Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 32 of 207
Found at i:9235214 original size:131 final size:131
Alignment explanation
Indices: 9235016--9235258 Score: 396
Period size: 131 Copynumber: 1.9 Consensus size: 131
9235006 TTGATGCGAT
* * * *
9235016 CTGCTCCACTACTCCTTAGGGAGATAGTAGTGGTGGCTTAAATCTGCTTCACTACTGTTTAGGAA
1 CTGCTCCACTACTCCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
*
9235081 GATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
66 GATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
9235146 C
131 C
*
9235147 CTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTCCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* * * *
9235212 GATGAGATTCGCTGTCTTCGATCTGCTTCACTACTGCTTAGGGAGAT
66 GATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
9235259 GAGATCCTTT
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 102 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (131 bp):
CTGCTCCACTACTCCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
GATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
C
Found at i:9235322 original size:131 final size:130
Alignment explanation
Indices: 9235016--9235330 Score: 323
Period size: 131 Copynumber: 2.4 Consensus size: 130
9235006 TTGATGCGAT
* * ** ** * *
9235016 CTGCTCCACTACTCCTTAGGGAGATAGTAGTGGTGGCTTAAATCTGCTTCACTACTGTTTAGGAA
1 CTGCTCCACTACT-CTTAGGGAGATAGGACTACTAACTCAAATCTGCTTCACTACTGCTTAGGAA
* *
9235081 GATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
65 GATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTAA
9235146 C
130 C
* ** *
9235147 CTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACT-CTTAGGGAGATAGGACTACTAACTCAAATCTGCTTCACTACTGCTTAGGAA
* * * * **
9235212 GATGAGATTCGCTGTCTTCGATCTGCTTCACTACTGCTTAGGGAGAT-GAGATCCT-TTAT-TTT
65 GATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAG-GAT-CTAACATCTTT
*
9235274 AAT
128 AAC
* * *
9235277 CTGCTCCACTGTAACT-TTAGGGAGATAGGATTACTAACTCCAATCTGCTCCACT
1 CTGCTCCAC--T-ACTCTTAGGGAGATAGGACTACTAACTCAAATCTGCTTCACT
9235331 GTAACCTCAG
Statistics
Matches: 158, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
130 14 0.09
131 138 0.87
132 3 0.02
133 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (130 bp):
CTGCTCCACTACTCTTAGGGAGATAGGACTACTAACTCAAATCTGCTTCACTACTGCTTAGGAAG
ATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTAAC
Found at i:9235467 original size:44 final size:43
Alignment explanation
Indices: 9235275--9235974 Score: 390
Period size: 44 Copynumber: 15.8 Consensus size: 43
9235265 CTTTATTTTA
* * ** * * *
9235275 ATCTGCTCCACTGTAACTTTAGGGAGATAGGATTACTAACTCCA
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGT-TCTTCG
* *
9235319 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTG---TTCTTCG
* * * * * * * * *
9235365 GTCTACTCCATTATAACCTCAGGGAGATAAGACTTGCATATTCA
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTG-TTCTTCG
* * * *
9235409 ACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCG
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGT-TCTTCG
* *
9235453 ATCTGCTCCTCTGTAA-TCTCAGGGAGATAAGATCTGAAATTCTTCG
1 ATCTGCTCCACTGTAACT-TCAGGGAGATAAGATTTG---TTCTTCG
* * * * * * *
9235499 GTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCA
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTG-TTCTTCG
* * * * * *
9235543 ACCTGCCCCACTGTAACTTCAGGGACATAAGGTTTGTGGCTTTG
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGT-TCTTCG
* **
9235587 ATCTGCTCCTCTGTAA-TCTCAGGGAGATAAGATCTAAAATTCTTCG
1 ATCTGCTCCACTGTAACT-TCAGGGAGATAAGAT-T--TGTTCTTCG
* * * * * *
9235633 ATCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCA
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTG-TTCTTCG
* * *
9235677 ACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTTGCTTCG
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTT-CTTCG
* **
9235721 ATCTGCTCCTCTGTAA-TCTCAGGGAGATAAGATCTAAAATTCTTCG
1 ATCTGCTCCACTGTAACT-TCAGGGAGATAAGAT-T--TGTTCTTCG
* * * * * * *
9235767 GTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCA
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTG-TTCTTCG
* * * * **
9235811 ACCTGCCCCACTGTAACTTCAGAGAGATAGGATCCTT-TAT-TTTA
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGAT--TTGT-TCTTCG
* * ** * *
9235855 ATCCGCTCCACTATAACTTCAGGGAGATTGGA-TAGTGTCCTCG
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGT-TCTTCG
* * * *
9235898 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTG-GCGTCA
1 ATCTGCTCCACTGTAACT-TCAGGGAGATAAGAT-T-TGTTCTTCG
*
9235942 ATCTGCTCCACTGTAACCTCAGGGAGATAAGAT
1 ATCTGCTCCACTGTAACTTCAGGGAGATAAGAT
9235975 CTGAAATATT
Statistics
Matches: 487, Mismatches: 136, Indels: 66
0.71 0.20 0.10
Matches are distributed among these distances:
41 1 0.00
42 3 0.01
43 30 0.06
44 308 0.63
45 6 0.01
46 134 0.28
47 5 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (43 bp):
ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTTCTTCG
Found at i:9235510 original size:90 final size:89
Alignment explanation
Indices: 9235416--9235932 Score: 328
Period size: 90 Copynumber: 5.8 Consensus size: 89
9235406 TCAACCTGCC
