTAAAGAACATGATCTTTAGCGACGTTT
* *
12442006 TTTATTAAGCGCCGCTAAAG
66 TTTATCAAACGCCGCTAAAG
* *
12442026 AACATGTTCTTTAACGGCGCTTTGTATAAAAACGCCGCTAAAGAATATGATCTTTAGCGACGCTT
1 AACATGTTCTTTAGCGGCGCTTTGTATAAAAACGCCGCTAAAGAACATGATCTTTAGCGACG-TT
12442091 TTTTCA-CAAACGCCGCTAAAG
65 TTTT-ATCAAACGCCGCTAAAG
*
12442112 AACATGTTCTTTAGCGGCGCTTTTGTACAAAAACGCC
1 AACATGTTCTTTAGCGGCGC-TTTGTATAAAAACGCC
12442149 ACTATTTTTG
Statistics
Matches: 107, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
84 17 0.16
85 36 0.34
86 38 0.36
87 16 0.15
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (85 bp):
AACATGTTCTTTAGCGGCGCTTTGTATAAAAACGCCGCTAAAGAACATGATCTTTAGCGACGTTT
TTTATCAAACGCCGCTAAAG
Found at i:12442565 original size:21 final size:21
Alignment explanation
Indices: 12442518--12442557 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
12442508 TTCTTTTGAA
*
12442518 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
12442539 CCTCTGCTTCCCTCGCTGC
1 CCTCTGCTTCCCTCGCTGC
12442558 TGCGTCTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.03, C:0.47, G:0.17, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:12444484 original size:9 final size:9
Alignment explanation
Indices: 12444470--12444562 Score: 96
Period size: 9 Copynumber: 10.0 Consensus size: 9
12444460 GGATCTTTTG
12444470 AGTTATGTA
1 AGTTATGTA
*
12444479 AGTTATTTA
1 AGTTATGTA
*
12444488 ATTTATGTA
1 AGTTATGTA
*
12444497 GGTTATGTA
1 AGTTATGTA
12444506 AGTTATGTA
1 AGTTATGTA
*
12444515 AGTTATTTA
1 AGTTATGTA
*
12444524 ATTTATGTA
1 AGTTATGTA
*
12444533 AGTTATGCA
1 AGTTATGTA
*
12444542 AGCTTATATACA
1 AG-TTATGT--A
12444554 AGTTATGTA
1 AGTTATGTA
12444563 TTATAACATA
Statistics
Matches: 67, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
9 55 0.82
10 4 0.06
11 5 0.07
12 3 0.04
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.46
Consensus pattern (9 bp):
AGTTATGTA
Found at i:12444495 original size:18 final size:18
Alignment explanation
Indices: 12444472--12444538 Score: 107
Period size: 18 Copynumber: 3.7 Consensus size: 18
12444462 ATCTTTTGAG
12444472 TTATGTAAGTTATTTAAT
1 TTATGTAAGTTATTTAAT
* * *
12444490 TTATGTAGGTTATGTAAG
1 TTATGTAAGTTATTTAAT
12444508 TTATGTAAGTTATTTAAT
1 TTATGTAAGTTATTTAAT
12444526 TTATGTAAGTTAT
1 TTATGTAAGTTAT
12444539 GCAAGCTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.52
Consensus pattern (18 bp):
TTATGTAAGTTATTTAAT
Found at i:12444510 original size:36 final size:36
Alignment explanation
Indices: 12444470--12444548 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
12444460 GGATCTTTTG
* *
12444470 AGTTATGTAAGTTATTTAATTTATGTAGGTTATGTA
1 AGTTATGTAAGTTATTTAATTTATGTAAGTTATGCA
12444506 AGTTATGTAAGTTATTTAATTTATGTAAGTTATGCA
1 AGTTATGTAAGTTATTTAATTTATGTAAGTTATGCA
12444542 AGCTTAT
1 AG-TTAT
12444549 ATACAAGTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 36 0.90
37 4 0.10
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.48
Consensus pattern (36 bp):
AGTTATGTAAGTTATTTAATTTATGTAAGTTATGCA
Found at i:12444650 original size:21 final size:21
Alignment explanation
Indices: 12444626--12444676 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
12444616 AATTATTATG
12444626 TAAGTTATGCAAGCTTAAATA
1 TAAGTTATGCAAGCTTAAATA
*
12444647 TAAGTTATGCAAGCTTATATA
1 TAAGTTATGCAAGCTTAAATA
*
12444668 CAAGTTATG
1 TAAGTTATG
12444677 TATTATAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (21 bp):
TAAGTTATGCAAGCTTAAATA
Found at i:12444911 original size:16 final size:16
Alignment explanation
Indices: 12444886--12444923 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
12444876 GAAAACGAAG
*
12444886 TAAA-TTTAATACTAA
1 TAAATTTTAATACAAA
12444901 TAAATTTTAATACAAA
1 TAAATTTTAATACAAA
12444917 TAAATTT
1 TAAATTT
12444924 AGAAAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTTTAATACAAA
Found at i:12444938 original size:13 final size:13
Alignment explanation
Indices: 12444920--12444969 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 13
12444910 ATACAAATAA
12444920 ATTTAGAAAACTT
1 ATTTAGAAAACTT
12444933 ATTTAGAAAACTT
1 ATTTAGAAAACTT
12444946 ACAAATTTAGAAAACTT
1 ----ATTTAGAAAACTT
*
12444963 ATATAGA
1 ATTTAGA
12444970 TATTAAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
13 19 0.59
17 13 0.41
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:12444955 original size:17 final size:16
Alignment explanation
Indices: 12444918--12444963 Score: 62
Period size: 17 Copynumber: 3.0 Consensus size: 16
12444908 TAATACAAAT
12444918 AAATTTAGAAAACTT-
1 AAATTTAGAAAACTTA
12444933 --ATTTAGAAAACTTA
1 AAATTTAGAAAACTTA
12444947 CAAATTTAGAAAACTTA
1 -AAATTTAGAAAACTTA
12444964 TATAGATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 13 0.48
17 14 0.52
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.33
Consensus pattern (16 bp):
AAATTTAGAAAACTTA
Found at i:12449435 original size:21 final size:20
Alignment explanation
Indices: 12449409--12449449 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
12449399 CTCTAAACCT
*
12449409 TAAACCTCAATCTCCAAGCCC
1 TAAACCT-AAACTCCAAGCCC
*
12449430 TAAACCTAAACTCTAAGCCC
1 TAAACCTAAACTCCAAGCCC
12449450 AGATCACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.37, C:0.39, G:0.05, T:0.20
Consensus pattern (20 bp):
TAAACCTAAACTCCAAGCCC
Found at i:12453791 original size:26 final size:24
Alignment explanation
Indices: 12453762--12453810 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
12453752 ATAATGAAAT
12453762 ATTATTTATAGATAAATATATTTATA
