Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 64 of 126
Found at i:13170207 original size:15 final size:15
Alignment explanation
Indices: 13170187--13170215 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13170177 ATTTTGTACT
13170187 TAGTTTGTATTTTTG
1 TAGTTTGTATTTTTG
13170202 TAGTTTGTATTTTT
1 TAGTTTGTATTTTT
13170216 AGCCTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.17, T:0.69
Consensus pattern (15 bp):
TAGTTTGTATTTTTG
Found at i:13179385 original size:19 final size:21
Alignment explanation
Indices: 13179361--13179404 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
13179351 AGTTCACAAG
*
13179361 TTTAAT-TAAATTTTTA-TAT
1 TTTAATATAAATTTTAACTAT
*
13179380 TTTAATATATATTTTAACTAT
1 TTTAATATAAATTTTAACTAT
13179401 TTTA
1 TTTA
13179405 TTTGAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTAATATAAATTTTAACTAT
Found at i:13184971 original size:39 final size:39
Alignment explanation
Indices: 13184909--13184991 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 39
13184899 CTTGATTCTC
* *
13184909 TTGAAATTGGAGGTTTACTAGAATTAGAAGAGTGGGAGA
1 TTGAAATTGGAGGTTCACCAGAATTAGAAGAGTGGGAGA
13184948 TTGAAATTGGAGGTTCACCAGAATTAGAAGAGTGGGAGA
1 TTGAAATTGGAGGTTCACCAGAATTAGAAGAGTGGGAGA
13184987 TTGAA
1 TTGAA
13184992 GAAGGCGCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.36, C:0.05, G:0.33, T:0.27
Consensus pattern (39 bp):
TTGAAATTGGAGGTTCACCAGAATTAGAAGAGTGGGAGA
Found at i:13209303 original size:20 final size:21
Alignment explanation
Indices: 13209278--13209334 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
13209268 ACTTAATTTC
*
13209278 ATATTATATTATATAATTATT
1 ATATTATATTATATAATTAAT
* *
13209299 A-ATTAAATT-TATATTTAAT
1 ATATTATATTATATAATTAAT
*
13209318 ATATTATCAATATATAA
1 ATATTAT-ATTATATAA
13209335 ATTTTATATA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
19 9 0.33
20 11 0.41
21 3 0.11
22 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTATATTATATAATTAAT
Found at i:13209421 original size:12 final size:13
Alignment explanation
Indices: 13209398--13209429 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
13209388 TTTATTAACC
13209398 TTAAAAATTAATT
1 TTAAAAATTAATT
13209411 TTAAAAA-TAATT
1 TTAAAAATTAATT
13209423 TTAAAAA
1 TTAAAAA
13209430 AATAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAAAAATTAATT
Found at i:13214820 original size:2 final size:2
Alignment explanation
Indices: 13214813--13214838 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13214803 ATAAATATTC
13214813 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13214839 TATTTCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13216422 original size:15 final size:15
Alignment explanation
Indices: 13216404--13216433 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13216394 AATAAAAGGC
13216404 TAAAAATACAAACTA
1 TAAAAATACAAACTA
13216419 TAAAAATACAAACTA
1 TAAAAATACAAACTA
13216434 AGTACAAAAT
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:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAAAATACAAACTA
Found at i:13222834 original size:80 final size:80
Alignment explanation
Indices: 13222740--13222900 Score: 225
Period size: 80 Copynumber: 2.0 Consensus size: 80
13222730 CATAAGATAA
* * *
13222740 TTCATTTAATTTTTTATAGCATCT-ATTCATGTAAAAAAGTGAGTTATTTAAACAATATATCATA
1 TTCATTTAAATTTTTATAACATCTGATT-ATGTAAAAAAGTGAGTTACTTAAACAATATATCATA
13222804 TCAAAATTGTCGATTT
65 TCAAAATTGTCGATTT
* * * * *
13222820 TTCATTTAAATTTTTATAACATCTGATTGTGTGAGAAAGTGAGTTGCTTAAACATTATATCATAT
1 TTCATTTAAATTTTTATAACATCTGATTATGTAAAAAAGTGAGTTACTTAAACAATATATCATAT
*
13222885 CAAAATTTTCGATTT
66 CAAAATTGTCGATTT
13222900 T
1 T
13222901 GTCCACTTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 68 0.96
81 3 0.04
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (80 bp):
TTCATTTAAATTTTTATAACATCTGATTATGTAAAAAAGTGAGTTACTTAAACAATATATCATAT
CAAAATTGTCGATTT
Found at i:13227457 original size:23 final size:22
Alignment explanation
Indices: 13227431--13227479 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
13227421 ATAAAATTGT
*
13227431 AAAAG-TGAGTTTAAAGTTTATCG
1 AAAAGATGAATTT-AAGTTTA-CG
*
13227454 AAAAGATGAATTTTAGTTTACG
1 AAAAGATGAATTTAAGTTTACG
13227476 AAAA
1 AAAA
13227480 TTAGGTTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 6 0.26
23 11 0.48
24 6 0.26
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.33
Consensus pattern (22 bp):
AAAAGATGAATTTAAGTTTACG
Found at i:13229330 original size:102 final size:103
Alignment explanation
Indices: 13229211--13229401 Score: 246
Period size: 102 Copynumber: 1.9 Consensus size: 103
13229201 GAGTTAGAGG
** *
13229211 ATAACAACAATCAAGATTAAACTGTGATTTTAAATTTAAA-AAATC-GAGATTAAACCGTGAATC
1 ATAACAACAATCAAGATTAAACTACGACTTTAAA-TTAAAGAAATCAG-GATTAAACCGTGAATC
*
13229274 GGAGGATAA-AA-AGATCGAGATTAAATCGCAAGTCAAAAA
64 GAAGGATAACAACA-ATCGAGATTAAATCGCAAGTCAAAAA
* * * * *
13229313 ATAACAACAATCGAGATTAAACTACGACTTTGAATTAAAGAGATCAGGATTGAACCGTGAATTGA
1 ATAACAACAATCAAGATTAAACTACGACTTTAAATTAAAGAAATCAGGATTAAACCGTGAATCGA
13229378 AGGATAACAACAATCGAGATTAAA
66 AGGATAACAACAATCGAGATTAAA
13229402 CTGTGACTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
101 5 0.07
102 55 0.72
103 15 0.20
104 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.23
Consensus pattern (103 bp):
ATAACAACAATCAAGATTAAACTACGACTTTAAATTAAAGAAATCAGGATTAAACCGTGAATCGA
AGGATAACAACAATCGAGATTAAATCGCAAGTCAAAAA
Found at i:13229384 original size:170 final size:170
Alignment explanation
Indices: 13229189--13229544 Score: 482
Period size: 170 Copynumber: 2.1 Consensus size: 170
13229179 AAGAAGACCG
* * *
13229189 GGATTGAACCACGAGTT-AGAGGATAACAACAATCAAGATTAAACTGTGATTTTAAATTTAAAAA
1 GGATTGAACCGCGAATTGA-AGGATAACAACAATCAAGATTAAACTGTGACTTTAAA-TTAAAAA
* * * * * *
13229253 -ATCGAGATTAAACCGTGAATCGGAGGATAAAAAGATCGAGATTAAATCGCAAGTCAAAAAATAA
64 GATCGAAATTAAACAGCGAATCGGAGAATAAAAAGATCGAGATTAAACCACAAGTCAAAAAATAA
13229317 CAACAATCGAGATTAAACTACGACTTTGAATTAAAGAGATCA
129 CAACAATCGAGATTAAACTACGACTTTGAATTAAAGAGATCA
* * **
13229359 GGATTGAACCGTGAATTGAAGGATAACAACAATCGAGATTAAACTGTGACTTTGGATTAAAAAGA
1 GGATTGAACCGCGAATTGAAGGATAACAACAATCAAGATTAAACTGTGACTTTAAATTAAAAAGA
* * * **
13229424 TCGAAATTGAACAGCGAATCGGAGAATAAAAAGATCGGGATTAAACCATAAGTCAAAGGATAACA
66 TCGAAATTAAACAGCGAATCGGAGAATAAAAAGATCGAGATTAAACCACAAGTCAAAAAATAACA
* ** *
13229489 ACAATCGATATTAAACTGTGACTTTGAATTAAAGAGATTA
131 ACAATCGAGATTAAACTACGACTTTGAATTAAAGAGATCA
13229529 GGATTGAACCGCGAAT
1 GGATTGAACCGCGAAT
13229545 CAGAGAATAA
Statistics
Matches: 161, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
169 7 0.04
170 153 0.95
171 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.23
Consensus pattern (170 bp):
GGATTGAACCGCGAATTGAAGGATAACAACAATCAAGATTAAACTGTGACTTTAAATTAAAAAGA
TCGAAATTAAACAGCGAATCGGAGAATAAAAAGATCGAGATTAAACCACAAGTCAAAAAATAACA
ACAATCGAGATTAAACTACGACTTTGAATTAAAGAGATCA
Found at i:13229638 original size:203 final size:203
Alignment explanation
Indices: 13229377--13229748 Score: 555
Period size: 203 Copynumber: 1.8 Consensus size: 203
13229367 CCGTGAATTG
* **
13229377 AAGGATAACAACAATCGAGATTAAACTGTGACTTTGGATTAAAAAGATCGAAATTGAACAGCGAA
1 AAGGATAACAACAATAGAGATTAAACTGTGACTTTAAATTAAAAAGATCGAAATTGAACAGCGAA
* ** *
13229442 TCGGAGAATAAAAAGATCGGGATTAAACCATAAGTCAAAGGATAACAACAATCGATATTAAACTG
66 TCGAAGAATAAAAAGATCGGGATTAAACCATAAGTCAAAAAATAACAACAATCGAGATTAAACTG
* * *
13229507 TGACTTTGAATTAAAGAGATTAGGATTGAACCGCGAATCAGAGAATAAAAGATCAAGATTAAACT
131 TAACTTTGAATTAAAGAGATCAGGATTGAACCACGAATCAGAGAATAAAAGATCAAGATTAAACT
13229572 GCGAGTCA
196 GCGAGTCA
* * ** *
13229580 AAGGATAACAACAATAGAGATTAAACTGTGATTTTAAATTAAAGAGATCGGGATTGAACATCGAA
1 AAGGATAACAACAATAGAGATTAAACTGTGACTTTAAATTAAAAAGATCGAAATTGAACAGCGAA
* ** * *
13229645 TCGAAGGATAAAAAGATCGGGATTAAACTGTAAGTCAAAAAATGATAACAATCGAGATTAAACTG
66 TCGAAGAATAAAAAGATCGGGATTAAACCATAAGTCAAAAAATAACAACAATCGAGATTAAACTG
*
13229710 TAACTTTGAATTAAAGAGATCGGGATTGAACCACGAATC
131 TAACTTTGAATTAAAGAGATCAGGATTGAACCACGAATC
13229749 GAAGGATAAC
Statistics
Matches: 148, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
203 148 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (203 bp):
AAGGATAACAACAATAGAGATTAAACTGTGACTTTAAATTAAAAAGATCGAAATTGAACAGCGAA
TCGAAGAATAAAAAGATCGGGATTAAACCATAAGTCAAAAAATAACAACAATCGAGATTAAACTG
TAACTTTGAATTAAAGAGATCAGGATTGAACCACGAATCAGAGAATAAAAGATCAAGATTAAACT
GCGAGTCA
Found at i:13229736 original size:68 final size:67
Alignment explanation
Indices: 13229653--13229842 Score: 190
Period size: 68 Copynumber: 2.8 Consensus size: 67
13229643 AATCGAAGGA
* *
13229653 TAAAAAGATCGGGATT-AA-ACTGTAAGTCAAAAAATGATAACAATCGAGATTAAACTGTAACTT
1 TAAAAAGATCGGGATTGAACAC-G-AA-TCAAAAAATAACAACAATCGAGATTAAACTGTAACTT
13229716 TGAAT
63 TGAAT
* * ** *
13229721 TAAAGAGATCGGGATTGAACCACGAATCGAAGGATAACAACAATCGAGATTAAACTGTGACTTTG
1 TAAAAAGATCGGGATTGAA-CACGAATCAAAAAATAACAACAATCGAGATTAAACTGTAACTTTG
*
13229786 GAT
65 AAT
** * *
13229789 TAAAAAGATCAAGATTGAACTGCGAATCAAAGAATAA-AA-AGATCGAGATTAAAC
1 TAAAAAGATCGGGATTGAAC-ACGAATCAAAAAATAACAACA-ATCGAGATTAAAC
13229843 CGCGAGTCAA
Statistics
Matches: 103, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
66 1 0.01
67 16 0.16
68 79 0.77
69 4 0.04
70 1 0.01
71 2 0.02
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.23
Consensus pattern (67 bp):
TAAAAAGATCGGGATTGAACACGAATCAAAAAATAACAACAATCGAGATTAAACTGTAACTTTGA
AT
Found at i:13229750 original size:102 final size:102
Alignment explanation
Indices: 13229377--13229778 Score: 497
Period size: 102 Copynumber: 3.9 Consensus size: 102
13229367 CCGTGAATTG
* * **
13229377 AAGGATAACAACAATCGAGATTAAACTGTGACTTTGGATTAAAAAGATCGAAATTGAACAGCGAA
1 AAGGATAACAACAATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGGGATTGAACAGCGAA
* * **
13229442 TCGGAGAATAAAAAGATCGGGATTAAACCATAAGTCA
66 TCGAAGAATAAAAAGATCGAGATTAAACTGTAAGTCA
* ** *
13229479 AAGGATAACAACAATCGATATTAAACTGTGACTTTGAATTAAAGAGATTAGGATTGAACCGCGAA
1 AAGGATAACAACAATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGGGATTGAACAGCGAA
* **
13229544 TC-AGAGAAT-AAAAGATCAAGATTAAACTGCGAGTCA
66 TCGA-AGAATAAAAAGATCGAGATTAAACTGTAAGTCA
* * * *
13229580 AAGGATAACAACAATAGAGATTAAACTGTGATTTTAAATTAAAGAGATCGGGATTGAACATCGAA
1 AAGGATAACAACAATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGGGATTGAACAGCGAA
* *
13229645 TCGAAGGATAAAAAGATCGGGATTAAACTGTAAGTCA
66 TCGAAGAATAAAAAGATCGAGATTAAACTGTAAGTCA
** * * *
13229682 AAAAATGATAACAATCGAGATTAAACTGTAACTTTGAATTAAAGAGATCGGGATTGAACCA-CGA
1 AAGGATAACAACAATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGGGATTGAA-CAGCGA
*
13229746 ATCGAAGGATAACAACA-ATCGAGATTAAACTGT
65 ATCGAAGAATAA-AA-AGATCGAGATTAAACTGT
13229779 GACTTTGGAT
Statistics
Matches: 257, Mismatches: 37, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
101 84 0.33
102 153 0.60
103 19 0.07
104 1 0.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.22
Consensus pattern (102 bp):
AAGGATAACAACAATCGAGATTAAACTGTGACTTTGAATTAAAGAGATCGGGATTGAACAGCGAA
TCGAAGAATAAAAAGATCGAGATTAAACTGTAAGTCA
Found at i:13229772 original size:170 final size:170
Alignment explanation
Indices: 13229552--13229911 Score: 463
Period size: 170 Copynumber: 2.1 Consensus size: 170
13229542 AATCAGAGAA
* ** * * *
13229552 TAAA-AGATCAAGATTAAACTGCGAGTCAAAGGATAACAACAATAGAGATTAAACTGTGATTTTA
1 TAAAGAGATCAGGATTAAACCACGAATCGAAGGATAACAACAATAGAGATTAAACTGTGACTTTA
* ** * * * * *
13229616 AATTAAAGAGATCGGGATTGAACAT-CGAATCGAAGGATAAAAAGATCGGGATTAAACTGTAAGT
66 AATTAAAAAGATCAAGATTGAAC-TGCGAATCAAAGAATAAAAAGATCGAGATTAAACCGCAAGT
* * *
13229680 CAAAAAATGATAACAATCGAGATTAAACTGTAACTTTGAAT