* *
9235416 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGATTTGT-GCTTCGATCTGCTCCACTGTAATCTCAGGGAGAT
9235481 AAGATCTGAAATTCTTCGGTCTACT
65 AAGATCTGAAATTCTTCGGTCTACT
* * * * * * *
9235506 CCACTGTAACCTCAGGGAGATAAGACTTGCAT-ATTCAACCTGCCCCACTGTAA-CTTCAGGGAC
1 CCACTGTAACTTCAGGGAGATAAGATTTG--TGCTTCGATCTGCTCCACTGTAATC-TCAGGGAG
* * * * * *
9235569 ATAAGGTTTG---TGGCTTTGATCTGCT
63 ATAAGATCTGAAAT-TCTTCGGTCTACT
* ** * * *
9235594 CCTCTGTAA-TCTCAGGGAGATAAGATCTAAAATTCTTCGATCTACTCCACTGTAACCTCAGGGA
1 CCACTGTAACT-TCAGGGAGATAAGAT-T--TGTGCTTCGATCTGCTCCACTGTAATCTCAGGGA
* ** * *
9235658 GATAAGA-CTTGCATATTCAAC---CTGCC
62 GATAAGATC-TG-AAATTCTTCGGTCTACT
* *
9235684 CCACTGTAACTTCAGGGAGATAAGGTTTGTTGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGATTTG-TGCTTCGATCTGCTCCACTGTAATCTCAGGGAGAT
*
9235749 AAGATCTAAAATTCTTCGGTCTACT
65 AAGATCTGAAATTCTTCGGTCTACT
* * * * * * *
9235774 CCACTGTAACCTCAGGGAGATAAGACTTGCAT-ATTCAACCTGCCCCACTGTAA-CTTCAGAGAG
1 CCACTGTAACTTCAGGGAGATAAGATTTG--TGCTTCGATCTGCTCCACTGTAATC-TCAGGGAG
* ** ** **
9235837 ATAGGATCCT-TTATT-TT-AATCCGCT
63 ATAAGAT-CTGAAATTCTTCGGTCTACT
* ** * * *
9235862 CCACTATAACTTCAGGGAGATTGGA-TAGTGTCCTCGATCTGCTCCGCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGATTTGTG-CTTCGATCTGCTCCACTGTAATCTCAGGGAGAT
9235926 AAGATCT
65 AAGATCT
9235933 CTGGCGTCAA
Statistics
Matches: 323, Mismatches: 77, Indels: 58
0.71 0.17 0.13
Matches are distributed among these distances:
85 1 0.00
86 2 0.01
87 37 0.11
88 93 0.29
89 8 0.02
90 174 0.54
91 5 0.02
92 1 0.00
93 1 0.00
94 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (89 bp):
CCACTGTAACTTCAGGGAGATAAGATTTGTGCTTCGATCTGCTCCACTGTAATCTCAGGGAGATA
AGATCTGAAATTCTTCGGTCTACT
Found at i:9235882 original size:134 final size:134
Alignment explanation
Indices: 9235319--9235839 Score: 943
Period size: 134 Copynumber: 3.9 Consensus size: 134
9235309 ACTAACTCCA
* * * * *
9235319 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCATTATAACCT
1 ATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCT
9235384 CAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGC
66 CAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGC
9235449 TTCG
131 TTCG
*
9235453 ATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCT
1 ATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCT
*
9235518 CAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGACATAAGGTTTGTGGC
66 CAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGC
*
9235583 TTTG
131 TTCG
*
9235587 ATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGATCTACTCCACTGTAACCT
1 ATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCT
*
9235652 CAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTTGC
66 CAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGC
9235717 TTCG
131 TTCG
9235721 ATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCT
1 ATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCT
*
9235786 CAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGAGAGATA
66 CAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAGATA
9235840 GGATCCTTTA
Statistics
Matches: 374, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 374 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (134 bp):
ATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCT
CAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGC
TTCG
Found at i:9237236 original size:6 final size:6
Alignment explanation
Indices: 9237225--9237260 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
9237215 GCCTCTCAAT
9237225 TTTTCA TTTTCA TTTTTCA TTTTCA TTTTTCA TTTT
1 TTTTCA TTTTCA -TTTTCA TTTTCA -TTTTCA TTTT
9237261 TTTGACTCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTCA
Found at i:9237241 original size:7 final size:7
Alignment explanation
Indices: 9237223--9237261 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
9237213 TAGCCTCTCA
9237223 ATTTTTC
1 ATTTTTC
9237230 A-TTTTC
1 ATTTTTC
9237236 ATTTTTC
1 ATTTTTC
9237243 A-TTTTC
1 ATTTTTC
9237249 ATTTTTC
1 ATTTTTC
9237256 ATTTTT
1 ATTTTT
9237262 TTGACTCAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 12 0.40
7 18 0.60
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTTC
Found at i:9237241 original size:13 final size:13
Alignment explanation
Indices: 9237223--9237260 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
9237213 TAGCCTCTCA
9237223 ATTTTTCATTTTC
1 ATTTTTCATTTTC
9237236 ATTTTTCATTTTC
1 ATTTTTCATTTTC
9237249 ATTTTTCATTTT
1 ATTTTTCATTTT
9237261 TTTGACTCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTTTCATTTTC
Found at i:9238262 original size:23 final size:23
Alignment explanation
Indices: 9238206--9238262 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
9238196 TTCATTTTAA
*
9238206 TTTTGATTTTTTTCTTCTTTCTT
1 TTTTGATTTTTTTCTTATTTCTT
9238229 TTTTG-TGTTTTTT-TTATTT-TGAT
1 TTTTGAT-TTTTTTCTTATTTCT--T
9238252 TTTTGATTTTT
1 TTTTGATTTTT
9238263 CATTTCCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
21 1 0.03
22 6 0.21
23 21 0.72
24 1 0.03
ACGTcount: A:0.07, C:0.05, G:0.09, T:0.79
Consensus pattern (23 bp):