1 ATTATTT-TAGATAAATA-ATTTATA
* *
12453788 ATTATTTTATATTAATAATTTAT
1 ATTATTTTAGATAAATAATTTAT
12453811 TATGAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 8 0.38
26 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
ATTATTTTAGATAAATAATTTATA
Found at i:12454684 original size:15 final size:16
Alignment explanation
Indices: 12454666--12454698 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
12454656 ATATTTATTA
12454666 TAATATAATAA-ATAT
1 TAATATAATAACATAT
*
12454681 TAATATATTAACATAT
1 TAATATAATAACATAT
12454697 TA
1 TA
12454699 TTACTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATATAATAACATAT
Found at i:12460240 original size:19 final size:19
Alignment explanation
Indices: 12460194--12460248 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
12460184 ATAAAGCAAA
12460194 AAAGTAT-ATAAAAAAA-G
1 AAAGTATAATAAAAAAATG
*
12460211 AAAGTAAAATAAAAAAATG
1 AAAGTATAATAAAAAAATG
* *
12460230 TAGGTATAATAATAAAAAT
1 AAAGTATAATAA-AAAAAT
12460249 ATGTAATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 6 0.19
18 9 0.29
19 10 0.32
20 6 0.19
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (19 bp):
AAAGTATAATAAAAAAATG
Found at i:12466960 original size:2 final size:2
Alignment explanation
Indices: 12466953--12466988 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
12466943 AGTATGTATC
*
12466953 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TC TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
12466989 ATCACATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.03, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:12469259 original size:18 final size:19
Alignment explanation
Indices: 12469238--12469273 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
12469228 TTTTTAAATA
*
12469238 TTTTAAAA-ATATTTTTAT
1 TTTTAAAATAAATTTTTAT
12469256 TTTTAAAATAAATTTTTA
1 TTTTAAAATAAATTTTTA
12469274 GTGTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTAAAATAAATTTTTAT
Found at i:12470844 original size:17 final size:17
Alignment explanation
Indices: 12470822--12470860 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
12470812 TTTAAAATGC
*
12470822 TTTATTTGTTTT-TTAAT
1 TTTATTT-TTTTATCAAT
12470839 TTTATTTTTTTATCAAT
1 TTTATTTTTTTATCAAT
12470856 TTTAT
1 TTTAT
12470861 CTACCATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTATTTTTTTATCAAT
Found at i:12472850 original size:3 final size:3
Alignment explanation
Indices: 12472842--12472909 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
12472832 GTATGTATAT
12472842 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12472890 ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
12472910 TGGGACTAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:12473518 original size:10 final size:11
Alignment explanation
Indices: 12473489--12473521 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
12473479 TTATTCTCGT
12473489 TAAGAAATAAAA
1 TAAGAAA-AAAA
12473501 TAAGAAAAAAA
1 TAAGAAAAAAA
12473512 TAA-AAAAAAA
1 TAAGAAAAAAA
12473522 CTGGATTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 7 0.33
12 7 0.33
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (11 bp):
TAAGAAAAAAA
Found at i:12473786 original size:22 final size:22
Alignment explanation
Indices: 12473752--12473799 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
12473742 CGACGCGCAC
*
12473752 GGAGCGACAAGCGCGACGTGCG
1 GGAGCAACAAGCGCGACGTGCG
* *
12473774 GGAGCAACGAGCGCGATGTGCG
1 GGAGCAACAAGCGCGACGTGCG
12473796 GGAG
1 GGAG
12473800 TGGTTGCGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.48, T:0.06
Consensus pattern (22 bp):
GGAGCAACAAGCGCGACGTGCG
Found at i:12474557 original size:44 final size:44
Alignment explanation
Indices: 12474422--12475004 Score: 722
Period size: 44 Copynumber: 13.2 Consensus size: 44
12474412 TCAGGGGGAT
*
12474422 AAGATTTG-TATCTTCGATCTACTTCAC-CCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
* * * *
12474464 AAGATCTGCTATCTTCGATCTACTTCACCACCAATATAGGAAAAC
1 AAGATCTGCTATCTTCGATCTACTTCA-CGCCAATACATGAAGAC
*
12474509 AAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
* * * **
12474553 AAGATTTTCTTTCTTCGATCTACTTCACGCGGATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
* * ***
12474597 AAGATCTGCTATCTTCGATCTACTTCATCACCAGTATGGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCA-CGCCAATACATGAAGAC
*
12474642 AAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
* * **
12474686 AAGATTTGCTTTCTTCGATCTACTTCACGCTGATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
* * *
12474730 AAGATCTACTTTCTTTGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
*
12474774 AAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
* * * ***
12474818 AAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCA-CGCCAATACATGAAGAC
* * * *
12474863 AGGATCTACTATCTTTGATCTACTTCACACCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
* * * * *
12474907 AAGATCTGCCATCTTCGATCTACTTCATGTCAGTACATGAAGAT
1 AAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
* * *
12474951 AAGATCTACTATC-TCTGATCTACTTCATGTCAATACATGAAGAC
1 AAGATCTGCTATCTTC-GATCTACTTCACGCCAATACATGAAGAC
12474995 AAGATCTGCT
1 AAGATCTGCT
12475005 GCTTTTCAAC
Statistics
Matches: 465, Mismatches: 70, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
42 7 0.02
43 20 0.04
44 329 0.71
45 109 0.23
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (44 bp):
AAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
Found at i:12474614 original size:133 final size:132