130 CAAAAAATAACAACAATCGAAATTAAACTGTAACTTTGAAT
* * * *
13229721 TAAAGAGATCGGGATTGAACCACGAATCGAAGGATAACAACAATCGAGATTAAACTGTGACTTTG
1 TAAAGAGATCAGGATTAAACCACGAATCGAAGGATAACAACAATAGAGATTAAACTGTGACTTTA
* *
13229786 GATTAAAAAGATCAAGATTGAACTGCGAATCAAAGAATAAAAAGATCGAGATTAAACCGCGAGTC
66 AATTAAAAAGATCAAGATTGAACTGCGAATCAAAGAATAAAAAGATCGAGATTAAACCGCAAGTC
** *
13229851 AAAGGATAACAACAATCGAAATTAAACTGTGACTTTGAAT
131 AAAAAATAACAACAATCGAAATTAAACTGTAACTTTGAAT
13229891 TAAAGAGATCAGGATTAAACC
1 TAAAGAGATCAGGATTAAACC
13229912 GTAAATCGAA
Statistics
Matches: 161, Mismatches: 28, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
169 5 0.03
170 156 0.97
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.23
Consensus pattern (170 bp):
TAAAGAGATCAGGATTAAACCACGAATCGAAGGATAACAACAATAGAGATTAAACTGTGACTTTA
AATTAAAAAGATCAAGATTGAACTGCGAATCAAAGAATAAAAAGATCGAGATTAAACCGCAAGTC
AAAAAATAACAACAATCGAAATTAAACTGTAACTTTGAAT
Found at i:13229832 original size:34 final size:34
Alignment explanation
Indices: 13229789--13229859 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
13229779 GACTTTGGAT
* *
13229789 TAAAAAGATCAAGATTGAACTGCGAATCAAAGAA
1 TAAAAAGATCAAGATTAAACCGCGAATCAAAGAA
* * *
13229823 TAAAAAGATCGAGATTAAACCGCGAGTCAAAGGA
1 TAAAAAGATCAAGATTAAACCGCGAATCAAAGAA
13229857 TAA
1 TAA
13229860 CAACAATCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.51, C:0.13, G:0.20, T:0.17
Consensus pattern (34 bp):
TAAAAAGATCAAGATTAAACCGCGAATCAAAGAA
Found at i:13229832 original size:102 final size:103
Alignment explanation
Indices: 13229721--13230045 Score: 372
Period size: 102 Copynumber: 3.2 Consensus size: 103
13229711 AACTTTGAAT
* * * * *
13229721 TAAAGAGATCGGGATTGAACCACGAATCGAAGGATAACAACAATCGAGATTAAACTGTGACTTTG
1 TAAAAAGATCGAGATTAAACCACGAGTCAAAGGATAACAACAATCGAGATTAAACTGTGACTTTG
* * * *
13229786 GATTAAAAAGATCAAGATTGAACTGCGAATC--AAAGAA
66 AATTAAAGAGATCAAGATTGAACCGCAAATCGAAAAG-A
* *
13229823 TAAAAAGATCGAGATTAAACCGCGAGTCAAAGGATAACAACAATCGAAATTAAACTGTGACTTTG
1 TAAAAAGATCGAGATTAAACCACGAGTCAAAGGATAACAACAATCGAGATTAAACTGTGACTTTG
* * *
13229888 AATTAAAGAGATCAGGATTAAACCGTAAATCGAAAAGA
66 AATTAAAGAGATCAAGATTGAACCGCAAATCGAAAAGA
* * * * ** *
13229926 T-AAAAGATCGAGATTAAACCTCGAGTCAAAAGATAACAATAATTGAGATTAAACTACGATTTTG
1 TAAAAAGATCGAGATTAAACCACGAGTCAAAGGATAACAACAATCGAGATTAAACTGTGACTTTG
* * *
13229990 AATTAAAGAGATCGAA-ATTGAACCGTAAATCG-GAGGA
66 AATTAAAGAGATC-AAGATTGAACCGCAAATCGAAAAGA
*
13230027 TAAAAAGATCGAGAATAAA
1 TAAAAAGATCGAGATTAAA
13230046 TCGTGAGTCA
Statistics
Matches: 192, Mismatches: 27, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
101 4 0.02
102 181 0.94
103 3 0.02
104 4 0.02
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (103 bp):
TAAAAAGATCGAGATTAAACCACGAGTCAAAGGATAACAACAATCGAGATTAAACTGTGACTTTG
AATTAAAGAGATCAAGATTGAACCGCAAATCGAAAAGA
Found at i:13229841 original size:373 final size:373
Alignment explanation
Indices: 13229190--13230057 Score: 1187
Period size: 373 Copynumber: 2.3 Consensus size: 373
13229180 AGAAGACCGG
* * * * *
13229190 GATTGAACCACGAGTTAGAGGATAACAACAATCA-AGATTAAACTGTGATTTTAAATTTAAA-AA
1 GATTAAACCTCGAGTCAAAGGATAACAACAAT-AGAGATTAAACTGTGATTTTAAA-TTAAAGAG
*
13229253 ATCGAGATTAAAC-CGTGAATCGGAGGATAAAAAGATCGAGATTAAATCGCAAGTCAAAAAATAA
64 ATCGAGATTGAACTC--GAATCGGAGGATAAAAAGATCGAGATTAAATCGCAAGTCAAAAAATAA
* ** *
13229317 CAACAATCGAGATTAAACTACGACTTTGAATTAAAGAGATCAGGATTGAACCGTGAATTGAAGGA
127 CAACAATCGAGATTAAACTACAACTTTGAATTAAAGAGATCAGGATTGAACCACGAATCGAAGGA
**
13229382 TAACAACAATCGAGATTAAACTGTGACTTTGGATTAAAAAGATCGAAATTGAACAGCGAATCGGA
192 TAACAACAATCGAGATTAAACTGTGACTTTGGATTAAAAAGATCGAAATTGAACAGCGAATCAAA
* * *
13229447 GAATAAAAAGATCGGGATTAAACCATAAGTCAAAGGATAACAACAATCGATATTAAACTGTGACT
257 GAATAAAAAGATCGAGATTAAACCACAAGTCAAAGGATAACAACAATCGAAATTAAACTGTGACT
* * * *
13229512 TTGAATTAAAGAGATTAGGATTGAACCGCGAATC--AGAGAATAAAAGATCAA
322 TTGAATTAAAGAGATCAGGATTAAACCGCAAATCGAAAAG-ATAAAAGATCAA
13229563 GATTAAA-CTGCGAGTCAAAGGATAACAACAATAGAGATTAAACTGTGATTTTAAATTAAAGAGA
1 GATTAAACCT-CGAGTCAAAGGATAACAACAATAGAGATTAAACTGTGATTTTAAATTAAAGAGA
* * * * * *
13229627 TCGGGATTGAACATCGAATCGAAGGATAAAAAGATCGGGATTAAA-CTGTAAGTCAAAAAATGAT
65 TCGAGATTGAAC-TCGAATCGGAGGATAAAAAGATCGAGATTAAATC-GCAAGTCAAAAAATAAC
** *
13229691 AACAATCGAGATTAAACTGTAACTTTGAATTAAAGAGATCGGGATTGAACCACGAATCGAAGGAT
128 AACAATCGAGATTAAACTACAACTTTGAATTAAAGAGATCAGGATTGAACCACGAATCGAAGGAT
*
13229756 AACAACAATCGAGATTAAACTGTGACTTTGGATTAAAAAGATC-AAGATTGAACTGCGAATCAAA
193 AACAACAATCGAGATTAAACTGTGACTTTGGATTAAAAAGATCGAA-ATTGAACAGCGAATCAAA
* *
13229820 GAATAAAAAGATCGAGATTAAACCGCGAGTCAAAGGATAACAACAATCGAAATTAAACTGTGACT
257 GAATAAAAAGATCGAGATTAAACCACAAGTCAAAGGATAACAACAATCGAAATTAAACTGTGACT
* *
13229885 TTGAATTAAAGAGATCAGGATTAAACCGTAAATCGAAAAGATAAAAGATCGA
322 TTGAATTAAAGAGATCAGGATTAAACCGCAAATCGAAAAGATAAAAGATCAA
* * * ** *
13229937 GATTAAACCTCGAGTCAAAAGATAACAATAATTGAGATTAAACTACGATTTTGAATTAAAGAGAT
1 GATTAAACCTCGAGTCAAAGGATAACAACAATAGAGATTAAACTGTGATTTTAAATTAAAGAGAT
* * **
13230002 CGAAATTGAAC-CGTAAATCGGAGGATAAAAAGATCGAGAATAAATCGTGAGTCAAA
66 CGAGATTGAACTCG--AATCGGAGGATAAAAAGATCGAGATTAAATCGCAAGTCAAA
13230058 GATTAAAGAT
Statistics
Matches: 437, Mismatches: 45, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
372 12 0.03
373 307 0.70
374 111 0.25
375 7 0.02
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.22
Consensus pattern (373 bp):
GATTAAACCTCGAGTCAAAGGATAACAACAATAGAGATTAAACTGTGATTTTAAATTAAAGAGAT
CGAGATTGAACTCGAATCGGAGGATAAAAAGATCGAGATTAAATCGCAAGTCAAAAAATAACAAC
AATCGAGATTAAACTACAACTTTGAATTAAAGAGATCAGGATTGAACCACGAATCGAAGGATAAC
AACAATCGAGATTAAACTGTGACTTTGGATTAAAAAGATCGAAATTGAACAGCGAATCAAAGAAT
AAAAAGATCGAGATTAAACCACAAGTCAAAGGATAACAACAATCGAAATTAAACTGTGACTTTGA
ATTAAAGAGATCAGGATTAAACCGCAAATCGAAAAGATAAAAGATCAA
Found at i:13230064 original size:272 final size:270
Alignment explanation
Indices: 13229208--13230064 Score: 668
Period size: 272 Copynumber: 3.2 Consensus size: 270
13229198 CACGAGTTAG
* * * * * * *
13229208 AGGATAACAACAATCAAGATTAAACTGTGATTTTAAA-TTTAAAAA-ATCGAGATTAAACCGTGA
1 AGGATAACAACAATCGAGAATAAACTGTGA--CTAAAGATTAAAAAGATCAAGATTGAACCGCGA
** * * * * ** * *
13229271 ATCGGAGGATAAAAAGATCGAGATTAAATCGCAAGTCAAAAAATAACAACAATCGAGATTAAACT
64 ATCAAAGAAT-AAAAGATCAAGATTAAACCGCGAGTCAAAGGATAACAACAATAGAAATTAAACT
** * * * *
13229336 ACGACTTTGAATTAAAGAGATCAGGATTGAAC-CGTGAATTGAAGGATAACAACA-ATCGAGATT
128 GTGACTTTAAATTAAAGAGATCAGGATTGAACAC-CGAATCGAAAGATAA-AA-AGATCGAGATT
* * **** * * * ** * *
13229399 AAACTG-TGACTTTGGATTAA-AA-AGATCGAAATTGAAC-AGCGAA-TCGGAGAATAAAAAGAT
190 AAACTGAAGTC-AAAAAATAACAACA-ATCGAGATTAAACTA-C-AACTTTGA-ATTAAAGAGAT
** * * * *
13229459 CGGGATTAAACCATAAGTCAA
250 CGAAATTGAACCACAAATCGA
* * ** * * *
13229480 AGGATAACAACAATCGATATTAAACTGTGACT-TTGAATTAAAGAGATTAGGATTGAACCGCGAA
1 AGGATAACAACAATCGAGAATAAACTGTGACTAAAG-ATTAAAAAGATCAAGATTGAACCGCGAA
* * *
13229544 TCAGAGAATAAAAGATCAAGATTAAACTGCGAGTCAAAGGATAACAACAATAGAGATTAAACTGT
65 TCAAAGAATAAAAGATCAAGATTAAACCGCGAGTCAAAGGATAACAACAATAGAAATTAAACTGT
* * * * *
13229609 GATTTTAAATTAAAGAGATCGGGATTGAACATCGAATCGAAGGATAAAAAGATCGGGATTAAACT
130 GACTTTAAATTAAAGAGATCAGGATTGAACACCGAATCGAAAGATAAAAAGATCGAGATTAAACT
* * ** **
13229674 GTAAGTCAAAAAATGATAACAATCGAGATTAAACTGTAACTTTGAATTAAAGAGATCGGGATTGA
195 G-AAGTCAAAAAATAACAACAATCGAGATTAAACTACAACTTTGAATTAAAGAGATCGAAATTGA
*
13229739 ACCACGAATCGA
259 ACCACAAATCGA
* *** *
13229751 AGGATAACAACAATCGAGATTAAACTGTGACTTTGGATTAAAAAGATCAAGATTGAACTGCGAAT
1 AGGATAACAACAATCGAGAATAAACTGTGACTAAAGATTAAAAAGATCAAGATTGAACCGCGAAT
* *
13229816 CAAAGAATAAAAAGATCGAGATTAAACCGCGAGTCAAAGGATAACAACAATCGAAATTAAACTGT
66 CAAAGAAT-AAAAGATCAAGATTAAACCGCGAGTCAAAGGATAACAACAATAGAAATTAAACTGT
*
13229881 GACTTTGAATTAAAGAGATCAGGATT-AA-ACCGTAAATCGAAAAGAT-AAAAGATCGAGATTAA
130 GACTTTAAATTAAAGAGATCAGGATTGAACACCG--AATCG-AAAGATAAAAAGATCGAGATTAA
* * * * *
13229943 ACCTCG-AGTCAAAAGATAACAATAATTGAGATTAAACTACGATTTTGAATTAAAGAGATCGAAA
192 A-CT-GAAGTCAAAAAATAACAACAATCGAGATTAAACTACAACTTTGAATTAAAGAGATCGAAA
** *
13230007 TTGAACCGTAAATCGG
255 TTGAACCACAAATCGA
*
13230023 AGGATAA-AA-AGATCGAGAATAAA-TCGTGAGTCAAAGATTAAA
1 AGGATAACAACA-ATCGAGAATAAACT-GTGACT-AAAGATTAAA
13230065 GATGATTGGG
Statistics
Matches: 476, Mismatches: 88, Indels: 42
0.79 0.15 0.07
Matches are distributed among these distances:
269 1 0.00
270 22 0.05
271 206 0.43
272 238 0.50
273 8 0.02
274 1 0.00
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.23
Consensus pattern (270 bp):
AGGATAACAACAATCGAGAATAAACTGTGACTAAAGATTAAAAAGATCAAGATTGAACCGCGAAT
CAAAGAATAAAAGATCAAGATTAAACCGCGAGTCAAAGGATAACAACAATAGAAATTAAACTGTG
ACTTTAAATTAAAGAGATCAGGATTGAACACCGAATCGAAAGATAAAAAGATCGAGATTAAACTG
AAGTCAAAAAATAACAACAATCGAGATTAAACTACAACTTTGAATTAAAGAGATCGAAATTGAAC
CACAAATCGA
Found at i:13246121 original size:19 final size:19
Alignment explanation
Indices: 13246077--13246126 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
13246067 AATTGATAAA
13246077 ATTTA-ATAGTAAAAATATT
1 ATTTATATA-TAAAAATATT
*
13246096 A-TAATATATAAAAATATT
1 ATTTATATATAAAAATATT
*
13246114 ATTTATATTTAAA
1 ATTTATATATAAA
13246127 TTTAATAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTTATATATAAAAATATT
Found at i:13246597 original size:13 final size:13
Alignment explanation
Indices: 13246560--13246601 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
13246550 ATACTTTTTT
*
13246560 TTTTAA-ATTTTA
1 TTTTAATATTTAA
13246572 TTATTAGATATTTAA
1 TT-TTA-ATATTTAA
13246587 TTTTAATATTTAA
1 TTTTAATATTTAA
13246600 TT
1 TT
13246602 CAGAATAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 2 0.08
13 13 0.50
14 4 0.15
15 7 0.27
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TTTTAATATTTAA
Found at i:13247236 original size:41 final size:41
Alignment explanation
Indices: 13247173--13247250 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
13247163 CAATAATCTT
* *
13247173 TTTTAATTTTTATGAAGTGATTATTCAACATATTTTTTATC
1 TTTTAATTTTTATGAAGTGATTATTCAAAACATTTTTTATC
*
13247214 TTTTAATTTTTTATTAAG-GATTATTCAAAACATTTTT
1 TTTTAA-TTTTTATGAAGTGATTATTCAAAACATTTTT
13247251 GTCTAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 23 0.70
42 10 0.30
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (41 bp):
TTTTAATTTTTATGAAGTGATTATTCAAAACATTTTTTATC
Found at i:13249002 original size:52 final size:52
Alignment explanation
Indices: 13248904--13249060 Score: 208
Period size: 52 Copynumber: 3.0 Consensus size: 52
13248894 TATAACAATA
* * *
13248904 CAAACTTGCCTATTAAGAATCTCTCTCCTCTTAGAATTTTTCTCTTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTTTTCTCTTGTAAGT
* *
13248956 TAAACTTGCCTATTAAGAATCCCTTTCCTTTTAAAATTCTTT-TCTTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATT-TTTCTCTTGTAAGT
* * * * *
13249008 CAAACTTACCTATTAAGAATCCATTTTCTTTTAGAATTTTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTTTTCTCTTGTAAGT
13249060 C
1 C
13249061 TTCTCGTTCA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
51 3 0.03
52 85 0.93
53 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.08, T:0.45
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTTTTCTCTTGTAAGT
Found at i:13249106 original size:22 final size:22
Alignment explanation
Indices: 13249072--13249127 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
13249062 TCTCGTTCAT
*
13249072 CAAAC-AATATCTAACAAATCA
1 CAAACAAATCTCTAACAAATCA
* *
13249093 CAAATAAATCTCTAACAAATCT
1 CAAACAAATCTCTAACAAATCA
13249115 CAAACAAATCTCT
1 CAAACAAATCTCT
13249128 TATGAGATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 4 0.13
22 26 0.87
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (22 bp):
CAAACAAATCTCTAACAAATCA