TTTTGATTTTTTTCTTATTTCTT
Found at i:9238281 original size:31 final size:31
Alignment explanation
Indices: 9238246--9238304 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
9238236 TTTTTTTTAT
9238246 TTTGATTTTTGATTTTTC-ATTTCCTTTTGAC
1 TTTGA-TTTTGATTTTTCTATTTCCTTTTGAC
*
9238277 TTTGATTTTGATTTTTCTTTTTCCTTTT
1 TTTGATTTTGATTTTTCTATTTCCTTTT
9238305 TTGATCTGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.10, C:0.12, G:0.08, T:0.69
Consensus pattern (31 bp):
TTTGATTTTGATTTTTCTATTTCCTTTTGAC
Found at i:9242240 original size:21 final size:21
Alignment explanation
Indices: 9242202--9242241 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9242192 ATGCGTGCTA
*
9242202 TAAAATAAAAGAGGTATATTT
1 TAAAATAAAAGAGATATATTT
9242223 TAAAATATAAAGA-ATATAT
1 TAAAATA-AAAGAGATATAT
9242242 ATATATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAAATAAAAGAGATATATTT
Found at i:9242654 original size:14 final size:15
Alignment explanation
Indices: 9242627--9242659 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
9242617 CGAACCAAAT
9242627 AAAACAAAACTAAAA
1 AAAACAAAACTAAAA
*
9242642 AAAAGAAAA-TAAAA
1 AAAACAAAACTAAAA
9242656 AAAA
1 AAAA
9242660 AAGGATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.85, C:0.06, G:0.03, T:0.06
Consensus pattern (15 bp):
AAAACAAAACTAAAA
Found at i:9242660 original size:17 final size:17
Alignment explanation
Indices: 9242638--9242671 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9242628 AAACAAAACT
9242638 AAAAAAAAGAAAATAAA
1 AAAAAAAAGAAAATAAA
* *
9242655 AAAAAAAGGATAATAAA
1 AAAAAAAAGAAAATAAA
9242672 TAAATAAGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAAAAAAGAAAATAAA
Found at i:9244266 original size:44 final size:44
Alignment explanation
Indices: 9244210--9244504 Score: 204
Period size: 44 Copynumber: 6.8 Consensus size: 44
9244200 GGTGGCTTAA
* * * *
9244210 ATCTGCTTCACTACTGTTTAGGAAAATAAGATTTACCGTCTTCG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCGTCTTCG
* * * * *
9244254 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCGTCTTCG
* * * ** * **
9244298 ACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTAGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCGTCTTCG
* *
9244341 ATCTGCTTCACTACTGCTTAGGAAGATGAGAT-T-CGCTGTCTTCG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTAC-C-GTCTTCG
* * * * * * *
9244385 ATCTGCTCTACTACTGCTTAGGGAGACAGGATCTAACATCTTTG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCGTCTTCG
* * * ** **
9244429 ACCTGCTCCACTACTGCTTAGGGAGATAGGA-CT-GGGTGCTTAA
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCGT-CTTCG
* * *
9244472 ATCTGCTTCACTACTGCTTAGGGAGATGAGATC
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATC
9244505 CTTTATTTTA
Statistics
Matches: 197, Mismatches: 47, Indels: 14
0.76 0.18 0.05
Matches are distributed among these distances:
42 1 0.01
43 65 0.33
44 129 0.65
45 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCGTCTTCG
Found at i:9244373 original size:131 final size:130
Alignment explanation
Indices: 9244169--9244503 Score: 526
Period size: 131 Copynumber: 2.6 Consensus size: 130
9244159 TTGATGCGAT
* * * *
9244169 CTGCTCCACTACTCCTTAGGGAGATAGTAGTGGTGGCTTAAATCTGCTTCACTACTGTTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACT-GTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* * * *
9244234 AATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
65 GATGAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAACATCTTTGA
9244299 C
130 C
9244300 CTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACT-GTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* * *
9244365 GATGAGATTCGCTGTCTTCGATCTGCTCTACTACTGCTTAGGGAGACAGGATCTAACATCTTTGA
65 GATGAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAACATCTTTGA
9244430 C
130 C
* *
9244431 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGGTGCTTAAATCTGCTTCACTACTGCTTAGGGA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGTG-GCTTAAATCTGCTTCACTACTGCTTAGGAA
9244496 GATGAGAT
65 GATGAGAT
9244504 CCTTTATTTT
Statistics
Matches: 189, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
130 2 0.01
131 187 0.99
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (130 bp):
CTGCTCCACTACTGCTTAGGGAGATAGGACTGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAG
ATGAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAACATCTTTGAC
Found at i:9244476 original size:87 final size:86
Alignment explanation
Indices: 9244166--9244498 Score: 287
Period size: 87 Copynumber: 3.8 Consensus size: 86
9244156 GACTTGATGC
* * * *
9244166 GATCTGCTCCACTACTCCTTAGGGAGATAGTAGTGGTGGCTTAAATCTGCTTCACTACTGTTTAG
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGACTGGT-GCTTAAATCTGCTTCACTACTGCTTAG
* * * * * *
9244231 GAAAATAAGATTTACCGTCTTC
65 GGAGATAGGATCTAACGTCTTA
** ** * *
9244253 GATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACAT-CTTTGACCTGCTCCACTACTGCTT
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGA-CT--GGTGCTTAAATCTGCTTCACTACTGCTT
** *
9244317 AGGGAGATAGGA-CTAGTGGCTTA
63 AGGGAGATAGGATCTAACGTCTTA
* * * * * **