Alignment explanation
Indices: 12474432--12475004 Score: 754
Period size: 133 Copynumber: 4.3 Consensus size: 132
12474422 AAGATTTGTA
12474432 TCTTCGATCTACTTCAC-CCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACCACC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCA-CACC
* * * * *
12474496 AATATAGGAAAACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATTTT
65 AATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
12474561 CTT
130 CTT
**
12474564 TCTTCGATCTACTTCACGCGGATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCATCACC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCA-CACC
* ** * *
12474629 AGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATTTG
65 AATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
12474694 CTT
130 CTT
** * * * *
12474697 TCTTCGATCTACTTCACGCTGATACATGAAGACAAGATCTACTTTCTTTGATCTACTTCACGCCA
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCA
* *
12474762 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
66 ATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
12474827 TT
131 TT
* * *** * * *
12474829 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAGGATCTACTATCTTTGATCTACTTCACACC
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACACC
* * * * * * *
12474894 AATACATGAAGACAAGATCTGCCATCTTCGATCTACTTCATGTCAGTACATGAAGATAAGATCTA
65 AATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
*
12474959 CTA
130 CTT
* *
12474962 TC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCTGCT
1 TCTTC-GATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
12475005 GCTTTTCAAC
Statistics
Matches: 392, Mismatches: 46, Indels: 6
0.88 0.10 0.01
Matches are distributed among these distances:
132 117 0.30
133 275 0.70
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (132 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACACCA
ATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
TT
Found at i:12474820 original size:221 final size:220
Alignment explanation
Indices: 12474422--12475004 Score: 873
Period size: 221 Copynumber: 2.6 Consensus size: 220
12474412 TCAGGGGGAT
* *
12474422 AAGATTTG-TATCTTCGATCTACTTCACCCAATACATGAAGACAAGATCTGCTATCTTCGATCTA
1 AAGATCTGCTATCTTTGATCTACTTCACCCAATACATGAAGACAAGATCTGCTATCTTCGATCTA
* * * * * *
12474486 CTTCACCACCAATATAGGAAAACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAG
66 CTTCA-CGCTAATACATGAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATACATGAAG
* * **
12474551 ACAAGATTTTCTTTCTTCGATCTACTTCACGCGGATACATGAAGACAAGATCTGCTATCTTCGAT
130 ACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGAT
*
12474616 CTACTTCATCACCAGTATGGGAAGAC
195 CTACTTCACCACCAGTATGGGAAGAC
* *
12474642 AAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATTTGCTTTCTTCGATCT
1 AAGATCTGCTATCTTTGATCTACTTCAC-CCAATACATGAAGACAAGATCTGCTATCTTCGATCT
* *
12474707 ACTTCACGCTGATACATGAAGACAAGATCTACTTTCTTTGATCTACTTCACGCCAATACATGAAG
65 ACTTCACGCTAATACATGAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATACATGAAG
*
12474772 ACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGAT
130 ACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGAT
12474837 CTACTTCACCACCAGTATGGGAAGAC
195 CTACTTCACCACCAGTATGGGAAGAC
* * *
12474863 AGGATCTACTATCTTTGATCTACTTCACACCAATACATGAAGACAAGATCTGCCATCTTCGATCT
1 AAGATCTGCTATCTTTGATCTACTTCAC-CCAATACATGAAGACAAGATCTGCTATCTTCGATCT
* * * * * *
12474928 ACTTCATG-TCAGTACATGAAGATAAGATCTACTATCTCTGATCTACTTCATGTCAATACATGAA
65 ACTTCACGCT-AATACATGAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATACATGAA
12474992 GACAAGATCTGCT
129 GACAAGATCTGCT
12475005 GCTTTTCAAC
Statistics
Matches: 328, Mismatches: 32, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
220 8 0.02
221 280 0.85
222 40 0.12
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (220 bp):
AAGATCTGCTATCTTTGATCTACTTCACCCAATACATGAAGACAAGATCTGCTATCTTCGATCTA
CTTCACGCTAATACATGAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATACATGAAGA
CAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATC
TACTTCACCACCAGTATGGGAAGAC
Found at i:12476300 original size:14 final size:15
Alignment explanation
Indices: 12476278--12476319 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
12476268 TCCATTTTAC
12476278 TTTTGCATTTTTCA-A
1 TTTT-CATTTTTCACA
*
12476293 TTTTCA-TTTTCACT
1 TTTTCATTTTTCACA
12476307 TTTTCATTTTTCA
1 TTTTCATTTTTCA
12476320 TCTCATCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 6 0.25
14 8 0.33
15 10 0.42
ACGTcount: A:0.17, C:0.17, G:0.02, T:0.64
Consensus pattern (15 bp):
TTTTCATTTTTCACA
Found at i:12476320 original size:7 final size:7
Alignment explanation
Indices: 12476278--12476320 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
12476268 TCCATTTTAC
*
12476278 TTTTGCA
1 TTTTTCA
12476285 TTTTTCA
1 TTTTTCA
*
12476292 ATTTTCA
1 TTTTTCA
12476299 -TTTTCA
1 TTTTTCA
12476305 CTTTTTCA
1 -TTTTTCA
12476313 TTTTTCA
1 TTTTTCA
12476320 T
1 T
12476321 CTCATCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
7 20 0.62
8 6 0.19
ACGTcount: A:0.16, C:0.16, G:0.02, T:0.65
Consensus pattern (7 bp):
TTTTTCA
Found at i:12481644 original size:3 final size:3
Alignment explanation
Indices: 12481638--12481697 Score: 75
Period size: 3 Copynumber: 20.0 Consensus size: 3
12481628 GTAGTAGTAG
* * * *
12481638 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TGA TAA AAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
12481686 AAA TAA TAA TAA
1 TAA TAA TAA TAA