Found at i:13249112 original size:11 final size:11
Alignment explanation
Indices: 13249081--13249127 Score: 58
Period size: 11 Copynumber: 4.3 Consensus size: 11
13249071 TCAAACAATA
13249081 TCTAACAAATC
1 TCTAACAAATC
* * *
13249092 ACAAATAAATC
1 TCTAACAAATC
13249103 TCTAACAAATC
1 TCTAACAAATC
*
13249114 TCAAACAAATC
1 TCTAACAAATC
13249125 TCT
1 TCT
13249128 TATGAGATTT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (11 bp):
TCTAACAAATC
Found at i:13249417 original size:25 final size:24
Alignment explanation
Indices: 13249397--13249453 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
13249387 TTAGCTATTC
13249397 CCACATCTCGAACTTTCAGCTCTT
1 CCACATCTCGAACTTTCAGCTCTT
* * *
13249421 CCACGTCTCGAACCTTCGGCTCTTT
1 CCACATCTCGAACTTTCAGCTC-TT
13249446 CCACATCT
1 CCACATCT
13249454 TGAATCTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 19 0.68
25 9 0.32
ACGTcount: A:0.18, C:0.40, G:0.11, T:0.32
Consensus pattern (24 bp):
CCACATCTCGAACTTTCAGCTCTT
Found at i:13249424 original size:24 final size:25
Alignment explanation
Indices: 13249382--13249470 Score: 90
Period size: 25 Copynumber: 3.6 Consensus size: 25
13249372 CTACATCTTA
* * *
13249382 AACCTTTAGCTATTCCCACATCTCG
1 AACCTTCAGCTCTTTCCACATCTCG
* *
13249407 AACTTTCAGCTC-TTCCACGTCTCG
1 AACCTTCAGCTCTTTCCACATCTCG
* *
13249431 AACCTTCGGCTCTTTCCACATCTTG
1 AACCTTCAGCTCTTTCCACATCTCG
* *
13249456 AATCTTCAACTCTTT
1 AACCTTCAGCTCTTT
13249471 TCATGTTTCG
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
24 20 0.39
25 31 0.61
ACGTcount: A:0.20, C:0.35, G:0.09, T:0.36
Consensus pattern (25 bp):
AACCTTCAGCTCTTTCCACATCTCG
Found at i:13249462 original size:25 final size:23
Alignment explanation
Indices: 13249397--13249469 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
13249387 TTAGCTATTC
13249397 CCACATCTCGAACTTTCAGCTCTT
1 CCACATCTCGAAC-TTCAGCTCTT
* *
13249421 CCACGTCTCGAACCTTCGGCTCTTT
1 CCACATCTCGAA-CTTCAGCTC-TT
* *
13249446 CCACATCTTGAATCTTCAACTCTT
1 CCACATCTCGAA-CTTCAGCTCTT
13249470 TTCATGTTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 20 0.50
25 20 0.50
ACGTcount: A:0.19, C:0.37, G:0.10, T:0.34
Consensus pattern (23 bp):
CCACATCTCGAACTTCAGCTCTT
Found at i:13250204 original size:52 final size:53
Alignment explanation
Indices: 13250105--13250204 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 53
13250095 ATTCTCCTGT
* *
13250105 AAGTTAGAACTTGCCTATTAAGAATCTATTTCTTTTTAAAATTTTTTTCTTGG
1 AAGTTAGAACTTACCTATTAAGAATATATTTCTTTTTAAAATTTTTTTCTTGG
* * * *
13250158 AAGTTA-AACTTACTTATTATGAATAT-TTTTTTTTTAGAATTCTTTTT
1 AAGTTAGAACTTACCTATTAAGAATATATTTCTTTTTAAAATT-TTTTT
13250205 GTAAGTCTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 13 0.32
52 21 0.52
53 6 0.15
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (53 bp):
AAGTTAGAACTTACCTATTAAGAATATATTTCTTTTTAAAATTTTTTTCTTGG
Found at i:13257606 original size:145 final size:144
Alignment explanation
Indices: 13257340--13257727 Score: 593
Period size: 145 Copynumber: 2.7 Consensus size: 144
13257330 GAATATTAAT
* * * *
13257340 AATATATGGCCGGCAGTGAAGCTGACATGAATTTATTATCTTTTGTTTGCCAACATAATCGATAG
1 AATATATGGCTGGCATTGAAGCTGACATGAATTTATCATCTTTTGTTTGCCAAAATAATCGATAG
**
13257405 GAAATGAATTAAAAACAAGTAGTCATATGTAGAAGATTGATTTTGTCTTATGCTGAAAAAATAAA
66 GAAATGAATTAAAAACAAGTAGTCATATGTAGAAGATTGATTTTGTCTTACACTGAAAAAA-AAA
*
13257470 AACAATGTTTAAAAC
130 AACAATATTTAAAAC
* *
13257485 AATATATGGCTGGCATTGAAGCTGACATGAATTTATCATCTTTTGTTTGCCAAAAGAAACGATAG
1 AATATATGGCTGGCATTGAAGCTGACATGAATTTATCATCTTTTGTTTGCCAAAATAATCGATAG
13257550 GAAATGAATTAAAAACAAGTAGTCATATGTAGAAGATTGATTTTGT-TATACACTGAAAAAAAAA
66 GAAATGAATTAAAAACAAGTAGTCATATGTAGAAGATTGATTTTGTCT-TACACTGAAAAAAAAA
13257614 AACAATATTTAAAAC
130 AACAATATTTAAAAC
* * * *
13257629 AATATAT--ATGGCATTGAAGCTGACATGAATTTGTCATCTGTTATTTGCCAAAATAATCGATAG
1 AATATATGGCTGGCATTGAAGCTGACATGAATTTATCATCTTTTGTTTGCCAAAATAATCGATAG
* * *
13257692 GAAATGAATTAAAAACAAGTTGTCACATTTAGAAGA
66 GAAATGAATTAAAAACAAGTAGTCATATGTAGAAGA
13257728 ATACCTTATC
Statistics
Matches: 224, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
142 83 0.37
144 25 0.11
145 116 0.52
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (144 bp):
AATATATGGCTGGCATTGAAGCTGACATGAATTTATCATCTTTTGTTTGCCAAAATAATCGATAG
GAAATGAATTAAAAACAAGTAGTCATATGTAGAAGATTGATTTTGTCTTACACTGAAAAAAAAAA
ACAATATTTAAAAC
Found at i:13260031 original size:6 final size:6
Alignment explanation
Indices: 13260012--13260042 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
13260002 TGAATGTTGT
13260012 AATATA ATATATA AATATA AATATA AATATA
1 AATATA A-ATATA AATATA AATATA AATATA
13260043 TATTATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
AATATA
Found at i:13261618 original size:28 final size:28
Alignment explanation
Indices: 13261574--13261629 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
13261564 ATGCATTCAC
* * *
13261574 TCATTCATTCATTCATTTGTGTACTCAT
1 TCATTCATTCATCCATTTATATACTCAT
13261602 TCATTCATTCATCCATTTATATACTCAT
1 TCATTCATTCATCCATTTATATACTCAT
13261630 ATAATGCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.23, G:0.04, T:0.48
Consensus pattern (28 bp):
TCATTCATTCATCCATTTATATACTCAT
Found at i:13263314 original size:10 final size:10
Alignment explanation
Indices: 13263287--13263324 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
13263277 ACAATGCCTT
13263287 AAAAAAAAGC
1 AAAAAAAAGC
*
13263297 ATAAAAAAGC
1 AAAAAAAAGC
*
13263307 AAAAAAAA-A
1 AAAAAAAAGC
13263316 AAAAAAAAG
1 AAAAAAAAG
13263325 TTTTGAGTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.84, C:0.05, G:0.08, T:0.03
Consensus pattern (10 bp):
AAAAAAAAGC
Found at i:13264447 original size:15 final size:15
Alignment explanation
Indices: 13264408--13264461 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
13264398 GAAAGAATGC
* *
13264408 AAAAGAAATAAAATG
1 AAAAGAAAGAAAAAG
* * *
13264423 AAAGGAAAAGAAGAAT
1 AAAAG-AAAGAAAAAG
13264439 AAAAGAAAGAAAAAG
1 AAAAGAAAGAAAAAG
13264454 AAAAGAAA
1 AAAAGAAA
13264462 TGAATTGGTG
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
15 20 0.67
16 10 0.33
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.06
Consensus pattern (15 bp):
AAAAGAAAGAAAAAG
Found at i:13264452 original size:21 final size:22
Alignment explanation
Indices: 13264414--13264455 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
13264404 ATGCAAAAGA
*
13264414 AATAAAATGAAAGGAAAAGAAG
1 AATAAAATGAAAGAAAAAGAAG
13264436 AATAAAA-GAAAGAAAAAGAA
1 AATAAAATGAAAGAAAAAGAA
13264456 AAGAAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (22 bp):
AATAAAATGAAAGAAAAAGAAG
Found at i:13265374 original size:28 final size:28
Alignment explanation
Indices: 13265342--13265397 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
13265332 ATCAATTGAG
13265342 TTTTAAGCCCAGTTTATCTAACCTTCAA
1 TTTTAAGCCCAGTTTATCTAACCTTCAA
* *
13265370 TTTTAAGCTCAGTTTATCTAGCCTTCAA
1 TTTTAAGCCCAGTTTATCTAACCTTCAA
13265398 AAAAAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (28 bp):
TTTTAAGCCCAGTTTATCTAACCTTCAA
Found at i:13265441 original size:33 final size:33
Alignment explanation
Indices: 13265404--13265655 Score: 215
Period size: 33 Copynumber: 7.7 Consensus size: 33
13265394 TCAAAAAAAA
13265404 TTTAAGCCTAGTTTATCTGGCCATCAATGAAGT
1 TTTAAGCCTAGTTTATCTGGCCATCAATGAAGT
* * * **
13265437 TTTAAG-CTCAGTTTAGCTGGCCTTTAA-GAAAA
1 TTTAAGCCT-AGTTTATCTGGCCATCAATGAAGT
* * *
13265469 TTTAAGCCCAATTTATGTGGCCATCAATGAAGT
1 TTTAAGCCTAGTTTATCTGGCCATCAATGAAGT
* * * * * * *
13265502 TTTAAGCCCAATCTAGCTGGCCCTTAA-GAAAAT
1 TTTAAGCCTAGTTTATCTGGCCATCAATG-AAGT
* *
13265535 TTTAACCCTAGTTTATCTGGTCATCAATGAAGT
1 TTTAAGCCTAGTTTATCTGGCCATCAATGAAGT
* * * * *
13265568 TTTAAG-CTCAGTTTAGCTGGCCCTTAAGGAAAT
1 TTTAAGCCT-AGTTTATCTGGCCATCAATGAAGT
* *
13265601 TTTAAGCCTAGTTTATCTAGCTATCAATGAAGT
1 TTTAAGCCTAGTTTATCTGGCCATCAATGAAGT
* *
13265634 TTTAAGCCCAGTTTATTTGGCC
1 TTTAAGCCTAGTTTATCTGGCC
13265656 CCAAATAAGG
Statistics
Matches: 166, Mismatches: 46, Indels: 14
0.73 0.20 0.06
Matches are distributed among these distances:
32 27 0.16
33 136 0.82
34 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (33 bp):
TTTAAGCCTAGTTTATCTGGCCATCAATGAAGT
Found at i:13265560 original size:131 final size:132
Alignment explanation
Indices: 13265399--13265643 Score: 393
Period size: 131 Copynumber: 1.9 Consensus size: 132
13265389 AGCCTTCAAA
* *
13265399 AAAAATTTAAGCCTAGTTTATCTGGCCATCAATGAAGTTTTAAGCTCAGTTTAGCTGGCCTTTAA
1 AAAAATTTAACCCTAGTTTATCTGGCCATCAATGAAGTTTTAAGCTCAGTTTAGCTGGCCCTTAA
* *
13265464 -GAAAATTTAAGCCCAATTTATGTGGCCATCAATGAAGTTTTAAGCCCAATCTAGCTGGCCCTTA
66 GGAAAATTTAAGCCCAATTTATCTAGCCATCAATGAAGTTTTAAGCCCAATCTAGCTGGCCCTTA
13265528 AG
131 AG
* *
13265530 AAAATTTTAACCCTAGTTTATCTGGTCATCAATGAAGTTTTAAGCTCAGTTTAGCTGGCCCTTAA
1 AAAAATTTAACCCTAGTTTATCTGGCCATCAATGAAGTTTTAAGCTCAGTTTAGCTGGCCCTTAA
* * * *
13265595 GGAAATTTTAAGCCTAGTTTATCTAGCTATCAATGAAGTTTTAAGCCCA
66 GGAAAATTTAAGCCCAATTTATCTAGCCATCAATGAAGTTTTAAGCCCA
13265644 GTTTATTTGG
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
131 61 0.59
132 42 0.41
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (132 bp):
AAAAATTTAACCCTAGTTTATCTGGCCATCAATGAAGTTTTAAGCTCAGTTTAGCTGGCCCTTAA
GGAAAATTTAAGCCCAATTTATCTAGCCATCAATGAAGTTTTAAGCCCAATCTAGCTGGCCCTTA
AG
Found at i:13265573 original size:66 final size:66
Alignment explanation
Indices: 13265370--13265648 Score: 357
Period size: 66 Copynumber: 4.2 Consensus size: 66
13265360 TAACCTTCAA
* * * * * *
13265370 TTTTAAGCTCAGTTTATCTAG-CCTTCAAAAAAAATTTAAGCCTAGTTTATCTGGCCATCAATGA
1 TTTTAAGCCCAGTTTAGCTGGCCCTT-AAGAAAATTTTAACCCTAGTTTATCTGGCCATCAATGA
13265434 AG
65 AG
* * * *
13265436 TTTTAAGCTCAGTTTAGCTGGCCTTTAAGAAAA-TTTAAGCCC-AATTTATGTGGCCATCAATGA
1 TTTTAAGCCCAGTTTAGCTGGCCCTTAAGAAAATTTTAA-CCCTAGTTTATCTGGCCATCAATGA
13265499 AG
65 AG
* * *
13265501 TTTTAAGCCCAATCTAGCTGGCCCTTAAGAAAATTTTAACCCTAGTTTATCTGGTCATCAATGAA
1 TTTTAAGCCCAGTTTAGCTGGCCCTTAAGAAAATTTTAACCCTAGTTTATCTGGCCATCAATGAA
13265566 G
66 G
* * * * *
13265567 TTTTAAGCTCAGTTTAGCTGGCCCTTAAGGAAATTTTAAGCCTAGTTTATCTAGCTATCAATGAA
1 TTTTAAGCCCAGTTTAGCTGGCCCTTAAGAAAATTTTAACCCTAGTTTATCTGGCCATCAATGAA
13265632 G
66 G
13265633 TTTTAAGCCCAGTTTA
1 TTTTAAGCCCAGTTTA
13265649 TTTGGCCCCA
Statistics
Matches: 186, Mismatches: 23, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
65 58 0.31
66 125 0.67
67 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (66 bp):
TTTTAAGCCCAGTTTAGCTGGCCCTTAAGAAAATTTTAACCCTAGTTTATCTGGCCATCAATGAA
G
Found at i:13266269 original size:22 final size:21
Alignment explanation
Indices: 13266232--13266281 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 21
13266222 AAGCGTAATT
13266232 TCGATTCACGTGTTGTCTCGA
1 TCGATTCACGTGTTGTCTCGA
*
13266253 TCGATTCATGGTGTTGTCTCGA
1 TCGATTCA-CGTGTTGTCTCGA
13266275 TCGATTC
1 TCGATTC
13266282 TTTATTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.40
Consensus pattern (21 bp):
TCGATTCACGTGTTGTCTCGA
Found at i:13266478 original size:74 final size:74
Alignment explanation
Indices: 13266353--13266572 Score: 255
Period size: 77 Copynumber: 2.9 Consensus size: 74
13266343 GACCCGTGGT
* * *
13266353 GTTGTCCCGATTGATTCTTTACTTCTCGACTCGCGGTGTTATCCCAATCATTTTCTTACTTTTCT
1 GTTGTCCTGATTGATTCTTTACTTCTCGACTCGCGGTGTTGTCCCAGTCATTTTCTTACTTTT-T
13266418 -ACTTGCGAC
65 GACTTGCGAC
* * *
13266427 GTTGTCCTGATTGATTCTTTACTTATCGACTCACGGTGTTGTCCCAGTCATTTTTTTTTTACTTT
1 GTTGTCCTGATTGATTCTTTACTTCTCGACTCGCGGTGTTGTCCCAGTCA---TTTTCTTACTTT
* **
13266492 TTGACTTGTGTT
63 TTGACTTGCGAC
** * *
13266504 GTTGTCCT-AGTCAATTCTTTACTTCTTGACTCGCGGTGTTGTCCCTGTCATTTTCTTTACTTTT