9244340 AATCTGCTTCACTACTGCTTAGGAAGAT-GAGATTCGCTGTCTTCGATCTGC-TCTACTACTGCT
1 GATCTGCTCCACTACTGCTTAGGGAGATAG-GACT-GGTG-CTTAAATCTGCTTC-ACTACTGCT
* * *
9244403 TAGGGAGACAGGATCTAACATCTTT
62 TAGGGAGATAGGATCTAACGTCTTA
*
9244428 GACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGGTGCTTAAATCTGCTTCACTACTGCTTAG
1 GATCTGCTCCACTACTGCTTAGGGAGATAGGACT-GGTGCTTAAATCTGCTTCACTACTGCTTAG
9244493 GGAGAT
65 GGAGAT
9244499 GAGATCCTTT
Statistics
Matches: 192, Mismatches: 44, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
85 1 0.01
86 3 0.02
87 119 0.62
88 67 0.35
89 1 0.01
90 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (86 bp):
GATCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGCTTAAATCTGCTTCACTACTGCTTAGG
GAGATAGGATCTAACGTCTTA
Found at i:9244750 original size:90 final size:90
Alignment explanation
Indices: 9244656--9245038 Score: 309
Period size: 90 Copynumber: 4.3 Consensus size: 90
9244646 TCAACCTGCC
* **
9244656 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCTTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGATTTGTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGAT
9244721 AAGATCTGAAATTCTTCGGTCTACT
66 AAGATCTGAAATTCTTCGGTCTACT
* * **** * * *
9244746 CCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGTAA-CTTCAGGGACA
1 CCACTGTAACTTCAGGGAGATAAGATTTGTGGCTTCAATCTGCTCCACTGTAATC-TCAGGGAGA
* * * * *
9244810 TAAGGTTTG---TGGCTTCGATCTGCT
65 TAAGATCTGAAAT-TCTTCGGTCTACT
* ** * * * *
9244834 CCTCTGTAA-TCTCAGGGAGATAAGATCTAAAAT-TCTTCGATCTACTCCACTGTAACCTCAGGG
1 CCACTGTAACT-TCAGGGAGATAAGAT-T--TGTGGCTTCAATCTGCTCCACTGTAATCTCAGGG
* ** * *
9244897 AGATAAGA-CTTGCATATTCAAC---CTGCC
62 AGATAAGATC-TG-AAATTCTTCGGTCTACT
* * * *
9244924 CCACTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGATTTGTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGAT
*
9244989 AAGATCTAAAATTCTTCGGTCTACT
66 AAGATCTGAAATTCTTCGGTCTACT
*
9245014 CCACTGTAACCTCAGGGAGATAAGA
1 CCACTGTAACTTCAGGGAGATAAGA
9245039 CTTGCATATT
Statistics
Matches: 222, Mismatches: 53, Indels: 36
0.71 0.17 0.12
Matches are distributed among these distances:
87 8 0.04
88 67 0.30
89 4 0.02
90 138 0.62
91 2 0.01
93 2 0.01
94 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (90 bp):
CCACTGTAACTTCAGGGAGATAAGATTTGTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGAT
AAGATCTGAAATTCTTCGGTCTACT
Found at i:9245122 original size:134 final size:134
Alignment explanation
Indices: 9244522--9245079 Score: 956
Period size: 134 Copynumber: 4.2 Consensus size: 134
9244512 TTAATCCGCT
** * * * *
9244522 CCACTGTAACTTCAGGGAGAT-AGGATTACTAGCTCCAATCTGCTCCACTGTAACCTCAGGGAGA
1 CCACTGTAACTTCAGGGAGATAAGG-TTTGTGGCTTCAATCTGCTCCTCTGTAATCTCAGGGAGA
*
9244586 TAAGATCTAAAATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACTTGCATATTCAAC
65 TAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAAC
9244651 CTGCC
130 CTGCC
*
9244656 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCTTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCTCTGTAATCTCAGGGAGAT
*
9244721 AAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
66 AAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
9244786 TGCC
131 TGCC
* *
9244790 CCACTGTAACTTCAGGGACATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCTCTGTAATCTCAGGGAGAT
*
9244855 AAGATCTAAAATTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
66 AAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
9244920 TGCC
131 TGCC
* *
9244924 CCACTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGAT
1 CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCTCTGTAATCTCAGGGAGAT
9244989 AAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
66 AAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
9245054 TGCC
131 TGCC
* *
9245058 CCACTTTAACTTCAGAGAGATA
1 CCACTGTAACTTCAGGGAGATA
9245080 GGATCCTTTA
Statistics
Matches: 403, Mismatches: 20, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
134 400 0.99
135 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (134 bp):
CCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTCAATCTGCTCCTCTGTAATCTCAGGGAGAT
AAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACC
TGCC
Found at i:9245196 original size:44 final size:41
Alignment explanation
Indices: 9244514--9245216 Score: 334
Period size: 44 Copynumber: 15.9 Consensus size: 41
9244504 CCTTTATTTT
* * * *
9244514 AATCCGCTCCACTGTAACTTCAGGGAGATAGGATTACTAGCTCC
1 AATCTGCTCCACTGTAAC-TCAGGGAGATAAGA-T-CTTGCTTC
*
9244558 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAAATTCTTC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCT----TGCTTC
** * *
9244604 GGTCTACTCCACTATAACCTCAGGGAGATAAGA-CTTGCATATTC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCTTGC---TTC
* * * *
9244648 AACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTTC
1 AATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCT-T-GCTTC
** *
9244692 AATCTGCTCTTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCT----TGCTTC
** *
9244738 GGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CTTGCATATTC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCTTGC---TTC
* * * * *