12481698 ATGGGGACTA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:12482571 original size:22 final size:22
Alignment explanation
Indices: 12482529--12482576 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
12482519 CGATGCGCAC
* *
12482529 GGAGCGGCGAGTGCGACGTGCA
1 GGAGCGACGAGTGCAACGTGCA
* *
12482551 GGAGCGACGAGTGCAATGTGCG
1 GGAGCGACGAGTGCAACGTGCA
12482573 GGAG
1 GGAG
12482577 TGGTTGTGGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.21, C:0.19, G:0.50, T:0.10
Consensus pattern (22 bp):
GGAGCGACGAGTGCAACGTGCA
Found at i:12483735 original size:30 final size:30
Alignment explanation
Indices: 12483671--12483759 Score: 116
Period size: 25 Copynumber: 3.1 Consensus size: 30
12483661 TCCATATTTA
12483671 TGGAAAGTCAAAGATATGGGTATC-AA-A-
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
12483698 T--AAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
* *
12483726 TGGAAAGTCAAAGATATGGATATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
12483757 TGG
1 TGG
12483760 CATAAGAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
25 21 0.39
26 2 0.04
27 2 0.04
28 1 0.02
30 20 0.37
31 8 0.15
ACGTcount: A:0.43, C:0.07, G:0.25, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:12486241 original size:33 final size:33
Alignment explanation
Indices: 12486197--12486263 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
12486187 TATGGAGAGG
*
12486197 TGGGTTGGTAAACCTGCGACTGATTATGATTCT
1 TGGGTTCGTAAACCTGCGACTGATTATGATTCT
12486230 TGGGTTCGTAAACCTGCGACTGATTATGATTCT
1 TGGGTTCGTAAACCTGCGACTGATTATGATTCT
12486263 T
1 T
12486264 TACATATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.37
Consensus pattern (33 bp):
TGGGTTCGTAAACCTGCGACTGATTATGATTCT
Found at i:12488408 original size:25 final size:29
Alignment explanation
Indices: 12488373--12488458 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 29
12488363 CATATTTATG
12488373 GAAAGTCAAAGATATGGGTATC-AA-A-T
1 GAAAGTCAAAGATATGGGTATCAAATATT
12488399 -AAAGTCAAAGATATGGGTATCAAATATT
1 GAAAGTCAAAGATATGGGTATCAAATATT
*
12488427 GGAAAGTCAAAGATATGGGTATCGAGATATT
1 -GAAAGTCAAAGATATGGGTATC-AAATATT
12488458 G
1 G
12488459 GCATAAGAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
25 21 0.40
26 2 0.04
27 1 0.02
28 1 0.02
30 22 0.42
31 6 0.11
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (29 bp):
GAAAGTCAAAGATATGGGTATCAAATATT
Found at i:12488435 original size:30 final size:30
Alignment explanation
Indices: 12488371--12488459 Score: 125
Period size: 25 Copynumber: 3.1 Consensus size: 30
12488361 TCCATATTTA
12488371 TGGAAAGTCAAAGATATGGGTATC-AA-A-
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
12488398 T--AAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
12488426 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
12488457 TGG
1 TGG
12488460 CATAAGAAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
25 21 0.38
26 2 0.04
27 2 0.04
28 1 0.02
30 21 0.38
31 8 0.15
ACGTcount: A:0.42, C:0.07, G:0.26, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:12490327 original size:55 final size:55
Alignment explanation
Indices: 12490258--12490477 Score: 271
Period size: 55 Copynumber: 3.9 Consensus size: 55
12490248 ATTTCCCAAA
* * *
12490258 AATATTGCTTCTTTTGGATATATTGTTTTTATGTTTAAATCGATTGTTATGTTGG
1 AATACTGCTTCTTTTGAATATATTGTTTATATGTTTAAATCGATTGTTATGTTGG
* * *
12490313 AATACTGCTTCTTTTGAATAAATTGTTTATATGTTTAAATCGATTATCATGTTGG
1 AATACTGCTTCTTTTGAATATATTGTTTATATGTTTAAATCGATTGTTATGTTGG
* ** * ** *
12490368 AATACTGTTTCTTTTGAATCGATTGTTTATATGTTTAAATCAATTGTTAAATTAGAAT
1 AATACTGCTTCTTTTGAATATATTGTTTATATGTTTAAATCGATTGTTATGTT-G--G
*
12490426 AATAATGCTTCTTTTGAAT-TGATTGTTTATATGTTTAAATCGATTGTTATGT
1 AATACTGCTTCTTTTGAATAT-ATTGTTTATATGTTTAAATCGATTGTTATGT
12490478 AGCACGTCTA
Statistics
Matches: 140, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
55 94 0.67
56 1 0.01
58 45 0.32
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (55 bp):
AATACTGCTTCTTTTGAATATATTGTTTATATGTTTAAATCGATTGTTATGTTGG
Found at i:12491692 original size:62 final size:62
Alignment explanation
Indices: 12491622--12491745 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
12491612 TAAAATGAGC
*
12491622 ATCATAGTTTGAGAATATTTAGTGTAATTAACTCTTAAAAGTAATACAAACTATAGAAGATT
1 ATCATAGTTTGAGAATATTTAGTGTAATTAAATCTTAAAAGTAATACAAACTATAGAAGATT
*
12491684 ATCATAGTTTGAGAATGTTTAGTGTAATTAAATCTTAAAAGTAATACAAACTATAGAAGATT
1 ATCATAGTTTGAGAATATTTAGTGTAATTAAATCTTAAAAGTAATACAAACTATAGAAGATT
12491746 GTAATTGATA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (62 bp):
ATCATAGTTTGAGAATATTTAGTGTAATTAAATCTTAAAAGTAATACAAACTATAGAAGATT
Found at i:12497806 original size:30 final size:30
Alignment explanation
Indices: 12497767--12497872 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 30
12497757 CGTTCAAGTA
* *
12497767 CTTGAGAAGACCTGATATCTCGTTCAGGGG
1 CTTGGGAAGACCTGATATCTCGTTCAGGAG
* * *
12497797 CTTGGGAAGA-CTCAATATCTCATTCAGGAT
1 CTTGGGAAGACCT-GATATCTCGTTCAGGAG
12497827 CTTGGGATTGAAAAGACCTGATATCTCGTTCAGGAG
1 CTT-GG---G--AAGACCTGATATCTCGTTCAGGAG
*
12497863 CTTGTGAAGA
1 CTTGGGAAGA
12497873 TCGGGTGTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
29 2 0.03
30 29 0.49
31 2 0.03
32 1 0.02
34 1 0.02
35 1 0.02
36 21 0.36
37 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (30 bp):
CTTGGGAAGACCTGATATCTCGTTCAGGAG
Found at i:12499230 original size:25 final size:26
Alignment explanation
Indices: 12499202--12499255 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