1 GTTGTCCTGA-TTGATTCTTTACTTCTCGACTCGCGGTGTTGTCCCAGTCATTTTC-TTACTTTT
13266568 TGACT
64 TGACT
13266573 CACGGTGGTA
Statistics
Matches: 124, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
74 49 0.40
75 13 0.10
76 2 0.02
77 60 0.48
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (74 bp):
GTTGTCCTGATTGATTCTTTACTTCTCGACTCGCGGTGTTGTCCCAGTCATTTTCTTACTTTTTG
ACTTGCGAC
Found at i:13266571 original size:38 final size:38
Alignment explanation
Indices: 13266367--13266743 Score: 186
Period size: 38 Copynumber: 10.0 Consensus size: 38
13266357 TCCCGATTGA
* * * *
13266367 TTCTTTACTTCTCGACTCGCGGTGTTATCCCAATCATT
1 TTCTTTACTTTTTGACTCGCGGTGTTGTCCCAGTCATT
* ** *
13266405 TTC-TTACTTTTCT-ACTTGCGACGTTGT-CC--TGATT
1 TTCTTTACTTTT-TGACTCGCGGTGTTGTCCCAGTCATT
* * *
13266439 GATTCTTTACTTATCGACTCACGGTGTTGTCCCAGTCATTTT
1 --TTCTTTACTTTTTGACTCGCGGTGTTGTCCCAGTCA--TT
* * * * * *
13266481 TTTTTTACTTTTTGACTTGTGTTGTTGTCCTAGTCA-A
1 TTCTTTACTTTTTGACTCGCGGTGTTGTCCCAGTCATT
* *
13266518 TTCTTTACTTCTTGACTCGCGGTGTTGTCCCTGTCATT
1 TTCTTTACTTTTTGACTCGCGGTGTTGTCCCAGTCATT
* * * *
13266556 TTCTTTACTTTTTGACTCACGGTGGTATCCCAATCATT
1 TTCTTTACTTTTTGACTCGCGGTGTTGTCCCAGTCATT
* ** *** * * *
13266594 TTAC-TTACCTTTCAACTTTAGGTGTTATCCCAATCAAT
1 TT-CTTTACTTTTTGACTCGCGGTGTTGTCCCAGTCATT
* *
13266632 TT-TTTATTTTTTGACTCGCGGTGTTGTCTC-GATCA--
1 TTCTTTACTTTTTGACTCGCGGTGTTGTCCCAG-TCATT
* * * * * *
13266667 TTCTTTA-TTTCTCGACTCACGATGTTATTCC-GATCGTT
1 TTCTTTACTTT-TTGACTCGCGGTGTTGTCCCAG-TCATT
** * *
13266705 TTCTTTACTTTTTGACTCATGGTGTTATCCCATTCATT
1 TTCTTTACTTTTTGACTCGCGGTGTTGTCCCAGTCATT
13266743 T
1 T
13266744 CCATTTTCCT
Statistics
Matches: 251, Mismatches: 68, Indels: 40
0.70 0.19 0.11
Matches are distributed among these distances:
34 4 0.02
35 5 0.02
36 27 0.11
37 84 0.33
38 95 0.38
39 4 0.02
40 30 0.12
42 2 0.01
ACGTcount: A:0.15, C:0.23, G:0.14, T:0.48
Consensus pattern (38 bp):
TTCTTTACTTTTTGACTCGCGGTGTTGTCCCAGTCATT
Found at i:13267031 original size:108 final size:110
Alignment explanation
Indices: 13266746--13267440 Score: 578
Period size: 109 Copynumber: 6.4 Consensus size: 110
13266736 ATTCATTTCC
* * * ** * * * * *
13266746 ATTTTCCTGACTCGCAGTTTAATCCCAATTGCTTTTATTTTTTG-GGCTTGCTGTTCATTCCCAA
1 ATTTT-CTGACTTGCGGTTTAATCCCAGTCACTTTTATTTTTCGAAGCTTGCAGTTCAGTCCCAG
* *
13266810 TTGTCGTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTTCTATA
65 TCGTCGTTAATCTTTGACTCGTGGTTTAATCCTGATCA-TTTCTATA
* * * * * *
13266857 GTTTTCTGAATTACGATTTAATCCCAGTCACTTTTATTTTTC--AGATTCGCA-TTCAGTCCCAA
1 ATTTTCTGACTTGCGGTTTAATCCCAGTCACTTTTATTTTTCGAAGCTT-GCAGTTCAGTCCCAG
*
13266919 TCGTCGTTAATCTTTGACTTGTGGTTTAATCCTGATCATTTCTATA
65 TCGTCGTTAATCTTTGACTCGTGGTTTAATCCTGATCATTTCTATA
* * * * * *
13266965 ATTTTCTGACTCGTGGTTTAATCCTAGTCACTTTTATTTTTC-AAGCTTACAG-TCAATCTCAGT
1 ATTTTCTGACTTGCGGTTTAATCCCAGTCACTTTTATTTTTCGAAGCTTGCAGTTCAGTCCCAGT
* * *
13267028 CGTCGTTAATCTTTGACTCATGGTTTAATCTTGGTCATTTCTAT-
66 CGTCGTTAATCTTTGACTCGTGGTTTAATCCTGATCATTTCTATA
* * *
13267072 AGTTTCTTGACTTGCGGTTTAATCCCAATCACTTTTATTTTTCGAACGCGTG--GTTCAGTCCCA
1 ATTTTC-TGACTTGCGGTTTAATCCCAGTCACTTTTATTTTTCGAA-GCTTGCAGTTCAGTCCCA
* * *
13267135 GTCATCGTTAATCTTTAACTCGTGGTTTAATCCCGATCATTTCTATA
64 GTCGTCGTTAATCTTTGACTCGTGGTTTAATCCTGATCATTTCTATA
* * * * * ** *
13267182 GTTTCCTAACTTGCGGTTTAATCCCAGTCGCTTTTATTTTTCTAA-CTTGTGGTTTAGTCCCAGT
1 ATTTTCTGACTTGCGGTTTAATCCCAGTCACTTTTATTTTTCGAAGCTTGCAGTTCAGTCCCAGT
* * * * *
13267246 CGTCATTAATCTTTGACTCATAGTTTAATCCT-AGTTATTTTTAT-
66 CGTCGTTAATCTTTGACTCGTGGTTTAATCCTGA-TCATTTCTATA
* * * * * * * * *
13267290 AGTTTCTCGACTTGTGATTTAATCCCAATCACTTTTATTTTTTTG-A-TTTACGGTTCAATCCCA
1 ATTTTCT-GACTTGCGGTTTAATCCCAGTCACTTTTA-TTTTTCGAAGCTTGCAGTTCAGTCCCA
* * **** * *
13267353 ATCGTCGTTAATCTTTGAATCACAATTTAATTCGGATCATTT-T-TA
64 GTCGTCGTTAATCTTTGACTCGTGGTTTAATCCTGATCATTTCTATA
* * *
13267398 TTTTTTTGACTTGCGGTTTAATCCTAGTTGC-CTTTTATTTTTC
1 ATTTTCTGACTTGCGGTTTAATCCCAG-T-CACTTTTATTTTTC
13267441 TGACTAACGA
Statistics
Matches: 471, Mismatches: 96, Indels: 38
0.78 0.16 0.06
Matches are distributed among these distances:
107 30 0.06
108 143 0.30
109 252 0.54
110 42 0.09
111 4 0.01
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (110 bp):
ATTTTCTGACTTGCGGTTTAATCCCAGTCACTTTTATTTTTCGAAGCTTGCAGTTCAGTCCCAGT
CGTCGTTAATCTTTGACTCGTGGTTTAATCCTGATCATTTCTATA
Found at i:13267162 original size:217 final size:217
Alignment explanation
Indices: 13266748--13267368 Score: 644
Period size: 218 Copynumber: 2.9 Consensus size: 217
13266738 TCATTTCCAT
* * * ** ** * * * * *
13266748 TTTCCTGACTCGCAGTTTAATCCCAATTGCTTTTATTTTT-TGGGCTTGCTGTTCATTCCCAATT
1 TTTCCTAACTCGCGGTTTAATCCCAGTCACTTTTATTTTTCT-AACTTACAGTTCAATCCCAGTC
* * * * *
13266812 GTCGTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTTCTATAGTTT-TCTGAATTACGATTT
65 GTCGTTAATCTTTGACTCATGGTTTAATCCTGGTCA-TTTCTATAGTTTCT-TGACTTGCGATTT
* * * * *
13266876 AATCCCAGTCACTTTTATTTTTCAGATTCGCATTCAGTCCCAATCGTCGTTAATCTTTGACTTGT
128 AATCCCAATCACTTTTATTTTTCAGATACGCATTCAGTCCCAATCATCGTTAATCTTTAACTCGT
*
13266941 GGTTTAATCCTGATCATTTCTATAA
193 GGTTTAATCCCGATCATTTCTATAA
* * * * *
13266966 TTTTCTGACTCGTGGTTTAATCCTAGTCACTTTTATTTTTC-AAGCTTACAG-TCAATCTCAGTC
1 TTTCCTAACTCGCGGTTTAATCCCAGTCACTTTTATTTTTCTAA-CTTACAGTTCAATCCCAGTC
* *
13267029 GTCGTTAATCTTTGACTCATGGTTTAATCTTGGTCATTTCTATAGTTTCTTGACTTGCGGTTTAA
65 GTCGTTAATCTTTGACTCATGGTTTAATCCTGGTCATTTCTATAGTTTCTTGACTTGCGATTTAA
* *
13267094 TCCCAATCACTTTTATTTTTC-GA-ACGCGTGGTTCAGTCCCAGTCATCGTTAATCTTTAACTCG
130 TCCCAATCACTTTTATTTTTCAGATACGC---ATTCAGTCCCAATCATCGTTAATCTTTAACTCG
*
13267157 TGGTTTAATCCCGATCATTTCTATAG
192 TGGTTTAATCCCGATCATTTCTATAA
* * *** * *
13267183 TTTCCTAACTTGCGGTTTAATCCCAGTCGCTTTTATTTTTCTAACTTGTGGTTTAGTCCCAGTCG
1 TTTCCTAACTCGCGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTACAGTTCAATCCCAGTCG
* * * * * * *
13267248 TCATTAATCTTTGACTCATAGTTTAATCCTAGTTATTTTTATAGTTTCTCGACTTGTGATTTAAT
66 TCGTTAATCTTTGACTCATGGTTTAATCCTGGTCATTTCTATAGTTTCTTGACTTGCGATTTAAT
** * * *
13267313 CCCAATCACTTTTATTTTTTTGATTTACG-GTTCAATCCCAATCGTCGTTAATCTTT
131 CCCAATCACTTTTATTTTTCAGA--TACGCATTCAGTCCCAATCATCGTTAATCTTT
13267369 GAATCACAAT
Statistics
Matches: 335, Mismatches: 56, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
214 3 0.01
215 2 0.01
216 44 0.13
217 132 0.39
218 149 0.44
219 2 0.01
222 3 0.01
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (217 bp):
TTTCCTAACTCGCGGTTTAATCCCAGTCACTTTTATTTTTCTAACTTACAGTTCAATCCCAGTCG
TCGTTAATCTTTGACTCATGGTTTAATCCTGGTCATTTCTATAGTTTCTTGACTTGCGATTTAAT
CCCAATCACTTTTATTTTTCAGATACGCATTCAGTCCCAATCATCGTTAATCTTTAACTCGTGGT
TTAATCCCGATCATTTCTATAA
Found at i:13267236 original size:36 final size:35
Alignment explanation
Indices: 13267081--13267246 Score: 120
Period size: 36 Copynumber: 4.6 Consensus size: 35
13267071 TAGTTTCTTG
* * *
13267081 ACTTGCGGTTTAATCCCAATCACTTTTATTTTTCGA
1 ACTTGTGGTTTAATCCCAGTCA-TTTTATTTTTCTA
** * * * * *
13267117 ACGCGTGGTTCAGTCCCAGTCATCGTTAATCTT-TA
1 ACTTGTGGTTTAATCCCAGTCAT-TTTATTTTTCTA
* *
13267152 ACTCGTGGTTTAATCCC-GATCATTTCTATAGTTTCCTA
1 ACTTGTGGTTTAATCCCAG-TCATTT-TAT--TTTTCTA
* *
13267190 ACTTGCGGTTTAATCCCAGTCGCTTTTATTTTTCTA
1 ACTTGTGGTTTAATCCCAGTC-ATTTTATTTTTCTA
*
13267226 ACTTGTGGTTTAGTCCCAGTC
1 ACTTGTGGTTTAATCCCAGTC
13267247 GTCATTAATC
Statistics
Matches: 99, Mismatches: 23, Indels: 16
0.72 0.17 0.12
Matches are distributed among these distances:
34 2 0.02
35 22 0.22
36 47 0.47
37 2 0.02
38 22 0.22
39 4 0.04
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (35 bp):
ACTTGTGGTTTAATCCCAGTCATTTTATTTTTCTA
Found at i:13269347 original size:16 final size:15
Alignment explanation
Indices: 13269326--13269427 Score: 111
Period size: 15 Copynumber: 6.9 Consensus size: 15
13269316 CGTTTTATTT
13269326 AAACCCTAAACCCTCC
1 AAACCCTAAA-CCTCC
*
13269342 AAACCCTAAACCTCA
1 AAACCCTAAACCTCC
* *
13269357 AAACCCTAAA-ATCA
1 AAACCCTAAACCTCC
*
13269371 AAACCCCAAACCTCC
1 AAACCCTAAACCTCC
* *
13269386 AAACCCTAAA-AT-T
1 AAACCCTAAACCTCC
13269399 AAACCCTAAACCCTCC
1 AAACCCTAAA-CCTCC
13269415 AAACCCTAAACCT
1 AAACCCTAAACCT
13269428 TAGAACCCTA
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
13 10 0.14
14 13 0.18
15 29 0.40
16 20 0.28
ACGTcount: A:0.45, C:0.41, G:0.00, T:0.14
Consensus pattern (15 bp):
AAACCCTAAACCTCC
Found at i:13269381 original size:29 final size:28
Alignment explanation
Indices: 13269342--13269424 Score: 121
Period size: 29 Copynumber: 2.9 Consensus size: 28
13269332 TAAACCCTCC
*
13269342 AAACCCTAAACCTCAAAACCCTAAAATCA
1 AAACCCTAAACCTCCAAACCCTAAAAT-A
* *
13269371 AAACCCCAAACCTCCAAACCCTAAAATT
1 AAACCCTAAACCTCCAAACCCTAAAATA
13269399 AAACCCTAAACCCTCCAAACCCTAAA
1 AAACCCTAAA-CCTCCAAACCCTAAA
13269425 CCTTAGAACC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 9 0.18
29 40 0.82
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.13
Consensus pattern (28 bp):
AAACCCTAAACCTCCAAACCCTAAAATA
Found at i:13269415 original size:73 final size:73
Alignment explanation
Indices: 13269324--13269497 Score: 285
Period size: 73 Copynumber: 2.4 Consensus size: 73
13269314 CACGTTTTAT
13269324 TTAAACCCTAAACCCTCCAAACCCTAAACCTCAAAACCCTAAAATCAAAACCCCAAACCTCCAAA
1 TTAAACCCTAAACCCTCCAAACCCTAAACCTCAAAACCCTAAAATCAAAACCCCAAACCTCCAAA
13269389 CCCTAAAA
66 CCCTAAAA
* * ** *
13269397 TTAAACCCTAAACCCTCCAAACCCTAAACCTTAGAACCCTAAAATCAAATTCCCAAACTTCCAAA
1 TTAAACCCTAAACCCTCCAAACCCTAAACCTCAAAACCCTAAAATCAAAACCCCAAACCTCCAAA
13269462 CCCTAAAA
66 CCCTAAAA
* *
13269470 TTAAACCTTAAACCCTCCGAACCCTAAA
1 TTAAACCCTAAACCCTCCAAACCCTAAA
13269498 ATTAAAATCC
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 94 1.00
ACGTcount: A:0.44, C:0.37, G:0.01, T:0.17
Consensus pattern (73 bp):
TTAAACCCTAAACCCTCCAAACCCTAAACCTCAAAACCCTAAAATCAAAACCCCAAACCTCCAAA
CCCTAAAA
Found at i:13269419 original size:44 final size:43
Alignment explanation
Indices: 13269326--13269445 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 43
13269316 CGTTTTATTT
*
13269326 AAACCCTAAACCCTCCAAACCCTAAACCTCAAAACCCTAAAATCA
1 AAACCCTAAA-CCTCCAAACCCTAAA-ATCAAAACCCTAAAATCA
* * * *
13269371 AAACCCCAAACCTCCAAACCCTAAAAT-TAAACCCTAAACCCTCC
1 AAACCCTAAACCTCCAAACCCTAAAATCAAAACCCTAAA--ATCA
*
13269415 AAACCCTAAACCT-TAGAACCCTAAAATCAAA
1 AAACCCTAAACCTCCA-AACCCTAAAATCAAA
13269446 TTCCCAAACT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
42 10 0.16
43 2 0.03
44 40 0.63
45 11 0.17
ACGTcount: A:0.47, C:0.38, G:0.01, T:0.14
Consensus pattern (43 bp):
AAACCCTAAACCTCCAAACCCTAAAATCAAAACCCTAAAATCA
Found at i:13269520 original size:29 final size:29
Alignment explanation
Indices: 13269419--13269540 Score: 88
Period size: 29 Copynumber: 4.2 Consensus size: 29
13269409 CCCTCCAAAC
* * *
13269419 CCTAAACCTTAGAACCCTAAAATCAAATT
1 CCTAAAACTTCGAACCCTAAAATCAAAAT
* * *
13269448 CC-CAAACTTCCAAACCCTAAAAT-TAAA-
1 CCTAAAACTT-CGAACCCTAAAATCAAAAT
* * *
13269475 CCTTAAACCCTCCGAACCCTAAAATTAAAAT
1 CC-TAAA-ACTTCGAACCCTAAAATCAAAAT
* * *
13269506 CCTAAAACTTTGAACCCCAAAATCAAAAC
1 CCTAAAACTTCGAACCCTAAAATCAAAAT
13269535 CCTAAA
1 CCTAAA
13269541 CCTCAAATCC
Statistics
Matches: 70, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
27 2 0.03
28 7 0.10
29 50 0.71
30 9 0.13
31 2 0.03
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.20
Consensus pattern (29 bp):
CCTAAAACTTCGAACCCTAAAATCAAAAT
Found at i:13269525 original size:73 final size:73
Alignment explanation
Indices: 13269324--13269540 Score: 276
Period size: 73 Copynumber: 3.0 Consensus size: 73
13269314 CACGTTTTAT
* * *
13269324 TTAAACCCTAAACCCTCCAAACCCTAAACCTCAAAACCCTAAAATCAAAACCCCAAACCTCCAAA
1 TTAAACCCTAAACCCTCCAAACCCTAAACCTTAAAACCCTAAAATTAAAACCCCAAACATCCAAA
13269389 CCCTAAAA