9244782 AACCTGCCCCACTGTAACTTCAGGGACATAAGGTTTGTGGCTTC
1 AATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCT-T-GCTTC
* * *
9244826 GATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCT----TGCTTC
* *
9244872 GATCTACTCCACTGTAACCTCAGGGAGATAAGA-CTTGCATATTC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCTTGC---TTC
* * * * *
9244916 AACCTGCCCCACTGTAACTTTAGGGAGATAAGGTTTGTGGCTTC
1 AATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCT-T-GCTTC
* * *
9244960 GATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCT----TGCTTC
** *
9245006 GGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CTTGCATATTC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCTTGC---TTC
* * * * * ** *
9245050 AACCTGCCCCACTTTAACTTCAGAGAGATAGGATCCTTTATTTT
1 AATCTGCTCCACTGTAAC-TCAGGGAGATAAGAT-C-TTGCTTC
* * ** ** *
9245094 AATCCGCTCCACTATAACTTCAGGGAGATTGGATAGTGTCCTC
1 AATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCTTG-CTTC
* * *
9245137 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCGTC
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCT-T-GCTTC
*
9245181 AATCTGCTCCACTGTAACCTTAGGGAGATAAGATCT
1 AATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCT
9245217 GAAATATTCA
Statistics
Matches: 499, Mismatches: 111, Indels: 98
0.70 0.16 0.14
Matches are distributed among these distances:
41 8 0.02
42 3 0.01
43 32 0.06
44 295 0.59
45 16 0.03
46 134 0.27
47 11 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (41 bp):
AATCTGCTCCACTGTAACTCAGGGAGATAAGATCTTGCTTC
Found at i:9246476 original size:6 final size:6
Alignment explanation
Indices: 9246465--9246500 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
9246455 GCCTCTCAAT
9246465 TTTTCA TTTTCA TTTTTCA TTTTCA TTTTTCA TTTT
1 TTTTCA TTTTCA -TTTTCA TTTTCA -TTTTCA TTTT
9246501 TTTTTGACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTCA
Found at i:9246481 original size:7 final size:7
Alignment explanation
Indices: 9246463--9246501 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
9246453 TAGCCTCTCA
9246463 ATTTTTC
1 ATTTTTC
9246470 A-TTTTC
1 ATTTTTC
9246476 ATTTTTC
1 ATTTTTC
9246483 A-TTTTC
1 ATTTTTC
9246489 ATTTTTC
1 ATTTTTC
9246496 ATTTTT
1 ATTTTT
9246502 TTTTGACTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 12 0.40
7 18 0.60
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTTC
Found at i:9246481 original size:13 final size:13
Alignment explanation
Indices: 9246463--9246500 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
9246453 TAGCCTCTCA
9246463 ATTTTTCATTTTC
1 ATTTTTCATTTTC
9246476 ATTTTTCATTTTC
1 ATTTTTCATTTTC
9246489 ATTTTTCATTTT
1 ATTTTTCATTTT
9246501 TTTTTGACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTTTCATTTTC
Found at i:9247548 original size:31 final size:33
Alignment explanation
Indices: 9247493--9247553 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 33
9247483 GTTTTTTTAT
9247493 TTTGATTTTTGATTTTTTCATTTTCCTTTTGAC
1 TTTGATTTTTGATTTTTTCATTTTCCTTTTGAC
*
9247526 TTTGA-TTTTGA-TTTTTCTTTTTCCTTTT
1 TTTGATTTTTGATTTTTTCATTTTCCTTTT
9247554 TTGATCTGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 16 0.59
32 6 0.22
33 5 0.19
ACGTcount: A:0.10, C:0.11, G:0.08, T:0.70
Consensus pattern (33 bp):
TTTGATTTTTGATTTTTTCATTTTCCTTTTGAC
Found at i:9254553 original size:14 final size:15
Alignment explanation
Indices: 9254526--9254558 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
9254516 CGAACCAAAT
9254526 AAAACAAAACTAAAA
1 AAAACAAAACTAAAA
*
9254541 AAAATAAAA-TAAAA
1 AAAACAAAACTAAAA
9254555 AAAA
1 AAAA
9254559 GGATAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.85, C:0.06, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAACAAAACTAAAA
Found at i:9260006 original size:18 final size:17
Alignment explanation
Indices: 9259983--9260016 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9259973 TAGTATCTGG
9259983 TATCTGATCATTCTATTT
1 TATCTGAT-ATTCTATTT
*
9260001 TATCTGGTATTCTATT
1 TATCTGATATTCTATT
9260017 ATATTTGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.56
Consensus pattern (17 bp):
TATCTGATATTCTATTT
Found at i:9272335 original size:27 final size:27
Alignment explanation
Indices: 9272277--9272335 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
9272267 CAGTGATTCG
*
9272277 GCAGAAGGGACAGTCGACGGCAATGCA
1 GCAGAAGGGACAATCGACGGCAATGCA
* * * *
9272304 ACAGAGGGGACAATCGACGGCGATGTA
1 GCAGAAGGGACAATCGACGGCAATGCA
9272331 GCAGA
1 GCAGA
9272336 TGGTCGGATG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.20, G:0.37, T:0.08
Consensus pattern (27 bp):
GCAGAAGGGACAATCGACGGCAATGCA
Found at i:9272716 original size:16 final size:17
Alignment explanation
Indices: 9272679--9272717 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 17
9272669 CGTGGGAGAG
9272679 AGAAAA-AAATGAATAA
1 AGAAAATAAATGAATAA
9272695 AG--AATAAATG-ATAA
1 AGAAAATAAATGAATAA
9272709 AGAAAATAA
1 AGAAAATAA
9272718 CAGAAATAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
14 8 0.40
15 5 0.25
16 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (17 bp):
AGAAAATAAATGAATAA
Found at i:9274962 original size:30 final size:30