12499192 ACTTTTAAAT
*
12499202 AAAT-AGTTAATGGAA-CTAGTTGGTC
1 AAATAAGTTAATAGAATC-AGTTGGTC
*
12499227 AAATAAGTTAATAGAATCATTTGGTC
1 AAATAAGTTAATAGAATCAGTTGGTC
12499253 AAA
1 AAA
12499256 CCAGTCACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.16
26 20 0.80
27 1 0.04
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (26 bp):
AAATAAGTTAATAGAATCAGTTGGTC
Found at i:12504657 original size:51 final size:52
Alignment explanation
Indices: 12504486--12504674 Score: 228
Period size: 51 Copynumber: 3.7 Consensus size: 52
12504476 TGAAAGTGAA
* *
12504486 AGTGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT
* * * *
12504536 A-TGATAGGTCGCATGTGTAGTACTATGTGCAAGCTACTATGCGTATCAGAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT
* * * *
12504587 AGCT--TCGATCACTTATGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT
1 AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT
*
12504638 AGTGAT-GGTCACATGTGTAGTACTATGTGGAGGCTAC
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTAC
12504675 CATGTGAACC
Statistics
Matches: 115, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
49 4 0.03
50 40 0.35
51 69 0.60
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (52 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT
Found at i:12504925 original size:16 final size:16
Alignment explanation
Indices: 12504904--12504935 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12504894 TAATTGAAAG
*
12504904 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
12504920 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
12504936 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:12508214 original size:132 final size:132
Alignment explanation
Indices: 12507973--12508909 Score: 899
Period size: 132 Copynumber: 7.1 Consensus size: 132
12507963 TAAATTTTAG
* * * * * * * *
12507973 GTTGCAATATTAAATCAGCTACCTTAAATAAAATTGTTCATGATTTCAAATCTAACGAACTTT--
1 GTTGCAATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTAG
* ** * *
12508036 G-TG--ATATTAAATCAACGAACCTTGATAATACCAGTTGCGATATTAAATCAATGAGTTGTTCG
66 GTTGCAATCTTAAATCAACGAACCTTGATAATACCAACTGCGATCTTAAATCAACGAGTTGTTCG
12508098 GA
131 GA
** * * * * *
12508100 GTTGTGATCTTAAATCAACAAACTCAATTAAATTTTTTCATGATTTGAAAT-GAAATGAACTTTA
1 GTTGCAATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCG-AATGAACTTTA
* * * * *
12508164 GGTTGCAATCTTAAATCAATGAACCTTGATAATACCAACTGCGATCTTAAATTAATGAGCTGTTT
65 GGTTGCAATCTTAAATCAACGAACCTTGATAATACCAACTGCGATCTTAAATCAACGAGTTGTTC
12508229 GGA
130 GGA
* * * *
12508232 GTTGCGATATTAAAT-AAGCTAACTTAAATAAAATTGTTCATGATCTGAAATCAAATGAACTTTA
1 GTTGCAATCTTAAATCAA-CTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTA
* ** * * ** * * * *
12508296 CGTTGTGATCTTAACTAAAAAAACCTTGATAATA-CTAGTGATGATCTTAAATCAGCGAGTTGTT
65 GGTTGCAATCTTAAATCAACGAACCTTGATAATACCAACTG-CGATCTTAAATCAACGAGTTGTT
12508360 CGGA
129 CGGA
** * * * *
12508364 GTTGTGATATTAAATCAGCTAACTTC-AATAAAATTTTTCATGATTTGAAATCGAATGAACTTTA
1 GTTGCAATCTTAAATCAACTAAC-TCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTA
* ** * * * * * * *
12508428 AGTTGGGATCTTAAATCAACGAACCTTGATGATACCAGCTACGATCTTAAATCAGCAAGCTATTC
65 GGTTGCAATCTTAAATCAACGAACCTTGATAATACCAACTGCGATCTTAAATCAACGAGTTGTTC
*
12508493 AGA
130 GGA
* * * *
12508496 GTTGCAATCTTAAATTAGCTAACTCAACTAAAATTGTTCATGATCTAAAATCGAATGAACTTTAG
1 GTTGCAATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTAG
* * *
12508561 GTTG-AGATCTTAAATCAACGAACCTTGATGATA-CAAGCTACGATCTTAAATCAACGAGCTGTT
66 GTTGCA-ATCTTAAATCAACGAACCTTGATAATACCAA-CTGCGATCTTAAATCAACGAGTTGTT
*
12508624 CAGA
129 CGGA
* * *
12508628 GTTGCAATCTTAAATTAGCTAAGTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTAG
1 GTTGCAATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTAG
* ** * * * * * *
12508693 GTTGCGATCTTAAATCAGTGAACCTTGATCATACCAGCTGTGATCTTAAATCAACAAGTTTTTTG
66 GTTGCAATCTTAAATCAACGAACCTTGATAATACCAACTGCGATCTTAAATCAACGAGTTGTTCG
12508758 GA
131 GA
* * * * * * * * *
12508760 GCTACTATATTAAATCAACTAACTTAAATAGAATTGTTCATGATCTCAAATAGAATGAACATTAG
1 GTTGCAATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTAG
* * * * * *
12508825 GTTGCAATCTTAAAT-AGGCGAACCTTGATGATGCCAATTGCGATATTAAATCAGCGAGTTGTTC
66 GTTGCAATCTTAAATCA-ACGAACCTTGATAATACCAACTGCGATCTTAAATCAACGAGTTGTTC
12508889 GGA
130 GGA
12508892 GTTGCAATCTTAAATCAA
1 GTTGCAATCTTAAATCAA
12508910 TAAACCTTGA
Statistics
Matches: 668, Mismatches: 124, Indels: 31
0.81 0.15 0.04
Matches are distributed among these distances:
127 49 0.07
129 1 0.00
130 2 0.00
131 11 0.02
132 599 0.90
133 6 0.01
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (132 bp):
GTTGCAATCTTAAATCAACTAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTAG
GTTGCAATCTTAAATCAACGAACCTTGATAATACCAACTGCGATCTTAAATCAACGAGTTGTTCG
GA
Found at i:12508444 original size:264 final size:263
Alignment explanation
Indices: 12507973--12508908 Score: 1037
Period size: 264 Copynumber: 3.6 Consensus size: 263
12507963 TAAATTTTAG
* * * * *
12507973 GTTGCAATATTAAATCAGCTACCTTAAATAAAATTGTTCATGATTTCAAATCTAACGAAC--T--
1 GTTGCAATATTAAATAAGCTAACTTAAATAAAATTGTTCATGATCTCAAATCAAATGAACTTTAG
* * * * *
12508034 -TTGTGATATTAAATCAACGAACCTTGATAATACCAGTTGCGATATTAAATCAATGAGTTGTTCG
66 GTTGTGATCTTAAATAAACGAACCTTGATAATACAAGCTGCGATATTAAATCAACGAGTTGTTCG
* * *
12508098 GAGTTGTGATCTTAAATCAACAAACTCAATTAAATTTTTTCATGATTTGAAAT-GAAATGAACTT
131 GAGTTGTGATCTTAAATCAGCTAACTCAA-TAAAATTTTTCATGATTTGAAATCG-AATGAACTT
* * * ** *