66 CCCTAAAA
* * ** *
13269397 TTAAACCCTAAACCCTCCAAACCCTAAACCTTAGAACCCTAAAATCAAATTCCCAAACTTCCAAA
1 TTAAACCCTAAACCCTCCAAACCCTAAACCTTAAAACCCTAAAATTAAAACCCCAAACATCCAAA
13269462 CCCTAAAA
66 CCCTAAAA
* * * * ** *
13269470 TTAAACCTTAAACCCTCCGAACCCTAAA-ATTAAAATCCTAAAACTTTGAACCCCAAA-ATCAAA
1 TTAAACCCTAAACCCTCCAAACCCTAAACCTTAAAACCCTAAAA-TTAAAACCCCAAACATCCAA
13269533 ACCCTAAA
65 ACCCTAAA
13269541 CCTCAAATCC
Statistics
Matches: 126, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
72 24 0.19
73 102 0.81
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.18
Consensus pattern (73 bp):
TTAAACCCTAAACCCTCCAAACCCTAAACCTTAAAACCCTAAAATTAAAACCCCAAACATCCAAA
CCCTAAAA
Found at i:13269668 original size:29 final size:29
Alignment explanation
Indices: 13269577--13269759 Score: 131
Period size: 30 Copynumber: 6.3 Consensus size: 29
13269567 AATCCTTCAT
* *
13269577 ACCCTAAACACTCTAAACCCT-AAATTAA
1 ACCCTAAACCCTCTAAACCCTAAAATGAA
** * * *
13269605 ACCCTAAATACTCTAAA-TCTTAAATTAA
1 ACCCTAAACCCTCTAAACCCTAAAATGAA
*
13269633 ACCCTAAACCCTCTAAATCCTAAAATGAA
1 ACCCTAAACCCTCTAAACCCTAAAATGAA
* * * *
13269662 ACCCTAAA-CTTTTAGAACCTTAAAAACGAA
1 ACCCTAAACCCTCTA-AACCCT-AAAATGAA
* *
13269692 ACCTTAAACCCT-TCAAACCCTAAAATCAA
1 ACCCTAAACCCTCT-AAACCCTAAAATGAA
* * * *
13269721 ATCTCTAAAACATCCAAACCCTAAAATTGAA
1 A-CCCTAAACCCTCTAAACCCTAAAA-TGAA
13269752 ACCCTAAA
1 ACCCTAAA
13269760 TTCAAAACCC
Statistics
Matches: 122, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
27 2 0.02
28 42 0.34
29 27 0.22
30 44 0.36
31 7 0.06
ACGTcount: A:0.46, C:0.28, G:0.02, T:0.23
Consensus pattern (29 bp):
ACCCTAAACCCTCTAAACCCTAAAATGAA
Found at i:13269746 original size:16 final size:14
Alignment explanation
Indices: 13269704--13269776 Score: 53
Period size: 14 Copynumber: 5.1 Consensus size: 14
13269694 CTTAAACCCT
13269704 TCAAACCCT-AAAA
1 TCAAACCCTAAAAA
*
13269717 TCAAATCTCTAAAACA
1 TCAAA-CCCTAAAA-A
*
13269733 TCCAAACCCTAAAAT
1 T-CAAACCCTAAAAA
* *
13269748 TGAAACCCT-AAAT
1 TCAAACCCTAAAAA
13269761 TCAAAACCC-AAAAA
1 TC-AAACCCTAAAAA
13269775 TC
1 TC
13269777 CAAAATCCCA
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
13 10 0.21
14 21 0.44
15 4 0.08
16 9 0.19
17 4 0.08
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.19
Consensus pattern (14 bp):
TCAAACCCTAAAAA
Found at i:13269822 original size:14 final size:15
Alignment explanation
Indices: 13269805--13269894 Score: 59
Period size: 14 Copynumber: 6.3 Consensus size: 15
13269795 ATTTCAGTCT
13269805 CTAAACACT-AAACC
1 CTAAACACTCAAACC
13269819 CTAAA-A-TCAAACC
1 CTAAACACTCAAACC
*
13269832 CTAAATC-CTCTAAACT
1 CTAAA-CACTC-AAACC
*
13269848 CTAAA-ACTAAAACC
1 CTAAACACTCAAACC
* *
13269862 CCAAAC-TTCAAACC
1 CTAAACACTCAAACC
* *
13269876 CCAAACA-TGAAACC
1 CTAAACACTCAAACC
13269890 CTAAA
1 CTAAA
13269895 TTTCAAAATC
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
12 1 0.02
13 11 0.18
14 35 0.58
15 4 0.07
16 9 0.15
ACGTcount: A:0.49, C:0.33, G:0.01, T:0.17
Consensus pattern (15 bp):
CTAAACACTCAAACC
Found at i:13269845 original size:29 final size:29
Alignment explanation
Indices: 13269577--13269895 Score: 134
Period size: 28 Copynumber: 11.3 Consensus size: 29
13269567 AATCCTTCAT
*
13269577 ACCCTAAA-CACTCTAAACCCT-AAATTAA
1 ACCCTAAATC-CTCTAAACCCTAAAATCAA
* * * *
13269605 ACCCTAAATACTCTAAA-TCTTAAATTAA
1 ACCCTAAATCCTCTAAACCCTAAAATCAA
* * *
13269633 ACCCTAAACCCTCTAAATCCTAAAATGAA
1 ACCCTAAATCCTCTAAACCCTAAAATCAA
* * * *
13269662 ACCCTAAA-CTTTTAGAACCTTAAAAACGAA
1 ACCCTAAATCCTCTA-AACCCTAAAATC-AA
* *
13269692 ACCTTAAACCCT-TCAAACCCTAAAATCAA
1 ACCCTAAATCCTCT-AAACCCTAAAATCAA
* * * * *
13269721 ATCTCTAAAACATCCAAACCCTAAAATTGAA
1 A-CCCTAAATCCTCTAAACCCTAAAA-TCAA
*
13269752 ACCCTAAAT--TCAAAACCC---AA--AA
1 ACCCTAAATCCTCTAAACCCTAAAATCAA
* * * *
13269774 ATCCAAAATCC-C-AAACCCTAAATTTCAG
1 ACCCTAAATCCTCTAAACCCTAAA-ATCAA
* * *
13269802 TCTCTAAA--CACTAAACCCTAAAATCAA
1 ACCCTAAATCCTCTAAACCCTAAAATCAA
* *
13269829 ACCCTAAATCCTCTAAACTCTAAAACTAAA
1 ACCCTAAATCCTCTAAACCCTAAAA-TCAA
* * * *
13269859 ACCCCAAA-CTTC-AAACCCCAAACATGAA
1 ACCCTAAATCCTCTAAACCCTAAA-ATCAA
13269887 ACCCTAAAT
1 ACCCTAAAT
13269896 TTCAAAATCA
Statistics
Matches: 219, Mismatches: 47, Indels: 49
0.70 0.15 0.16
Matches are distributed among these distances:
22 15 0.07
23 1 0.00
25 3 0.01
26 1 0.00
27 12 0.05
28 82 0.37
29 44 0.20
30 54 0.25
31 7 0.03
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (29 bp):
ACCCTAAATCCTCTAAACCCTAAAATCAA
Found at i:13269919 original size:15 final size:14
Alignment explanation
Indices: 13269899--13270000 Score: 71
Period size: 15 Copynumber: 6.7 Consensus size: 14
13269889 CCTAAATTTC
*
13269899 AAAATCACAAACCCT
1 AAAATC-CAAAACCT
13269914 AAAATCCAAAACCT
1 AAAATCCAAAACCT
**
13269928 AAAAATCCAAAATTTT
1 -AAAATCCAAAA-CCT
*
13269944 AAAAACCCCTAAAATCC-
1 -AAAA-TCC-AAAA-CCT
*
13269961 AAAATCCCAAACTCT
1 AAAATCCAAAAC-CT
13269976 AAAATCCAAAACCT
1 AAAATCCAAAACCT
13269990 AAAAATCCAAA
1 -AAAATCCAAA
13270001 GGTAAAGACC
Statistics
Matches: 71, Mismatches: 9, Indels: 14
0.76 0.10 0.15
Matches are distributed among these distances:
13 1 0.01
14 13 0.18
15 40 0.56
16 10 0.14
17 2 0.03
18 5 0.07
ACGTcount: A:0.56, C:0.27, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAATCCAAAACCT
Found at i:13269923 original size:22 final size:22
Alignment explanation
Indices: 13269885--13269986 Score: 65
Period size: 22 Copynumber: 4.8 Consensus size: 22
13269875 CCCAAACATG
* *
13269885 AAACCCTAAATTTCAAAATCAC
1 AAACCCTAAAATCCAAAATCAC
13269907 AAACCCTAAAATCCAAAA-C-C
1 AAACCCTAAAATCCAAAATCAC
* * *
13269927 -TA----AAAATCCAAAATTTTAA
1 AAACCCTAAAATCCAAAA--TCAC
*
13269946 AAACCCCTAAAATCCAAAATCCC
1 AAA-CCCTAAAATCCAAAATCAC
*
13269969 AAACTCTAAAATCCAAAA
1 AAACCCTAAAATCCAAAA
13269987 CCTAAAAATC
Statistics
Matches: 60, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
15 11 0.18
19 1 0.02
20 2 0.03
21 1 0.02
22 30 0.50
23 4 0.07
25 11 0.18
ACGTcount: A:0.54, C:0.27, G:0.00, T:0.19
Consensus pattern (22 bp):
AAACCCTAAAATCCAAAATCAC
Found at i:13272263 original size:192 final size:191
Alignment explanation
Indices: 13271936--13272321 Score: 727
Period size: 192 Copynumber: 2.0 Consensus size: 191
13271926 GGATCTAATA
13271936 AAAAAAATTAAAAAGTAAACCCAAACAAAATAAAAGTATTGAAACATATTTTCAAATTAATTTTT
1 AAAAAAATTAAAAAGTAAACCCAAACAAAATAAAAGTATTGAAACATATTTTCAAATTAATTTTT
*
13272001 ACCACACCAAAGGCTATTCATTCTTATTTATAATGAAATTGGATGTTAAAAATTAAAATTAAAAT
66 ACCACACCAAAGGCTATTCATTCTTATTTATAATGAAATGGGATGTTAAAAATTAAAATTAAAAT
13272066 TTAATTCAGAGTGATTTAAGATAAATTATACTAAAAATAAATTATAATCATTAATTGATTGT
131 TTAATTCAGAGTGATTTAAGATAAATTATACTAAAAATAAATTATAATCATTAATTGATT-T
* *
13272128 AAAAAAATTAAAAAGTAAACCCAAATAAAATAAACGTATTGAAACATATTTTCAAATTAATTTTT
1 AAAAAAATTAAAAAGTAAACCCAAACAAAATAAAAGTATTGAAACATATTTTCAAATTAATTTTT
*
13272193 ACCCCACCAAAGGCTATTCATTCTTATTTATAATGAAATGGGATGTTAAAAATTAAAATTAAAAT
66 ACCACACCAAAGGCTATTCATTCTTATTTATAATGAAATGGGATGTTAAAAATTAAAATTAAAAT
13272258 TTAATTCAGAGTGATTTAAGATAAATTATACTAAAAATAAATTATAATCATTAATTGATTT
131 TTAATTCAGAGTGATTTAAGATAAATTATACTAAAAATAAATTATAATCATTAATTGATTT
13272319 AAA
1 AAA
13272322 TTTATTTATA
Statistics
Matches: 190, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
191 4 0.02
192 186 0.98
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.34
Consensus pattern (191 bp):
AAAAAAATTAAAAAGTAAACCCAAACAAAATAAAAGTATTGAAACATATTTTCAAATTAATTTTT
ACCACACCAAAGGCTATTCATTCTTATTTATAATGAAATGGGATGTTAAAAATTAAAATTAAAAT
TTAATTCAGAGTGATTTAAGATAAATTATACTAAAAATAAATTATAATCATTAATTGATTT
Found at i:13273542 original size:2 final size:2
Alignment explanation
Indices: 13273535--13273567 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
13273525 ATATGTTGTA
13273535 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13273568 TAGGTACCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13274323 original size:17 final size:17
Alignment explanation
Indices: 13274301--13274337 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
13274291 AATATTTAAC
*
13274301 ATTAATTTCAGTCCTTA
1 ATTAATTTCAATCCTTA
13274318 ATTAATTTCAATCCTTA
1 ATTAATTTCAATCCTTA
13274335 ATT
1 ATT
13274338 TTACTTTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.49
Consensus pattern (17 bp):
ATTAATTTCAATCCTTA
Found at i:13275752 original size:14 final size:15
Alignment explanation
Indices: 13275735--13275765 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13275725 TACTAAAATT
13275735 TAAATAT-TATTATC
1 TAAATATATATTATC
13275749 TAAATATATATTATC
1 TAAATATATATTATC
13275764 TA
1 TA
13275766 TAAATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAATATATATTATC
Found at i:13275867 original size:17 final size:17
Alignment explanation
Indices: 13275827--13275899 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
13275817 TAAATGAAAA
*
13275827 ATTAATTTAAATATAAGATA
1 ATTAA-TTAAATA-AA-ATT
*
13275847 ATTAAATAAATAAAATT
1 ATTAATTAAATAAAATT
* * *
13275864 ATTATTTAAATATATTT
1 ATTAATTAAATAAAATT
**
13275881 ATGGATTAAATAAAATT
1 ATTAATTAAATAAAATT
13275898 AT
1 AT
13275900 ATAGCTTGGT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
17 29 0.69
18 2 0.05
19 6 0.14
20 5 0.12
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (17 bp):
ATTAATTAAATAAAATT
Found at i:13283898 original size:15 final size:15
Alignment explanation
Indices: 13283863--13283901 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
13283853 CTCCAACTTG
**
13283863 TATTTTCTTTTTTTT
1 TATTTTCTTTTAATT
*
13283878 TTTTTTCTTTTAATT
1 TATTTTCTTTTAATT
13283893 TATTTTCTT
1 TATTTTCTT
13283902 GCCATATAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (15 bp):
TATTTTCTTTTAATT
Found at i:13286024 original size:44 final size:44
Alignment explanation
Indices: 13285961--13286048 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
13285951 AAACTTCTCT
*
13285961 TGCCAAGAATTAATTGTTGAGATACGACAGCCCAAAGCTTGATG
1 TGCCAAGAATTAATTGTTGAGATACGAAAGCCCAAAGCTTGATG
* * *
13286005 TGCCAAGCATTAATTGTTGAGCTATGAAAGCCCAAAGCTTGATG
1 TGCCAAGAATTAATTGTTGAGATACGAAAGCCCAAAGCTTGATG
13286049 AAAAGTCGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (44 bp):
TGCCAAGAATTAATTGTTGAGATACGAAAGCCCAAAGCTTGATG
Found at i:13286257 original size:129 final size:129
Alignment explanation
Indices: 13286027--13286285 Score: 509
Period size: 129 Copynumber: 2.0 Consensus size: 129
13286017 ATTGTTGAGC
13286027 TATGAAAGCCCAAAGCTTGATGAAAAGTCGAAGAATGGTTTGCATATGGGATGAAGCACACACTA
1 TATGAAAGCCCAAAGCTTGATGAAAAGTCGAAGAATGGTTTGCATATGGGATGAAGCACACACTA
13286092 GAGAAAAAAAAATGTAGGTAAAATCGAAAATTTTGATCTGATATAACGTTTAAGCAACCCACTT
66 GAGAAAAAAAAATGTAGGTAAAATCGAAAATTTTGATCTGATATAACGTTTAAGCAACCCACTT
*
13286156 TATGAAAGCCCAAAGCTTGGTGAAAAGTCGAAGAATGGTTTGCATATGGGATGAAGCACACACTA
1 TATGAAAGCCCAAAGCTTGATGAAAAGTCGAAGAATGGTTTGCATATGGGATGAAGCACACACTA
13286221 GAGAAAAAAAAATGTAGGTAAAATCGAAAATTTTGATCTGATATAACGTTTAAGCAACCCACTT
66 GAGAAAAAAAAATGTAGGTAAAATCGAAAATTTTGATCTGATATAACGTTTAAGCAACCCACTT
13286285 T
1 T
13286286 CTTACATGAA
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 129 1.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.24
Consensus pattern (129 bp):
TATGAAAGCCCAAAGCTTGATGAAAAGTCGAAGAATGGTTTGCATATGGGATGAAGCACACACTA
GAGAAAAAAAAATGTAGGTAAAATCGAAAATTTTGATCTGATATAACGTTTAAGCAACCCACTT
Found at i:13288558 original size:3 final size:3
Alignment explanation
Indices: 13288550--13288588 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
13288540 TTCATTCAAA
13288550 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13288589 TATTATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13288593 original size:3 final size:3