Alignment explanation
Indices: 9274926--9274982 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
9274916 ACGGGATGGA
9274926 ACATGGGCGTATGGCCAGCCTGTTTGGCTC
1 ACATGGGCGTATGGCCAGCCTGTTTGGCTC
*
9274956 ACATGGGCGTGTGGCCAGCCTGTTTGG
1 ACATGGGCGTATGGCCAGCCTGTTTGG
9274983 AAATGCCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.12, C:0.25, G:0.37, T:0.26
Consensus pattern (30 bp):
ACATGGGCGTATGGCCAGCCTGTTTGGCTC
Found at i:9278173 original size:8 final size:8
Alignment explanation
Indices: 9278160--9278184 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9278150 TAATAAAGAT
9278160 AGAAATAA
1 AGAAATAA
9278168 AGAAATAA
1 AGAAATAA
9278176 AGAAATAA
1 AGAAATAA
9278184 A
1 A
9278185 AATAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AGAAATAA
Found at i:9278390 original size:20 final size:20
Alignment explanation
Indices: 9278348--9278392 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
9278338 AAAAGAAAAA
* *
9278348 GAGAAAGGGAAGGGAGAGGG
1 GAGAAAGGAAAGGGAGAGAG
9278368 GAGATAAGGAAAGGG-GAGAG
1 GAGA-AAGGAAAGGGAGAGAG
9278388 GAGAA
1 GAGAA
9278393 GGGATGGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 12 0.55
21 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.53, T:0.02
Consensus pattern (20 bp):
GAGAAAGGAAAGGGAGAGAG
Found at i:9279132 original size:30 final size:31
Alignment explanation
Indices: 9279092--9279177 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 31
9279082 ACAGCCAAGG
* *
9279092 ACACACCCGTGT-GTCCAGGCCGTGTAGGTT
1 ACACAGCCGTGTCGTCCAGGCCGTGTAGGTC
* * *
9279122 ACACGGCCGTGTCG-CCAGGTCGTATAGGTC
1 ACACAGCCGTGTCGTCCAGGCCGTGTAGGTC
* *
9279152 ATACAGCCGTGTCGT-CAGGCCATGTA
1 ACACAGCCGTGTCGTCCAGGCCGTGTA
9279178 ACTCACTATC
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
30 43 0.98
31 1 0.02
ACGTcount: A:0.19, C:0.29, G:0.30, T:0.22
Consensus pattern (31 bp):
ACACAGCCGTGTCGTCCAGGCCGTGTAGGTC
Found at i:9283319 original size:53 final size:53
Alignment explanation
Indices: 9283227--9283334 Score: 166
Period size: 53 Copynumber: 2.0 Consensus size: 53
9283217 CTCCTAAGTA
* *
9283227 TAGAAACATGAATTTAAAAGATTGGGAGCATAAAGTTCACTAATTTACATAAT
1 TAGAAACATGAATTTAAAAGATTAGGAGAATAAAGTTCACTAATTTACATAAT
9283280 TAGAAACATGAATTT-AAAGCATTAGGAGAATCAAA-TTCACTAATTTACATAAT
1 TAGAAACATGAATTTAAAAG-ATTAGGAGAAT-AAAGTTCACTAATTTACATAAT
9283333 TA
1 TA
9283335 ATCATCCAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
52 4 0.08
53 44 0.86
54 3 0.06
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (53 bp):
TAGAAACATGAATTTAAAAGATTAGGAGAATAAAGTTCACTAATTTACATAAT
Found at i:9284448 original size:148 final size:148
Alignment explanation
Indices: 9284174--9284461 Score: 416
Period size: 148 Copynumber: 1.9 Consensus size: 148
9284164 AATTAGGACT
* * *
9284174 AAACCGTAATGTTTATAAAATTTTAGGTTGACATCGCGAAGTTATAGGGTTCCTTGTCACGACAC
1 AAACCGTAATGTTTACAAAATTTTAGGTTGACATCACGAAGTTATAGGGTTCCTCGTCACGACAC
* * * * ** *
9284239 AATATAGTAACTAGGTCTCATCTCAACAACCTATGCTTGACATCGTGTCGTGGCATAGTGGCCCG
66 AACATACTAACTAGGTCTCATCTAAACAACCCATGCTTGACATCGCATCATGGCATAGTGGCCCG
9284304 ATCTCGTCGCGATATGAC
131 ATCTCGTCGCGATATGAC
* * **
9284322 AAACTGTAATGTTTACAAAATTTTAGGTTGACGTCACGAAGTTAT-GAGGTTCCTCGTCGTGACA
1 AAACCGTAATGTTTACAAAATTTTAGGTTGACATCACGAAGTTATAG-GGTTCCTCGTCACGACA
* *
9284386 CAACATACTAACTAGGTCTCATCTAAACAACCCATGCTTGACATCGCATCATGGCATGGTGGCCT
65 CAACATACTAACTAGGTCTCATCTAAACAACCCATGCTTGACATCGCATCATGGCATAGTGGCCC
9284451 GATCTCGTCGC
130 GATCTCGTCGC
9284462 AACGATCTAC
Statistics
Matches: 123, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
147 1 0.01
148 122 0.99
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (148 bp):
AAACCGTAATGTTTACAAAATTTTAGGTTGACATCACGAAGTTATAGGGTTCCTCGTCACGACAC
AACATACTAACTAGGTCTCATCTAAACAACCCATGCTTGACATCGCATCATGGCATAGTGGCCCG
ATCTCGTCGCGATATGAC
Found at i:9288686 original size:21 final size:21
Alignment explanation
Indices: 9288662--9288705 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9288652 TTATATATGT
*
9288662 TTAATTAAGC-TTTAGTTAATA
1 TTAATTAA-CTTTTAATTAATA
9288683 TTAATTAACTTTTAATTAATA
1 TTAATTAACTTTTAATTAATA
9288704 TT
1 TT
9288706 TTCTTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (21 bp):
TTAATTAACTTTTAATTAATA
Found at i:9294075 original size:27 final size:27
Alignment explanation
Indices: 9294037--9294090 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
9294027 TTACCATCAG
9294037 AAAGCCTGATATAAGTTTTGATGATTT
1 AAAGCCTGATATAAGTTTTGATGATTT
*
9294064 AAAGCCTTATATAAGTTTTGATGATTT
1 AAAGCCTGATATAAGTTTTGATGATTT
9294091 CTGGAATCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (27 bp):
AAAGCCTGATATAAGTTTTGATGATTT
Found at i:9300537 original size:14 final size:13
Alignment explanation
Indices: 9300520--9300577 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 13
9300510 GTTTTGAGTA
9300520 TTTTTTTTCTTTT
1 TTTTTTTTCTTTT
*
9300533 ATTTTTTTAACTTTCT
1 -TTTTTTT-TCTTT-T
9300549 TTTTTTTTCTTTT
1 TTTTTTTTCTTTT
9300562 TTTTTTATTCTCTTT
1 TTTTTT-TTCT-TTT
9300577 T
1 T
9300578 GTTTCTTACT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
13 7 0.18
14 15 0.39