12508162 TAGGTTGCAATCTTAAATCAATGAACCTTGATAATACCAACTGCGATCTTAAATTAATGAGCTGT
194 TAGGTTGCGATCTTAAATCAATGAACCTTGATAATACCAGCTGCGATCTTAAATCAACAAGCTAT
12508227 TTGGA
259 TTGGA
* * *
12508232 GTTGCGATATTAAATAAGCTAACTTAAATAAAATTGTTCATGATCTGAAATCAAATGAACTTTAC
1 GTTGCAATATTAAATAAGCTAACTTAAATAAAATTGTTCATGATCTCAAATCAAATGAACTTTAG
* ** * * * *
12508297 GTTGTGATCTTAACTAAAAAAACCTTGATAATACTAG-TGATGATCTTAAATCAGCGAGTTGTTC
66 GTTGTGATCTTAAATAAACGAACCTTGATAATACAAGCTG-CGATATTAAATCAACGAGTTGTTC
*
12508361 GGAGTTGTGATATTAAATCAGCTAACTTCAATAAAATTTTTCATGATTTGAAATCGAATGAACTT
130 GGAGTTGTGATCTTAAATCAGCTAAC-TCAATAAAATTTTTCATGATTTGAAATCGAATGAACTT
* * * * * *
12508426 TAAGTTGGGATCTTAAATCAACGAACCTTGATGATACCAGCTACGATCTTAAATCAGCAAGCTAT
194 TAGGTTGCGATCTTAAATCAATGAACCTTGATAATACCAGCTGCGATCTTAAATCAACAAGCTAT
**
12508491 TCAGA
259 TTGGA
* * * * * *
12508496 GTTGCAATCTTAAATTAGCTAACTCAACTAAAATTGTTCATGATCTAAAATCGAATGAACTTTAG
1 GTTGCAATATTAAATAAGCTAACTTAAATAAAATTGTTCATGATCTCAAATCAAATGAACTTTAG
* * * * * * *
12508561 GTTGAGATCTTAAATCAACGAACCTTGATGATACAAGCTACGATCTTAAATCAACGAGCTGTTCA
66 GTTGTGATCTTAAATAAACGAACCTTGATAATACAAGCTGCGATATTAAATCAACGAGTTGTTCG
** * * * *
12508626 GAGTTGCAATCTTAAATTAGCTAAGTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTT
131 GAGTTGTGATCTTAAATCAGCTAACTC-AATAAAATTTTTCATGATTTGAAATCGAATGAACTTT
* * * * *
12508691 AGGTTGCGATCTTAAATCAGTGAACCTTGATCATACCAGCTGTGATCTTAAATCAACAAGTTTTT
195 AGGTTGCGATCTTAAATCAATGAACCTTGATAATACCAGCTGCGATCTTAAATCAACAAGCTATT
12508756 TGGA
260 TGGA
* * * * *
12508760 GCTACTATATTAAATCAA-CTAACTTAAATAGAATTGTTCATGATCTCAAAT-AGAATGAACATT
1 GTTGCAATATTAAAT-AAGCTAACTTAAATAAAATTGTTCATGATCTCAAATCA-AATGAACTTT
** ** * * * *
12508823 AGGTTGCAATCTTAAATAGGCGAACCTTGATGATGCCAA-TTGCGATATTAAATCAGCGAGTTGT
64 AGGTTGTGATCTTAAATAAACGAACCTTGATAAT-ACAAGCTGCGATATTAAATCAACGAGTTGT
**
12508887 TCGGAGTTGCAATCTTAAATCA
128 TCGGAGTTGTGATCTTAAATCA
12508909 ATAAACCTTG
Statistics
Matches: 566, Mismatches: 98, Indels: 21
0.83 0.14 0.03
Matches are distributed among these distances:
259 53 0.09
261 1 0.00
263 4 0.01
264 498 0.88
265 10 0.02
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (263 bp):
GTTGCAATATTAAATAAGCTAACTTAAATAAAATTGTTCATGATCTCAAATCAAATGAACTTTAG
GTTGTGATCTTAAATAAACGAACCTTGATAATACAAGCTGCGATATTAAATCAACGAGTTGTTCG
GAGTTGTGATCTTAAATCAGCTAACTCAATAAAATTTTTCATGATTTGAAATCGAATGAACTTTA
GGTTGCGATCTTAAATCAATGAACCTTGATAATACCAGCTGCGATCTTAAATCAACAAGCTATTT
GGA
Found at i:12508480 original size:65 final size:65
Alignment explanation
Indices: 12508411--12508612 Score: 159
Period size: 65 Copynumber: 3.1 Consensus size: 65
12508401 TCATGATTTG
* *
12508411 AAATCGAATGAACTTTAAGTTGGGATCTTAAATCAACGAACCTTGATGATACCAGCTACGATCTT
1 AAATCGAATGAACTTTAAGTTGAGATCTTAAATCAACGAACCTTGATGATACAAGCTACGATCTT
* * * * * *
12508476 AAATC--A-GCAAGCTATTCAGAGTTGCA-ATCTTAAATTAGCTAA-C-TCA--ACTAAAATTGT
1 AAATCGAATG-AA-CT-TT-A-AGTTG-AGATCTTAAATCAACGAACCTTGATGA-TACAA--GC
* *
12508533 TCATGATCTA
57 T-ACGATCTT
*
12508543 AAATCGAATGAACTTTAGGTTGAGATCTTAAATCAACGAACCTTGATGATACAAGCTACGATCTT
1 AAATCGAATGAACTTTAAGTTGAGATCTTAAATCAACGAACCTTGATGATACAAGCTACGATCTT
12508608 AAATC
1 AAATC
12508613 AACGAGCTGT
Statistics
Matches: 100, Mismatches: 19, Indels: 36
0.65 0.12 0.23
Matches are distributed among these distances:
62 1 0.01
63 4 0.04
64 6 0.06
65 37 0.37
66 8 0.08
67 33 0.33
68 6 0.06
69 4 0.04
70 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.30
Consensus pattern (65 bp):
AAATCGAATGAACTTTAAGTTGAGATCTTAAATCAACGAACCTTGATGATACAAGCTACGATCTT
Found at i:12508509 original size:67 final size:66
Alignment explanation
Indices: 12508435--12508642 Score: 164
Period size: 67 Copynumber: 3.1 Consensus size: 66
12508425 TTAAGTTGGG
*
12508435 ATCTTAAATCAACGAACCTTGATGATACCAGCTACGATCTTAAATCAGCAAGCTATTCAGAGTTG
1 ATCTTAAATCAACGAACCTTGATGATACAAGCTACGATCTTAAATCAGCAAGCT-TTCAGAGTTG
12508500 CA
65 CA
* * * * * * * *
12508502 ATCTTAAATTAGCTAA-C-TCA--ACTAAAATTGTTCATGATCTAAAATC-G-AATGAACTTT-A
1 ATCTTAAATCAACGAACCTTGATGA-TACAA--GCT-ACGATCTTAAATCAGCAA-G--CTTTCA
12508560 G-GTTG-A
59 GAGTTGCA
* *
12508566 GATCTTAAATCAACGAACCTTGATGATACAAGCTACGATCTTAAATCAACGAGCTGTTCAGAGTT
1 -ATCTTAAATCAACGAACCTTGATGATACAAGCTACGATCTTAAATCAGCAAGCT-TTCAGAGTT
12508631 GCA
64 GCA
12508634 ATCTTAAAT
1 ATCTTAAAT
12508643 TAGCTAAGTC
Statistics
Matches: 104, Mismatches: 19, Indels: 36
0.65 0.12 0.23
Matches are distributed among these distances:
63 1 0.01
64 6 0.06
65 34 0.33
66 13 0.12
67 42 0.40
68 7 0.07
69 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (66 bp):
ATCTTAAATCAACGAACCTTGATGATACAAGCTACGATCTTAAATCAGCAAGCTTTCAGAGTTGC
A
Found at i:12508774 original size:396 final size:394
Alignment explanation
Indices: 12507979--12508914 Score: 1134
Period size: 396 Copynumber: 2.4 Consensus size: 394
12507969 TTAGGTTGCA
* * *
12507979 ATATTAAATCAGCTACCTTAAATAAAATTGTTCATGATTTCAAATCTAACGAACTTT-G-T-GAT
1 ATATTAAATCAGCTAACTTAAATAAAATTGTTCATGATTTCAAATCGAATGAACTTTAGTTGGAT
* * ** **
12508041 ATTAAATCAACGAACCTTGATAATACCAGTTGCGATATTAAATCAATGAGTTGTTCGGAGTTGTG
66 CTTAAATCAACGAACCTTGATGATACCAGTTGCGATATTAAATCAGCGAGTTGTTCGGAGTTGCA
* * * * *
12508106 ATCTTAAATCAACAAACTCAATTAAATTTTTTCATGATTTGAAATGAAATGAACTTTAGGTTGCA
131 ATCTTAAATCAACAAACTCAACTAAAATTGTTCATGATCTAAAATGAAATGAACTTTAGGTTGCA
* * * * **
12508171 ATCTTAAATCAATGAACCTTGATAATACCAACTGCGATCTTAAATTAATGAGCTGTTTGGAGTTG
196 ATCTTAAATCAACGAACCTTGATAATACCAACTACGATCTTAAATCAACGAGCTGTTCAGAGTTG
* *
12508236 CGATATTAAATAAGCTAACTTAAATAAAATTGTTCATGATCTGAAATCAAATGAACTTTACGTTG