Alignment explanation
Indices: 13288587--13288624 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
13288577 AATAATAATA
13288587 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13288625 TTTTATATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:13288630 original size:7 final size:8
Alignment explanation
Indices: 13288587--13288630 Score: 54
Period size: 9 Copynumber: 5.2 Consensus size: 8
13288577 AATAATAATA
13288587 ATTATTATT
1 ATTATT-TT
13288596 ATTATTATT
1 ATTATT-TT
13288605 ATTATTATT
1 ATTATT-TT
13288614 ATTATTTT
1 ATTATTTT
13288622 ATT-TTTT
1 ATTATTTT
13288629 AT
1 AT
13288631 ATTGTTTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.17
8 5 0.14
9 24 0.69
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
ATTATTTT
Found at i:13288813 original size:14 final size:14
Alignment explanation
Indices: 13288796--13288823 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13288786 ATTTATCATT
13288796 TTTTATTTTATTTA
1 TTTTATTTTATTTA
13288810 TTTTATTTTATTTA
1 TTTTATTTTATTTA
13288824 GCAAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:13288921 original size:3 final size:3
Alignment explanation
Indices: 13288913--13288939 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13288903 CCTTAAATAT
13288913 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
13288940 ATTTTTTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13289081 original size:15 final size:14
Alignment explanation
Indices: 13289057--13289115 Score: 54
Period size: 15 Copynumber: 4.4 Consensus size: 14
13289047 CAATAATATC
*
13289057 ATAAAAATAAAAAA
1 ATAAACATAAAAAA
13289071 GATAAACAT-AAAAA
1 -ATAAACATAAAAAA
13289085 AT-AACAT--AAAA
1 ATAAACATAAAAAA
*
13289096 ATCAACATAAAATAA
1 ATAAACATAAAA-AA
13289111 ATAAA
1 ATAAA
13289116 ATCAAAATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 6 0.16
12 10 0.26
13 2 0.05
14 7 0.18
15 13 0.34
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.17
Consensus pattern (14 bp):
ATAAACATAAAAAA
Found at i:13289087 original size:22 final size:23
Alignment explanation
Indices: 13289059--13289116 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
13289049 ATAATATCAT
*
13289059 AAAAATAAAAAAGATAAACAT-A
1 AAAAATAAAAAAAATAAACATAA
*
13289081 AAAAATAACATAAAAATCAACATAA
1 AAAAATAA-A-AAAAATAAACATAA
13289106 AATAAATAAAA
1 AA-AAATAAAA
13289117 TCAAAATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
22 8 0.27
23 1 0.03
24 11 0.37
25 4 0.13
26 6 0.20
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.16
Consensus pattern (23 bp):
AAAAATAAAAAAAATAAACATAA
Found at i:13289092 original size:12 final size:13
Alignment explanation
Indices: 13289075--13289107 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
13289065 AAAAAAGATA
13289075 AACATAAAAAAT-
1 AACATAAAAAATC
13289087 AACAT-AAAAATC
1 AACATAAAAAATC
13289099 AACATAAAA
1 AACATAAAA
13289108 TAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.32
12 10 0.53
13 3 0.16
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (13 bp):
AACATAAAAAATC
Found at i:13289112 original size:26 final size:24
Alignment explanation
Indices: 13289059--13289148 Score: 76
Period size: 26 Copynumber: 3.7 Consensus size: 24
13289049 ATAATATCAT
* *
13289059 AAAAAT-AAA-AAAGATAAACATA
1 AAAAATAAAATAAAAATCAACATA
*
13289081 AAAAATAACATAAAAATCAACATAA
1 AAAAATAAAATAAAAATCAACAT-A
* *
13289106 AATAAATAAAATCAAAATCAAAATA
1 AA-AAATAAAATAAAAATCAACATA
*
13289131 GAAAATAGAAAATAAAAA
1 -AAAA-ATAAAATAAAAA
13289149 AAAAAAGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
22 6 0.11
23 2 0.04
24 10 0.19
25 6 0.11
26 30 0.56
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.16
Consensus pattern (24 bp):
AAAAATAAAATAAAAATCAACATA
Found at i:13290094 original size:14 final size:15
Alignment explanation
Indices: 13290077--13290106 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13290067 AATAATAATA
13290077 ATAT-AAACAAAATT
1 ATATCAAACAAAATT
13290091 ATATCAAACAAAATT
1 ATATCAAACAAAATT
13290106 A
1 A
13290107 ATGCCTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (15 bp):
ATATCAAACAAAATT
Found at i:13290288 original size:40 final size:40
Alignment explanation
Indices: 13290244--13290410 Score: 166
Period size: 40 Copynumber: 4.2 Consensus size: 40
13290234 AGAAAATTTG
* * *
13290244 AAAGGCTCATT-TAAACAGAGGCTATGAAACTTCAAATTCA
1 AAAGGCTC-TTCTGAACAGAGGCAATGAAACTTTAAATTCA
* *
13290284 AAAGGCTTTTCTGACCAGAGGCAATGAAACTTTAAATTCA
1 AAAGGCTCTTCTGAACAGAGGCAATGAAACTTTAAATTCA
* *
13290324 GAAGGCTCTTCT-AACTAGAGGTAATGAAACTTTAAACGTT--
1 AAAGGCTCTTCTGAAC-AGAGGCAATGAAACTTTAAA--TTCA
* *
13290364 AAAGGCTCCTT-TGACCAGAGGCAATG-AACTTTAAATTTA
1 AAAGGCT-CTTCTGAACAGAGGCAATGAAACTTTAAATTCA
13290403 AAAGGCTC
1 AAAGGCTC
13290411 CTCTCACTAT
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
37 2 0.02
38 1 0.01
39 20 0.19
40 77 0.72
41 5 0.05
42 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (40 bp):
AAAGGCTCTTCTGAACAGAGGCAATGAAACTTTAAATTCA
Found at i:13290505 original size:73 final size:72
Alignment explanation
Indices: 13290367--13290508 Score: 185
Period size: 73 Copynumber: 2.0 Consensus size: 72
13290357 AAACGTTAAA
* * ** * * * *
13290367 GGCTCCTTTGACCAGAGGCAATGAACTTTAAATTTAAAAGGCTCCTCTCACTATAGGCAACGAAC
1 GGCTCCTTTAACCAAAGGCAACAAACTTTAAATTTAAAAAGCTCCTCTAACCAAAGGCAACGAAC
13290432 TTTACAT
66 TTTACAT
* *
13290439 GGCTCTTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAAGCTCCTCTAACCAAAGGCAATGAA
1 GGCTCCTTTAACCAAAGGCAACAAACTTTAAAT-TTAAAAAGCTCCTCTAACCAAAGGCAACGAA
13290504 CTTTA
65 CTTTA
13290509 AATTAAAAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
72 28 0.47
73 31 0.53
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.27
Consensus pattern (72 bp):
GGCTCCTTTAACCAAAGGCAACAAACTTTAAATTTAAAAAGCTCCTCTAACCAAAGGCAACGAAC
TTTACAT
Found at i:13290680 original size:39 final size:39
Alignment explanation
Indices: 13290636--13290733 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 39
13290626 GTAACAAAAC
* *
13290636 TTTAAATGGCTTCTTTGACTAAAGACAATGAACTTTAAA
1 TTTAAAAGGCTTCTTTGACTAAAGACAACGAACTTTAAA
* **
13290675 TTTAAAAGGC-TCATCTGACTAAAGGTAACGAACTTTAAA
1 TTTAAAAGGCTTC-TTTGACTAAAGACAACGAACTTTAAA
*
13290714 TGTTAAAAGGCTCCTTTGAC
1 T-TTAAAAGGCTTCTTTGAC
13290734 CAGAGCTAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
38 2 0.04
39 32 0.65
40 14 0.29
41 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (39 bp):
TTTAAAAGGCTTCTTTGACTAAAGACAACGAACTTTAAA
Found at i:13290749 original size:40 final size:40
Alignment explanation
Indices: 13290666--13290755 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 40
13290656 AAAGACAATG
* * *
13290666 AACTTTAAAT-TTAAAAGGCTCATCTGACTAAAGGTAACG
1 AACTTTAAATGTTAAAAGGCTCATCTGACCAAAGCTAACA
* * *
13290705 AACTTTAAATGTTAAAAGGCTCCTTTGACCAGAGCTAACA
1 AACTTTAAATGTTAAAAGGCTCATCTGACCAAAGCTAACA
13290745 AACTTTAAATG
1 AACTTTAAATG
13290756 GCTTTTTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 10 0.23
40 34 0.77
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (40 bp):
AACTTTAAATGTTAAAAGGCTCATCTGACCAAAGCTAACA
Found at i:13302907 original size:18 final size:19
Alignment explanation
Indices: 13302886--13302923 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13302876 TTTATTGTGA
13302886 TTACT-TTT-TTGTTATTAT
1 TTACTATTTATTGTT-TTAT
13302904 TTACTATTTATTGTTTTAT
1 TTACTATTTATTGTTTTAT
13302923 T
1 T
13302924 ATTCAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.71
Consensus pattern (19 bp):
TTACTATTTATTGTTTTAT
Found at i:13304499 original size:3 final size:3
Alignment explanation
Indices: 13304488--13304544 Score: 105
Period size: 3 Copynumber: 18.7 Consensus size: 3
13304478 TTTTAGAGAT
13304488 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13304534 TAA TAA TAA TA
1 TAA TAA TAA TA
13304545 TAAACAAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13304559 original size:14 final size:15
Alignment explanation
Indices: 13304542--13304570 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13304532 AATAATAATA
13304542 ATAT-AAACAAAATT
1 ATATCAAACAAAATT
13304556 ATATCAAACAAAATT
1 ATATCAAACAAAATT
13304571 GGTGCCTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (15 bp):
ATATCAAACAAAATT
Found at i:13305381 original size:31 final size:31
Alignment explanation
Indices: 13305338--13305412 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
13305328 TATAAATGAA
*
13305338 ATCAAATGAAATCCATAC-GCATTAATATTTT
1 ATCAAATGAAAT-CAAACAGCATTAATATTTT
* *
13305369 ATCAAATAAAATCAAACATGTATTAATATTTT
1 ATCAAATGAAATCAAACA-GCATTAATATTTT
*
13305401 ACCAAATGAAAT
1 ATCAAATGAAAT
13305413 TAAATGAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 4 0.11
31 11 0.30
32 22 0.59
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.33
Consensus pattern (31 bp):
ATCAAATGAAATCAAACAGCATTAATATTTT
Found at i:13308585 original size:2 final size:2
Alignment explanation
Indices: 13308578--13308609 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13308568 ATGAAGTTAG
*
13308578 AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13308610 TTGAGACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13310878 original size:11 final size:11
Alignment explanation
Indices: 13310864--13310891 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
13310854 CTATAAAATT
13310864 TATATATTAAA
1 TATATATTAAA
13310875 TATATATTAAA
1 TATATATTAAA
13310886 TATATA
1 TATATA
13310892 CTCAATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TATATATTAAA
Found at i:13315551 original size:10 final size:10
Alignment explanation
Indices: 13315536--13315565 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
13315526 ATCAAAATTT
13315536 TATATTTTAA
1 TATATTTTAA
13315546 TATATTTTAA
1 TATATTTTAA
13315556 T-TATTTTAA
1 TATATTTTAA
13315565 T
1 T
13315566 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:13315562 original size:9 final size:9
Alignment explanation
Indices: 13315538--13315567 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
13315528 CAAAATTTTA
13315538 TATTTTAAT
1 TATTTTAAT
13315547 ATATTTTAAT
1 -TATTTTAAT
13315557 TATTTTAAT
1 TATTTTAAT
13315566 TA
1 TA
13315568 ATAAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:13317524 original size:27 final size:27
Alignment explanation
Indices: 13317436--13317524 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
13317426 TCTTTTAAGG
*
13317436 AAAATTGATACTTTCAACTTTTCCCTA
1 AAAATTGATACTTTCAACTTTTTCCTA
** * * *
13317463 AAAA-T-ATTTTTTGGAAATTTATTCTTAA
1 AAAATTGATACTTT-CAACTTT-TTCCT-A
13317491 GGAAAATTGATACTTTCAACTTTTTCCTA
1 --AAAATTGATACTTTCAACTTTTTCCTA
13317520 AAAAT
1 AAAAT
13317525 ATTTTTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 14
0.64 0.16 0.20
Matches are distributed among these distances:
25 5 0.11
26 6 0.14
27 12 0.27
28 1 0.02
29 1 0.02
30 8 0.18
31 6 0.14
32 5 0.11
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTTCCTA
Found at i:13317587 original size:117 final size:119
Alignment explanation
Indices: 13317368--13317649 Score: 487
Period size: 117 Copynumber: 2.4 Consensus size: 119
13317358 ATTTTTTTAG
*
13317368 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTTGGAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTTGGAAATTTA-TTTTC--TTA
13317433 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTCTTAA
62 AGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTCTTAA
*
13317491 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTTGGAAATTTA-TTTC-TAAGGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTTCTTAAGGA
*