15 15 0.39
16 1 0.03
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTTTCTTTT
Found at i:9300567 original size:11 final size:10
Alignment explanation
Indices: 9300520--9300566 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
9300510 GTTTTGAGTA
9300520 TTTTTTTTCT
1 TTTTTTTTCT
*
9300530 TTTATTTT-T
1 TTTTTTTTCT
***
9300539 TTAACTTTCT
1 TTTTTTTTCT
9300549 TTTTTTTTCT
1 TTTTTTTTCT
9300559 TTTTTTTT
1 TTTTTTTT
9300567 TATTCTCTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:9305908 original size:20 final size:21
Alignment explanation
Indices: 9305883--9305924 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
9305873 TCAATTGGTC
*
9305883 ATAATACTCTATATA-AACAA
1 ATAATAATCTATATATAACAA
9305903 ATAATAATCTATATATAACAA
1 ATAATAATCTATATATAACAA
9305924 A
1 A
9305925 GTAAAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAATAATCTATATATAACAA
Found at i:9305920 original size:22 final size:22
Alignment explanation
Indices: 9305883--9305924 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9305873 TCAATTGGTC
*
9305883 ATAATACTCTATATAAACAAATA
1 ATAATACTATATAT-AACAAATA
9305906 ATAAT-CTATATATAACAAA
1 ATAATACTATATATAACAAA
9305925 GTAAAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
ATAATACTATATATAACAAATA
Found at i:9306337 original size:16 final size:16
Alignment explanation
Indices: 9306316--9306347 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9306306 TTTAACTGCC
9306316 ACGTTAATTGAACTAT
1 ACGTTAATTGAACTAT
9306332 ACGTTAATTGAACTAT
1 ACGTTAATTGAACTAT
9306348 GTACCGTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (16 bp):
ACGTTAATTGAACTAT
Found at i:9306499 original size:31 final size:29
Alignment explanation
Indices: 9306464--9306553 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 29
9306454 AATCTCAAAA
*
9306464 TTATACATGAACTTTGGTCTAATGTGCAATT
1 TTATACATGAACTTTGAT-T-ATGTGCAATT
* *
9306495 TTATACAT-AGGCTTTGATTTTGTGCAATT
1 TTATACATGA-ACTTTGATTATGTGCAATT
*
9306524 TTATACATGAAAATTTGATT-TGATGCAATT
1 TTATACATG-AACTTTGATTATG-TGCAATT
9306554 CTCACAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
29 19 0.38
30 16 0.32
31 15 0.30
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (29 bp):
TTATACATGAACTTTGATTATGTGCAATT
Found at i:9306732 original size:31 final size:30
Alignment explanation
Indices: 9306688--9306756 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
9306678 AATTGAATTA
* *
9306688 AAATTAAATTTTCATGTATA-CATTTGAACC
1 AAATCAAAATTTCATGTATATCA-TTGAACC
*
9306718 ACAATCAAAATTTCATGTGTATCATTGAACC
1 A-AATCAAAATTTCATGTATATCATTGAACC
9306749 AAATCAAA
1 AAATCAAA
9306757 GTTCGTGTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 8 0.24
31 24 0.71
32 2 0.06
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.33
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATATCATTGAACC
Found at i:9317952 original size:18 final size:18
Alignment explanation
Indices: 9317929--9317966 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
9317919 AAACAAGTTC
*
9317929 ATATAAA-AATCAAAATAT
1 ATATAAATAAT-AAAACAT
9317947 ATATAAATAATAAAACAT
1 ATATAAATAATAAAACAT
9317965 AT
1 AT
9317967 GATTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (18 bp):
ATATAAATAATAAAACAT
Found at i:9321399 original size:18 final size:18
Alignment explanation
Indices: 9321362--9321424 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
9321352 CTAAAAAAGG
9321362 TTTT-TTTTTTAA--ATA
1 TTTTATTTTTTAATTATA
9321377 TTTTATTTTTTAATTATA
1 TTTTATTTTTTAATTATA
* *
9321395 ATTTATTTTATAATTAATTA
1 TTTTATTTTTTAATT-A-TA
9321415 TTTTATTTTT
1 TTTTATTTTT
9321425 AGGAAGTCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
15 4 0.10
16 8 0.21
18 16 0.41
19 1 0.03
20 10 0.26
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATTTTTTAATTATA
Found at i:9322195 original size:11 final size:10
Alignment explanation
Indices: 9322175--9322209 Score: 54
Period size: 11 Copynumber: 3.5 Consensus size: 10
9322165 CAAGTAATTT
9322175 AAAAATTATA
1 AAAAATTATA
9322185 AAAATATTATA
1 AAAA-ATTATA
9322196 AAAAATT-TA
1 AAAAATTATA
9322205 AAAAA
1 AAAAA
9322210 ACTTAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 7 0.29
10 7 0.29
11 10 0.42
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAATTATA
Found at i:9328554 original size:17 final size:17
Alignment explanation
Indices: 9328532--9328570 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
9328522 TACATTTGTA
*
9328532 TTTTTTTTTATTTCAAG
1 TTTTTTTCTATTTCAAG
*
9328549 TTTTTTTCTATTTCATG
1 TTTTTTTCTATTTCAAG
9328566 TTTTT
1 TTTTT
9328571 AATTAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (17 bp):
TTTTTTTCTATTTCAAG
Found at i:9333160 original size:21 final size:21
Alignment explanation
Indices: 9333134--9333173 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
9333124 ACCTTTTCTA
9333134 AAGTTAAAA-GACAAAACTATT
1 AAGTTAAAAGGA-AAAACTATT
9333155 AAGTTAAAAGGAAAAACTA
1 AAGTTAAAAGGAAAAACTA
9333174 CGTTGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.60, C:0.07, G:0.12, T:0.20
Consensus pattern (21 bp):
AAGTTAAAAGGAAAAACTATT
Found at i:9333893 original size:22 final size:22