261 CAATATTAAATAAGCTAACTCAAATAAAATTGTTCATGATCTGAAATCAAATGAACTTTACGTTG
* * * * *
12508301 TGATCTTAACTAAAAAAACCTTGATAATACTAGTGATGATCTTAAATCAGCGAGTTGTTCGGAGT
326 CGATCTTAAATAAAAAAACCTTGATAATACCAGTGATGATCTTAAATCAACAAGTTGTTCGGAGT
**
12508366 TGTG
391 ACTG
* * *
12508370 ATATTAAATCAGCTAACTTCAATAAAATTTTTCATGATTTGAAATCGAATGAACTTTAAGTTGGG
1 ATATTAAATCAGCTAACTTAAATAAAATTGTTCATGATTTCAAATCGAATGAACTTT-AGTT-GG
* * * * * * *
12508435 ATCTTAAATCAACGAACCTTGATGATACCAGCTACGATCTTAAATCAGCAAGCTATTCAGAGTTG
64 ATCTTAAATCAACGAACCTTGATGATACCAGTTGCGATATTAAATCAGCGAGTTGTTCGGAGTTG
* * *
12508500 CAATCTTAAATTAGCTAACTCAACTAAAATTGTTCATGATCTAAAATCG-AATGAACTTTAGGTT
129 CAATCTTAAATCAACAAACTCAACTAAAATTGTTCATGATCTAAAAT-GAAATGAACTTTAGGTT
*
12508564 G-AGATCTTAAATCAACGAACCTTGATGATA-CAAGCTACGATCTTAAATCAACGAGCTGTTCAG
193 GCA-ATCTTAAATCAACGAACCTTGATAATACCAA-CTACGATCTTAAATCAACGAGCTGTTCAG
* * * *
12508627 AGTTGCAATCTTAAATTAGCTAAGTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTTA
256 AGTTGCAATATTAAATAAGCTAACTCAAATAAAATTGTTCATGATCTGAAATCAAATGAACTTTA
* * *** * *
12508692 GGTTGCGATCTTAAATCAGTGAACCTTGATCATACCAGCTG-TGATCTTAAATCAACAAGTTTTT
321 CGTTGCGATCTTAAATAAAAAAACCTTGATAATACCAG-TGATGATCTTAAATCAACAAGTTGTT
*
12508756 TGGAGCTACT-
385 CGGAG-TACTG
* * * * * *
12508766 ATATTAAATCAACTAACTTAAATAGAATTGTTCATGATCTCAAATAGAATGAACATTAGGTTGCA
1 ATATTAAATCAGCTAACTTAAATAAAATTGTTCATGATTTCAAATCGAATGAACTTTA-GTTG-G
* * *
12508831 ATCTTAAAT-AGGCGAACCTTGATGATGCCAATTGCGATATTAAATCAGCGAGTTGTTCGGAGTT
64 ATCTTAAATCA-ACGAACCTTGATGATACCAGTTGCGATATTAAATCAGCGAGTTGTTCGGAGTT
*
12508895 GCAATCTTAAATCAATAAAC
128 GCAATCTTAAATCAACAAAC
12508915 CTTGATGATA
Statistics
Matches: 454, Mismatches: 78, Indels: 21
0.82 0.14 0.04
Matches are distributed among these distances:
391 51 0.11
393 1 0.00
394 1 0.00
395 7 0.02
396 389 0.86
397 5 0.01
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (394 bp):
ATATTAAATCAGCTAACTTAAATAAAATTGTTCATGATTTCAAATCGAATGAACTTTAGTTGGAT
CTTAAATCAACGAACCTTGATGATACCAGTTGCGATATTAAATCAGCGAGTTGTTCGGAGTTGCA
ATCTTAAATCAACAAACTCAACTAAAATTGTTCATGATCTAAAATGAAATGAACTTTAGGTTGCA
ATCTTAAATCAACGAACCTTGATAATACCAACTACGATCTTAAATCAACGAGCTGTTCAGAGTTG
CAATATTAAATAAGCTAACTCAAATAAAATTGTTCATGATCTGAAATCAAATGAACTTTACGTTG
CGATCTTAAATAAAAAAACCTTGATAATACCAGTGATGATCTTAAATCAACAAGTTGTTCGGAGT
ACTG
Found at i:12511887 original size:334 final size:334
Alignment explanation
Indices: 12511278--12511940 Score: 1308
Period size: 334 Copynumber: 2.0 Consensus size: 334
12511268 TGACTTAAGC
12511278 TTCTCAAAAGCAACTTGGCATTCTTCTGTCCATGTAAAAGAAGTTCTTAAAGCTTTAAAGATGTC
1 TTCTCAAAAGCAACTTGGCATTCTTCTGTCCATGTAAAAGAAGTTCTTAAAGCTTTAAAGATGTC
12511343 TGCCATCCTGGAGGTGAACCTGTTGAGCACAACCACCCTCCTCATTATACGCTGAATATCCTTGA
66 TGCCATCCTGGAGGTGAACCTGTTGAGCACAACCACCCTCCTCATTATACGCTGAATATCCTTGA
12511408 TAGTCCTTAAGGGAGGCATATCCAAAATAGTTCAAATCTTCTCTGGGTTTACTTCTATCCCTCTT
131 TAGTCCTTAAGGGAGGCATATCCAAAATAGTTCAAATCTTCTCTGGGTTTACTTCTATCCCTCTT
12511473 TCTAAAACCAAGAAGTCTAAAAATTTGCCCGCTCTAATAGCGAAAACACATTTCTCCAGGTTTAA
196 TCTAAAACCAAGAAGTCTAAAAATTTGCCCGCTCTAATAGCGAAAACACATTTCTCCAGGTTTAA
12511538 TTTCATGTTGTGAGCTCGCAAACTAGTAAAAGCCTCTGACAAATCCTGAACTTGCCCCCTTAGAG
261 TTTCATGTTGTGAGCTCGCAAACTAGTAAAAGCCTCTGACAAATCCTGAACTTGCCCCCTTAGAG
12511603 TAGAAGAAG
326 TAGAAGAAG
12511612 TTCTCAAAAGCAACTTGGCATTCTTCTGTCCATGTAAAAGAAGTTCTTAAAGCTTTAAAGATGTC
1 TTCTCAAAAGCAACTTGGCATTCTTCTGTCCATGTAAAAGAAGTTCTTAAAGCTTTAAAGATGTC
* *
12511677 TGCCATCTTGGAGGTGAACCTGTTGAGCGCAACCACCCTCCTCATTATACGCTGAATATCCTTGA
66 TGCCATCCTGGAGGTGAACCTGTTGAGCACAACCACCCTCCTCATTATACGCTGAATATCCTTGA
12511742 TAGTCCTTAAGGGAGGCATATCCAAAATAGTTCAAATCTTCTCTGGGTTTACTTCTATCCCTCTT
131 TAGTCCTTAAGGGAGGCATATCCAAAATAGTTCAAATCTTCTCTGGGTTTACTTCTATCCCTCTT
12511807 TCTAAAACCAAGAAGTCTAAAAATTTGCCCGCTCTAATAGCGAAAACACATTTCTCCAGGTTTAA
196 TCTAAAACCAAGAAGTCTAAAAATTTGCCCGCTCTAATAGCGAAAACACATTTCTCCAGGTTTAA
12511872 TTTCATGTTGTGAGCTCGCAAACTAGTAAAAGCCTCTGACAAATCCTGAACTTGCCCCCTTAGAG
261 TTTCATGTTGTGAGCTCGCAAACTAGTAAAAGCCTCTGACAAATCCTGAACTTGCCCCCTTAGAG
12511937 TAGA
326 TAGA
12511941 GCTCTTTACC
Statistics
Matches: 327, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
334 327 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (334 bp):
TTCTCAAAAGCAACTTGGCATTCTTCTGTCCATGTAAAAGAAGTTCTTAAAGCTTTAAAGATGTC
TGCCATCCTGGAGGTGAACCTGTTGAGCACAACCACCCTCCTCATTATACGCTGAATATCCTTGA
TAGTCCTTAAGGGAGGCATATCCAAAATAGTTCAAATCTTCTCTGGGTTTACTTCTATCCCTCTT
TCTAAAACCAAGAAGTCTAAAAATTTGCCCGCTCTAATAGCGAAAACACATTTCTCCAGGTTTAA
TTTCATGTTGTGAGCTCGCAAACTAGTAAAAGCCTCTGACAAATCCTGAACTTGCCCCCTTAGAG
TAGAAGAAG
Found at i:12515347 original size:10 final size:11
Alignment explanation
Indices: 12515326--12515370 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
12515316 ATATTTTATT
*
12515326 AACTTAAAGAA
1 AACTTAATGAA
12515337 AACTTAA-GAA
1 AACTTAATGAA
* *
12515347 AACATAATTAA
1 AACTTAATGAA
12515358 AACTTAATGAA
1 AACTTAATGAA
12515369 AA
1 AA
12515371 TGCTTGTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.62, C:0.09, G:0.07, T:0.22
Consensus pattern (11 bp):
AACTTAATGAA
Found at i:12516887 original size:13 final size:13
Alignment explanation
Indices: 12516869--12516904 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
12516859 ATATATCCCC
12516869 AAGTGGTGGGAAA
1 AAGTGGTGGGAAA
*
12516882 AAGTGGTGGGAGA
1 AAGTGGTGGGAAA
12516895 AAGTGCGTGG
1 AAGTG-GTGG
12516905 TCGATTTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.31, C:0.03, G:0.50, T:0.17