13317554 AAATTGATACTTTCAATTTTTCCCTAAAAATATTTTTTGGAAATTTATTCTTAA
66 AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTCTTAA
13317608 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
13317650 AGAATTTTTT
Statistics
Matches: 155, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
117 100 0.65
120 4 0.03
122 18 0.12
123 33 0.21
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (119 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTTCTTAAGGA
AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTCTTAA
Found at i:13317656 original size:57 final size:58
Alignment explanation
Indices: 13317368--13317649 Score: 417
Period size: 57 Copynumber: 4.7 Consensus size: 58
13317358 ATTTTTTTAG
*
13317368 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTTGGAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTTTGGAAATTTA---TTC--TTA
13317433 A
58 A
13317434 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTATTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTCTTAA
*
13317491 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTTGGAAATTTATT-TCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTGGAAATTTATTCT-TAA
*
13317551 GGAAAATTGATACTTTCAATTTTTCCCTAAAAATA-TTTTTTGGAAATTTATTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTCTTAA
13317608 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
13317650 AGAATTTTTT
Statistics
Matches: 205, Mismatches: 5, Indels: 20
0.89 0.02 0.09
Matches are distributed among these distances:
57 92 0.45
58 7 0.03
59 4 0.02
60 53 0.26
62 15 0.07
66 34 0.17
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTCTTAA
Found at i:13317759 original size:8 final size:7
Alignment explanation
Indices: 13317729--13317779 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
13317719 CTAATCTAAT
13317729 AAATAAA
1 AAATAAA
13317736 AAATAAA
1 AAATAAA
13317743 AAAT--A
1 AAATAAA
13317748 AAATAAA
1 AAATAAA
13317755 CAAATAAA
1 -AAATAAA
*
13317763 CAAAGAAA
1 -AAATAAA
13317771 AAA-AAA
1 AAATAAA
13317777 AAA
1 AAA
13317780 AACCTGTCGC
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 5 0.12
6 6 0.15
7 15 0.38
8 14 0.35
ACGTcount: A:0.84, C:0.04, G:0.02, T:0.10
Consensus pattern (7 bp):
AAATAAA
Found at i:13317803 original size:12 final size:12
Alignment explanation
Indices: 13317786--13317812 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13317776 AAAAAACCTG
13317786 TCGCGGCTCGGC
1 TCGCGGCTCGGC
13317798 TCGCGGCTCGGC
1 TCGCGGCTCGGC
13317810 TCG
1 TCG
13317813 GCTCAAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.41, G:0.41, T:0.19
Consensus pattern (12 bp):
TCGCGGCTCGGC
Found at i:13318123 original size:19 final size:19
Alignment explanation
Indices: 13318099--13318192 Score: 57
Period size: 20 Copynumber: 4.7 Consensus size: 19
13318089 GAACACCGGT
13318099 GCCGGATTCTGGGAAAGTC
1 GCCGGATTCTGGGAAAGTC
* *
13318118 GCCGGAATCT-GGAAATTTC
1 GCCGGATTCTGGGAAA-GTC
*
13318137 GCCGGAATT-TGGCCGGAAGTC
1 GCCGG-ATTCTGG--GAAAGTC
* *
13318158 GGCCGGTTTCTGGGAATATTC
1 -GCCGGATTCTGGGAA-AGTC
* *
13318179 GTCGGTTTCTGGGA
1 GCCGGATTCTGGGA
13318193 TTCCTCGCGC
Statistics
Matches: 58, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
18 5 0.09
19 17 0.29
20 18 0.31
21 7 0.12
22 11 0.19
ACGTcount: A:0.18, C:0.20, G:0.35, T:0.27
Consensus pattern (19 bp):
GCCGGATTCTGGGAAAGTC
Found at i:13318816 original size:9 final size:9
Alignment explanation
Indices: 13318769--13318839 Score: 65
Period size: 9 Copynumber: 7.9 Consensus size: 9
13318759 AATCTAATAA
*
13318769 AAAATAAAT
1 AAAATACAT
*
13318778 -AAATAAAT
1 AAAATACAT
*
13318786 AAATATATAT
1 AAA-ATACAT
*
13318796 ATAATA-AT
1 AAAATACAT
13318804 AAAATACAT
1 AAAATACAT
13318813 AAAATACAT
1 AAAATACAT
*
13318822 AAAATACAA
1 AAAATACAT
13318831 AATAATACA
1 AA-AATACA
13318840 GGACAAATTG
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
8 15 0.28
9 26 0.48
10 13 0.24
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (9 bp):
AAAATACAT
Found at i:13319006 original size:1 final size:1
Alignment explanation
Indices: 13319002--13319054 Score: 70
Period size: 1 Copynumber: 53.0 Consensus size: 1
13318992 ATTTTTTTGG
* * * *
13319002 TTTTTTTTGTTTTTTTTTTGTTTTTTTTTTTTGTTTTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13319055 ACCAAAGCTC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (1 bp):
T
Found at i:13319007 original size:9 final size:8
Alignment explanation
Indices: 13318993--13319053 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 8
13318983 CAACTCAACA
13318993 TTTTTTTGG
1 TTTTTTT-G
13319002 TTTTTTTTG
1 -TTTTTTTG
13319011 TTTTTTT-
1 TTTTTTTG
*
13319018 TTTGTTT-
1 TTTTTTTG
13319025 TTTTTTT-
1 TTTTTTTG
*
13319032 TTGTTTT-
1 TTTTTTTG
13319039 TTTTTTTG
1 TTTTTTTG
13319047 TTTTTTT
1 TTTTTTT
13319054 TACCAAAGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
7 24 0.52
8 14 0.30
9 1 0.02
10 7 0.15
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (8 bp):
TTTTTTTG
Found at i:13319008 original size:12 final size:12
Alignment explanation
Indices: 13318993--13319054 Score: 76
Period size: 12 Copynumber: 5.4 Consensus size: 12
13318983 CAACTCAACA
13318993 TTTTTTTGG--T
1 TTTTTTTGGTTT
13319003 TTTTTTT-GTTT
1 TTTTTTTGGTTT
*
13319014 TTTTTTTGTTTT
1 TTTTTTTGGTTT
*
13319026 TTTTTTTTGTTT
1 TTTTTTTGGTTT
*
13319038 TTTTTTTTGTTT
1 TTTTTTTGGTTT
13319050 TTTTT
1 TTTTT
13319055 ACCAAAGCTC
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
9 1 0.02
10 7 0.15
11 8 0.17
12 30 0.65
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (12 bp):
TTTTTTTGGTTT
Found at i:13319009 original size:11 final size:11
Alignment explanation
Indices: 13318993--13319054 Score: 81
Period size: 11 Copynumber: 5.5 Consensus size: 11
13318983 CAACTCAACA
*
13318993 TTTTTTTG-GT
1 TTTTTTTGTTT
13319003 TTTTTTTGTTT
1 TTTTTTTGTTT
13319014 TTTTTTTGTTTTT
1 TTTTTTTG--TTT
13319027 TTTTTTTGTTTT
1 TTTTTTTG-TTT
13319039 TTTTTTTGTTT
1 TTTTTTTGTTT
13319050 TTTTT
1 TTTTT
13319055 ACCAAAGCTC
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
10 8 0.17
11 17 0.35
12 12 0.25
13 11 0.23
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:13319029 original size:24 final size:25
Alignment explanation
Indices: 13319002--13319054 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
13318992 ATTTTTTTGG
13319002 TTTTTTTTG-TTTTTTTTTTGTTTT
1 TTTTTTTTGTTTTTTTTTTTGTTTT
13319026 TTTTTTTTGTTTTTTTTTTTGTTTT
1 TTTTTTTTGTTTTTTTTTTTGTTTT
13319051 TTTT
1 TTTT
13319055 ACCAAAGCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (25 bp):
TTTTTTTTGTTTTTTTTTTTGTTTT
Found at i:13319198 original size:81 final size:80
Alignment explanation
Indices: 13319061--13319672 Score: 873
Period size: 81 Copynumber: 7.5 Consensus size: 80
13319051 TTTTACCAAA
*
13319061 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG-ACCAC
13319126 GACTTTGGAAAGTAAATT
63 GACTTTGGAAAGTAAATT
13319144 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG-ACCACG
*
13319208 ACTTTGGAAAATAAATT
64 ACTTTGGAAAGTAAATT
13319225 GCTCCTCTAAACAGAGGCAACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG-ACCACG
*
13319289 ACTTTGAAAAGTAAATT
64 ACTTTGGAAAGTAAATT
* *
13319306 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG-CAACG
1 GCTCCTCTAAACAGAGG--CAACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGACCACG
*
13319370 ACTTTGGAAAATAAATT
64 ACTTTGGAAAGTAAATT
13319387 GCTCCTCTAAACAGAGGCAACGAACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG-ACCACG
13319451 ACTTTGGAAAAGTAAATT
64 ACTTTGG-AAAGTAAATT
*
13319469 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGG-CAACG
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGACCACG
13319532 AAC-TTGGAAAAGTAAATT
64 -ACTTTGG-AAAGTAAATT
* *
13319550 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG-CAACG
1 GCTCCTCTAAACAGAGG--CAACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGACCACG
13319614 AAC-TTGGAAAAGTAAATT
64 -ACTTTGG-AAAGTAAATT
*
13319632 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAAT
1 GCTCCTCTAAACAGAGG--CAACGACTTTGGAAAAGTAAAT
13319673 ACTCCTAGAC
Statistics
Matches: 500, Mismatches: 14, Indels: 31
0.92 0.03 0.06
Matches are distributed among these distances:
79 33 0.07
80 5 0.01
81 240 0.48
82 132 0.26
83 87 0.17
84 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (80 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGACCACGAC
TTTGGAAAGTAAATT
Found at i:13319373 original size:162 final size:161
Alignment explanation
Indices: 13319061--13319672 Score: 968
Period size: 162 Copynumber: 3.8 Consensus size: 161
13319051 TTTTACCAAA
*
13319061 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCA--ACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
13319126 GACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGG--CAACGAAC-TTGGAAAAGTAAATTGCTC
63 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAGTAAATTGCTC
*
13319188 CTCTAAACAGAGGTACCACGACTTTGGAAAATAAATT
127 CTCTAAACAGAGG--CAACGACTTTGGAAAATAAATT
13319225 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
13319290 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTC
65 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTC
13319355 TAAACAGAGGCAACGACTTTGGAAAATAAATT
130 TAAACAGAGGCAACGACTTTGGAAAATAAATT
*
13319387 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGA
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
*
13319452 CTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCT
65 CTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCT
13319516 CTAAACAGAGGCAACGAAC-TTGGAAAAGTAAATT
129 CTAAACAGAGGCAACG-ACTTTGGAAAA-TAAATT
*
13319550 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
1 GCTCCTCTAAACAGAGG--CAACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
13319613 GAACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAAT
63 G-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAAT
13319673 ACTCCTAGAC
Statistics
Matches: 426, Mismatches: 10, Indels: 24
0.93 0.02 0.05
Matches are distributed among these distances:
162 205 0.48
163 112 0.26
164 75 0.18
165 34 0.08
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (161 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC
TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCT
AAACAGAGGCAACGACTTTGGAAAATAAATT
Found at i:13319573 original size:123 final size:121
Alignment explanation
Indices: 13319061--13319672 Score: 1016
Period size: 123 Copynumber: 5.0 Consensus size: 121
13319051 TTTTACCAAA
* * *
13319061 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
*
13319126 GACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
64 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
13319184 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-
*
13319248 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
65 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACGAACTTGGAAAAGTAAATT
13319306 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
*
13319371 CTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
66 CTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
13319427 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
13319492 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
64 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
13319550 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-
* *
13319615 ACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAGTAAAT
65 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAACGAAC-TTGGAAAAGTAAAT
13319673 ACTCCTAGAC
Statistics
Matches: 468, Mismatches: 8, Indels: 25
0.93 0.02 0.05