Consensus pattern (13 bp):
AAGTGGTGGGAAA
Found at i:12518187 original size:13 final size:13
Alignment explanation
Indices: 12518169--12518195 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12518159 TCAATACTGG
12518169 ATCGATACCTACT
1 ATCGATACCTACT
12518182 ATCGATACCTACT
1 ATCGATACCTACT
12518195 A
1 A
12518196 GGTTTTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (13 bp):
ATCGATACCTACT
Found at i:12519167 original size:67 final size:67
Alignment explanation
Indices: 12519084--12519228 Score: 290
Period size: 67 Copynumber: 2.2 Consensus size: 67
12519074 TGAGCCTAAG
12519084 TCTTTGAGGGCCATTGATTTTGCTTTTGATTCTAGTTAAGAAAGATAGAAGCTTCTAAAGTTTGT
1 TCTTTGAGGGCCATTGATTTTGCTTTTGATTCTAGTTAAGAAAGATAGAAGCTTCTAAAGTTTGT
12519149 CA
66 CA
12519151 TCTTTGAGGGCCATTGATTTTGCTTTTGATTCTAGTTAAGAAAGATAGAAGCTTCTAAAGTTTGT
1 TCTTTGAGGGCCATTGATTTTGCTTTTGATTCTAGTTAAGAAAGATAGAAGCTTCTAAAGTTTGT
12519216 CA
66 CA
12519218 TCTTTGAGGGC
1 TCTTTGAGGGC
12519229 TGCTTGTAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 78 1.00
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (67 bp):
TCTTTGAGGGCCATTGATTTTGCTTTTGATTCTAGTTAAGAAAGATAGAAGCTTCTAAAGTTTGT
CA
Found at i:12524525 original size:12 final size:12
Alignment explanation
Indices: 12524508--12524537 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12524498 TGTTACACGC
12524508 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
12524520 CCGTGTGCTAGG
1 CCGTGTGCCAGG
12524532 CCGTGT
1 CCGTGT
12524538 AAGTCACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:12534745 original size:33 final size:32
Alignment explanation
Indices: 12534701--12534814 Score: 113
Period size: 33 Copynumber: 3.5 Consensus size: 32
12534691 AAGGTATGTG
* * * *
12534701 TATATAGAATATATATATGCGTGGGTTTTCTT
1 TATATATAATATATATATGCATGGGTCTTCGT
*
12534733 ATATATATAATATATATATGCATGGGTCTTGGT
1 -TATATATAATATATATATGCATGGGTCTTCGT
** *
12534766 TATATATAATATATATGCATATATGAGTCTT-GT
1 TATATATAATATATAT--ATGCATGGGTCTTCGT
*
12534799 TTTATATAATATATAT
1 TATATATAATATATAT
12534815 GTATATGGGT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
32 16 0.23
33 44 0.63
34 10 0.14
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.46
Consensus pattern (32 bp):
TATATATAATATATATATGCATGGGTCTTCGT
Found at i:12535812 original size:17 final size:17
Alignment explanation
Indices: 12535792--12535849 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
12535782 TACGAACTAC
12535792 TATTTTAAATGAACTGT
1 TATTTTAAATGAACTGT
* ** *
12535809 TATTATGCATGAACTAT
1 TATTTTAAATGAACTGT
* * *
12535826 TATTTCATATGAATTGT
1 TATTTTAAATGAACTGT
12535843 TATTTTA
1 TATTTTA
12535850 TGCAAACTAT
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (17 bp):
TATTTTAAATGAACTGT
Found at i:12535858 original size:34 final size:33
Alignment explanation
Indices: 12535765--12535864 Score: 85
Period size: 34 Copynumber: 2.9 Consensus size: 33
12535755 ATGTAGAATG
* * * * *
12535765 AATGAATTATTATATTATACGAACTACTATTTTA
1 AATGAATTGTTAT-TTATGCAAACTATTATTTCA
*
12535799 AATGAACTGTTA-TTATGCATGAACTATTATTTCA
1 AATGAATTGTTATTTATGCA--AACTATTATTTCA
*
12535833 TATGAATTGTTATTTTATGCAAACTATCTATT
1 AATGAATTGTTA-TTTATGCAAACTAT-TATT
12535865 CTATGTGAAC
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
32 5 0.09
34 37 0.70
35 4 0.08
36 7 0.13
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.45
Consensus pattern (33 bp):
AATGAATTGTTATTTATGCAAACTATTATTTCA
Found at i:12541873 original size:17 final size:17
Alignment explanation
Indices: 12541851--12541883 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12541841 CACTAACATT
*
12541851 AAAATGCAATGACAATA
1 AAAATGCAACGACAATA
12541868 AAAATGCAACGACAAT
1 AAAATGCAACGACAAT
12541884 GTACACTAAA
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:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAATGCAACGACAATA
Found at i:12551525 original size:31 final size:32
Alignment explanation
Indices: 12551487--12551554 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 32
12551477 TTGAAAATCT
*
12551487 AAACTAACAATCTGCACCTTTTT-ATATAACA
1 AAACTAACAATCTCCACCTTTTTGATATAACA
* *
12551518 AAACTAACAATCTCCCCCTTTTTGATATAACG
1 AAACTAACAATCTCCACCTTTTTGATATAACA
12551550 AAACT
1 AAACT
12551555 TTTTGAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 21 0.64
32 12 0.36
ACGTcount: A:0.40, C:0.25, G:0.04, T:0.31
Consensus pattern (32 bp):
AAACTAACAATCTCCACCTTTTTGATATAACA
Found at i:12551664 original size:16 final size:15
Alignment explanation
Indices: 12551643--12551672 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
12551633 TTATGAAGAC
12551643 ATCATTTATACAAAAA
1 ATCATTTATA-AAAAA
12551659 ATCATTTATAAAAA
1 ATCATTTATAAAAA
12551673 GGCTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (15 bp):
ATCATTTATAAAAAA
Found at i:12553110 original size:50 final size:49
Alignment explanation
Indices: 12553056--12553160 Score: 124
Period size: 49 Copynumber: 2.1 Consensus size: 49
12553046 TATTGAGATT
* * *
12553056 ATGAGTGGTCCCAC-ATAAGACCATGTCTGGGACATGG-AGTTGGCACCGAG
1 ATGAGAGGTCCC-CTATAAGACCAT-TCTAGGACATGGCA-TGGGCACCGAG
* *
12553106 ATGAGAGGTCCCCTGTAAGACCATTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCCTATAAGACCATTCTAGGACATGGCATGGGCACCGAG
12553155 ATGAGA
1 ATGAGA
12553161 ACTTCCATGT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
49 27 0.56
50 21 0.44
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (49 bp):
ATGAGAGGTCCCCTATAAGACCATTCTAGGACATGGCATGGGCACCGAG
Done.