Matches are distributed among these distances:
120 7 0.01
121 116 0.25
122 142 0.30
123 185 0.40
124 18 0.04
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (121 bp):
GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
Found at i:13320943 original size:25 final size:25
Alignment explanation
Indices: 13320904--13320969 Score: 96
Period size: 25 Copynumber: 2.5 Consensus size: 25
13320894 AATTTGAATC
13320904 TCTTTTTTTCATTTTCTCATTTTTTCCT
1 TCTTTTTTT--TTTTCTCATTTTTT-CT
*
13320932 TCTTTTTTTTTTTCTCATTTTTTTT
1 TCTTTTTTTTTTTCTCATTTTTTCT
13320957 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
13320970 TTTTTCATCC
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
25 14 0.38
26 14 0.38
28 9 0.24
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (25 bp):
TCTTTTTTTTTTTCTCATTTTTTCT
Found at i:13320955 original size:29 final size:28
Alignment explanation
Indices: 13320904--13320977 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
13320894 AATTTGAATC
*
13320904 TCTTTTTTTCATTTTCTCA--TTTTTTCCT
1 TCTTTTTTT--TTTTCTCATTTTTTTTTCT
13320932 TCTTTTTTTTTTTCTCATTTTTTTTTCT
1 TCTTTTTTTTTTTCTCATTTTTTTTTCT
* *
13320960 TTTTTTTTTTTTTTTCAT
1 TCTTTTTTTTTTTCTCAT
13320978 CCATTGTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
26 8 0.20
28 33 0.80
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (28 bp):
TCTTTTTTTTTTTCTCATTTTTTTTTCT
Found at i:13320964 original size:26 final size:27
Alignment explanation
Indices: 13320904--13320970 Score: 93
Period size: 26 Copynumber: 2.5 Consensus size: 27
13320894 AATTTGAATC
*
13320904 TCTTTTTTTCATTTTCTCATTTTTTCCT
1 TCTTTTTTT-TTTTTCTCATTTTTTCCT
*
13320932 TC-TTTTTTTTTTTCTCATTTTTT-TT
1 TCTTTTTTTTTTTTCTCATTTTTTCCT
13320957 TCTTTTTTTTTTTT
1 TCTTTTTTTTTTTT
13320971 TTTTCATCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
25 3 0.08
26 25 0.69
27 6 0.17
28 2 0.06
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (27 bp):
TCTTTTTTTTTTTTCTCATTTTTTCCT
Found at i:13324941 original size:27 final size:27
Alignment explanation
Indices: 13324911--13324999 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
13324901 TCTTTTAAGG
13324911 AAAATTGATACTTTCAACTTTTTCCTA
1 AAAATTGATACTTTCAACTTTTTCCTA
** * * *
13324938 AAAA-T-ATTTTTTGGAAATTTATTCTTAA
1 AAAATTGATACTTT-CAACTTT-TTCCT-A
*
13324966 GGAAAATTGATACTTTCAACTTTTCCCTA
1 --AAAATTGATACTTTCAACTTTTTCCTA
13324995 AAAAT
1 AAAAT
13325000 ATTTTTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 14
0.64 0.16 0.20
Matches are distributed among these distances:
25 5 0.11
26 6 0.14
27 13 0.30
28 1 0.02
29 1 0.02
30 7 0.16
31 6 0.14
32 5 0.11
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTTCCTA
Found at i:13325082 original size:117 final size:118
Alignment explanation
Indices: 13324786--13325124 Score: 522
Period size: 117 Copynumber: 2.8 Consensus size: 118
13324776 TTTTTTAGGA
* ** *
13324786 AAAATTGATACTTTCAACTTTTCCTCAAAAACCCCTTTTTTGAAAATTTATT-TCTAAGGAAAAT
1 AAAATTGATACTTTCAATTTTTCCT-AAAAA--TATTTTTTGGAAATTTATTCT-TAAGGAAAAT
*
13324850 TGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTTGGAAATTTATTTTTCTTTTAAGG
62 TGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTTGGAAATTTA-TTTTC--TTAAGG
13324911 AAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTGGAAATTTATTCTTAAGGAAAATTGA
1 AAAATTGATACTTTCAA-TTTTTCCTAAAAATATTTTTTGGAAATTTATTCTTAAGGAAAATTGA
13324976 TACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTA-TTTC-TAAGG
65 TACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTTCTTAAGG
13325028 AAAATTGATACTTTCAATTTTTCCCTAAAAATATTTTTTGGAAATTTATTCTTAAGGAAAATTGA
1 AAAATTGATACTTTCAATTTTT-CCTAAAAATATTTTTTGGAAATTTATTCTTAAGGAAAATTGA
13325093 TACTTTCAACTTTTCCCTAAAAATATTTTTTT
65 TACTTTCAACTTTTCCCTAAAAATATTTTTTT
13325125 AGAATTTTTT
Statistics
Matches: 206, Mismatches: 5, Indels: 14
0.92 0.02 0.06
Matches are distributed among these distances:
116 5 0.02
117 96 0.47
120 4 0.02
122 18 0.09
123 53 0.26
124 1 0.00
125 22 0.11
126 7 0.03
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (118 bp):
AAAATTGATACTTTCAATTTTTCCTAAAAATATTTTTTGGAAATTTATTCTTAAGGAAAATTGAT
ACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTTCTTAAGG
Found at i:13325131 original size:57 final size:58
Alignment explanation
Indices: 13324786--13325124 Score: 454
Period size: 57 Copynumber: 5.7 Consensus size: 58
13324776 TTTTTTAGGA
*** *
13324786 AAAATTGATACTTTCAACTTTT-CCTCAAAAACCCCTTTTTTGAAAATTTATT-TCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAA-TATTTTTTTGGAAATTTATTCT-TAAGG
*
13324845 AAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTTGGAAATTTATTTTTCTTTTAAG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTTTGGAAATTTA---TTC--TTAAG
13324910 G
58 G
*
13324911 AAAATTGATACTTTCAACTTTTTCCTAAAAATA-TTTTTTGGAAATTTATTCTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTCTTAAGG
13324968 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATT-TCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTGGAAATTTATTCT-TAAGG
*
13325028 AAAATTGATACTTTCAATTTTTCCCTAAAAATA-TTTTTTGGAAATTTATTCTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTCTTAAGG
13325085 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
13325125 AGAATTTTTT
Statistics
Matches: 254, Mismatches: 10, Indels: 33
0.86 0.03 0.11
Matches are distributed among these distances:
57 92 0.36
58 7 0.03
59 31 0.12
60 56 0.22
61 14 0.06
62 15 0.06
64 2 0.01
66 36 0.14
67 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTCTTAAGG
Found at i:13325234 original size:8 final size:7
Alignment explanation
Indices: 13325204--13325259 Score: 57
Period size: 7 Copynumber: 8.3 Consensus size: 7
13325194 CTAATCTAAT
13325204 AAATAAA
1 AAATAAA
13325211 AAATAAA
1 AAATAAA
13325218 AAAT--A
1 AAATAAA
13325223 AAATAAA
1 AAATAAA
13325230 CAAATAAA
1 -AAATAAA
*
13325238 CAAAGAAA
1 -AAATAAA
13325246 AAA-AAA
1 AAATAAA
13325252 AAA-AAA
1 AAATAAA
13325258 AA
1 AA
13325260 CCTGTCGCGG
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
5 5 0.11
6 11 0.24
7 15 0.33
8 14 0.31
ACGTcount: A:0.86, C:0.04, G:0.02, T:0.09
Consensus pattern (7 bp):
AAATAAA
Found at i:13325281 original size:12 final size:12
Alignment explanation
Indices: 13325264--13325289 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13325254 AAAAAACCTG
13325264 TCGCGGCTCGGC
1 TCGCGGCTCGGC
13325276 TCGCGGCTCGGC
1 TCGCGGCTCGGC
13325288 TC
1 TC
13325290 AAGGAAGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.42, G:0.38, T:0.19
Consensus pattern (12 bp):
TCGCGGCTCGGC
Found at i:13326279 original size:9 final size:9
Alignment explanation
Indices: 13326232--13326303 Score: 67
Period size: 9 Copynumber: 8.0 Consensus size: 9
13326222 AATCTAATAA
*
13326232 AAAATAAAT
1 AAAATACAT
*
13326241 -AAATAAAT
1 AAAATACAT
*
13326249 AAATATATAT
1 AAA-ATACAT
*
13326259 ATAATA-AT
1 AAAATACAT
13326267 AAAATACAT
1 AAAATACAT
13326276 AAAATACAT
1 AAAATACAT
*
13326285 AAAATACAA
1 AAAATACAT
13326294 AATAATACAT
1 AA-AATACAT
13326304 GACAAATTGA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
8 15 0.28
9 26 0.48
10 13 0.24
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAATACAT
Found at i:13327127 original size:28 final size:31
Alignment explanation
Indices: 13327084--13327157 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 31
13327074 TATTTTGCAT
* *
13327084 TTAAATAAATCCTTAAAT-TTTAATTTAT-C
1 TTAAATAAGTCTTTAAATCTTTAATTTATAC
* *
13327113 -TCAATAAGTGTTT-AATCTTTAATTTATAC
1 TTAAATAAGTCTTTAAATCTTTAATTTATAC
13327142 TTAAATAAGTCTTTAA
1 TTAAATAAGTCTTTAA
13327158 TATAAATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
27 3 0.09
28 19 0.54
29 1 0.03
30 11 0.31
31 1 0.03
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.47
Consensus pattern (31 bp):
TTAAATAAGTCTTTAAATCTTTAATTTATAC
Found at i:13327250 original size:29 final size:31
Alignment explanation
Indices: 13327179--13327253 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 31
13327169 TTTTTGTTTG
13327179 AAAT-AAAGATTTATTTCGATACAAATTAAA
1 AAATAAAAGATTTATTTCGATACAAATTAAA
13327209 AAATAAAA-ATTTATTT-GAGTAC-AA-T-AA
1 AAATAAAAGATTTATTTCGA-TACAAATTAAA
13327236 AAATACAAAGATTTATTT
1 AAATA-AAAGATTTATTT
13327254 AAAATTGTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
27 7 0.17
28 4 0.10
29 12 0.29
30 15 0.37
31 3 0.07
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (31 bp):
AAATAAAAGATTTATTTCGATACAAATTAAA
Found at i:13327631 original size:32 final size:32
Alignment explanation
Indices: 13327595--13327708 Score: 85
Period size: 32 Copynumber: 3.6 Consensus size: 32
13327585 AGATTAGTAA
13327595 TATTAAATTAATATTTAATATTTAAATAACAT
1 TATTAAATTAATATTTAATATTTAAATAACAT
* * *
13327627 TATTATAA-TATTATTAAATA-TT-AA-AATAT
1 TATTA-AATTAATATTTAATATTTAAATAACAT
* * ** *
13327656 TCTTCAATTAATATTTAATAATAAAAATAGCAT
1 TATTAAATTAATATTTAAT-ATTTAAATAACAT
*
13327689 CA-TAATATTAATATTTAATA
1 TATTAA-ATTAATATTTAATA
13327709 AGAAAATATT
Statistics
Matches: 61, Mismatches: 14, Indels: 14
0.69 0.16 0.16
Matches are distributed among these distances:
28 2 0.03
29 16 0.26
30 3 0.05
31 2 0.03
32 20 0.33
33 18 0.30
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (32 bp):
TATTAAATTAATATTTAATATTTAAATAACAT
Found at i:13327804 original size:20 final size:20
Alignment explanation
Indices: 13327781--13327818 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
13327771 TTTCATGACC
13327781 AATAATATTAAAATATTAAA
1 AATAATATTAAAATATTAAA
13327801 AATAATATTAAAATATTA
1 AATAATATTAAAATATTA
13327819 CTCAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AATAATATTAAAATATTAAA
Found at i:13329636 original size:24 final size:24
Alignment explanation
Indices: 13329604--13329661 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
13329594 CTTTAGACAG
13329604 AAATTCCAGCGCTAATTGTTCATA
1 AAATTCCAGCGCTAATTGTTCATA
13329628 AAATTCCAGCGCTAATTGTTCATA
1 AAATTCCAGCGCTAATTGTTCATA
13329652 AAATTCCAGC
1 AAATTCCAGC
13329662 AATCAATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (24 bp):
AAATTCCAGCGCTAATTGTTCATA
Found at i:13329861 original size:16 final size:16
Alignment explanation
Indices: 13329840--13329875 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13329830 TTTAAATTTG
*
13329840 TTTAATATTTATAATA
1 TTTAATATTTAAAATA
*
13329856 TTTAATTTTTAAAATA
1 TTTAATATTTAAAATA
13329872 TTTA
1 TTTA
13329876 TTTAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTAATATTTAAAATA
Found at i:13331260 original size:3 final size:3
Alignment explanation
Indices: 13331252--13331279 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13331242 CAACACAAGT
13331252 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13331280 AAAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13333101 original size:23 final size:23
Alignment explanation
Indices: 13333075--13333128 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
13333065 TTATTATTAT
*
13333075 TAATAACAATTAAATATTTAT-CA
1 TAATAA-AATTAAACATTTATGCA
*
13333098 TAATAAATTTAAACATTTATGCA
1 TAATAAAATTAAACATTTATGCA
13333121 TAA-AAAAT
1 TAATAAAAT
13333129 ACTTTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (23 bp):
TAATAAAATTAAACATTTATGCA
Found at i:13333115 original size:22 final size:23
Alignment explanation
Indices: 13333075--13333128 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
13333065 TTATTATTAT
* *
13333075 TAATAACAATTAAATATTTAT-CA
1 TAATAA-ATTTAAACATTTATGCA
13333098 TAATAAATTTAAACATTTATGCA
1 TAATAAATTTAAACATTTATGCA
*
13333121 TAAAAAAT
1 TAATAAAT
13333129 ACTTTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (23 bp):
TAATAAATTTAAACATTTATGCA
Done.