Alignment explanation
Indices: 9333865--9333915 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
9333855 CTCTCTAATC
9333865 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
9333887 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
9333909 CTCTCAA
1 CTCTCAA
9333916 ACCCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:9333943 original size:51 final size:51
Alignment explanation
Indices: 9333887--9333998 Score: 206
Period size: 51 Copynumber: 2.2 Consensus size: 51
9333877 TTCCAAAATT
9333887 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
*
9333938 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
*
9333989 CCCTCAATTT
1 CTCTCAATTT
9333999 TATTTTTTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
Found at i:9334017 original size:11 final size:11
Alignment explanation
Indices: 9334003--9334041 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
9333993 CAATTTTATT
9334003 TTTTAAAATAA
1 TTTTAAAATAA
**
9334014 TTTT-AAATTT
1 TTTTAAAATAA
9334024 TTTTAAAATAA
1 TTTTAAAATAA
9334035 TTTTAAA
1 TTTTAAA
9334042 TTTTTTTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAA
Found at i:9334027 original size:21 final size:21
Alignment explanation
Indices: 9334001--9334049 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
9333991 CTCAATTTTA
9334001 TTTTTTAAAATAATTTTAAAT
1 TTTTTTAAAATAATTTTAAAT
9334022 TTTTTTAAAATAATTTTAAAT
1 TTTTTTAAAATAATTTTAAAT
9334043 TTTTTTA
1 TTTTTTA
9334050 TATTTTCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTTAAAATAATTTTAAAT
Found at i:9335138 original size:7 final size:7
Alignment explanation
Indices: 9335126--9335157 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
9335116 AGTCGATTGA
9335126 TATTTAG
1 TATTTAG
9335133 TATTTAG
1 TATTTAG
9335140 TATTTAG
1 TATTTAG
9335147 TATTTAG
1 TATTTAG
9335154 TATT
1 TATT
9335158 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:9335834 original size:18 final size:18
Alignment explanation
Indices: 9335808--9335842 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9335798 AGGTGTGTTT
* *
9335808 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
9335826 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
9335843 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:9336273 original size:25 final size:25
Alignment explanation
Indices: 9336245--9336314 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
9336235 ATTTAATTTT
*
9336245 TTTATCTGATGTAATAAAATAGAAG
1 TTTATTTGATGTAATAAAATAGAAG
* *
9336270 TTTATTTAATATAATAAAATAGAAG
1 TTTATTTGATGTAATAAAATAGAAG
9336295 TTCTATTTGATGTAATAAAA
1 TT-TATTTGATGTAATAAAA
9336315 ACCCTAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 24 0.62
26 15 0.38
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (25 bp):
TTTATTTGATGTAATAAAATAGAAG
Found at i:9336333 original size:18 final size:18
Alignment explanation
Indices: 9336310--9336451 Score: 116
Period size: 18 Copynumber: 8.7 Consensus size: 18
9336300 TTTGATGTAA
*
9336310 TAAAAACCCTAATTTAAT
1 TAAAAACCCTAACTTAAT
9336328 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
*
9336346 TAAAAACCCT-AC--CA-
1 TAAAAACCCTAACTTAAT
*
9336360 T---AA-CCTAATTTAAT
1 TAAAAACCCTAACTTAAT
9336374 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
**
9336392 TAAAAACCCTAAC---CC
1 TAAAAACCCTAACTTAAT
*
9336407 T---AA-CCTAATTTAAT
1 TAAAAACCCTAACTTAAT
9336421 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
*
9336439 TAAAAACCTTAAC
1 TAAAAACCCTAAC
9336452 CCTATCCTAA
Statistics
Matches: 97, Mismatches: 12, Indels: 30
0.70 0.09 0.22
Matches are distributed among these distances:
10 3 0.03
11 8 0.08
12 2 0.02
13 1 0.01
14 3 0.03
15 2 0.02
17 6 0.06
18 72 0.74
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAAACCCTAACTTAAT
Found at i:9336423 original size:29 final size:29
Alignment explanation
Indices: 9336381--9336572 Score: 158
Period size: 29 Copynumber: 6.8 Consensus size: 29
9336371 AATTAAAAAC
*
9336381 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
9336410 CCTAATTTAATTAAAAACCCTAA-CTTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* * *
9336438 -TTAA--AAACCTT---AACCCT-ATCCTAA
1 CCTAATTTAA--TTAAAAACCCTAACCCTAA
9336462 -CT----TAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
9336486 CCTAATTTAATTAAAAACCCTAACTCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
9336515 CCTAATTTAATTAAAATTTCCTAACCCTAACCCTAA
1 CCTAATTTAATT-AAA------AACCCTAACCCTAA
9336551 CCTAATTTAATTAAAAACCCTA
1 CCTAATTTAATTAAAAACCCTA
9336573 CCTTAATTAA
Statistics
Matches: 134, Mismatches: 10, Indels: 38
0.74 0.05 0.21
Matches are distributed among these distances:
20 2 0.01
22 2 0.01
23 7 0.05
24 17 0.13
25 4 0.03
27 5 0.04
28 4 0.03
29 62 0.46
30 3 0.02
35 3 0.02
36 25 0.19
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.30
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:9336429 original size:47 final size:47
Alignment explanation
Indices: 9336317--9336716 Score: 520
Period size: 47 Copynumber: 8.6 Consensus size: 47
9336307 TAATAAAAAC
*
9336317 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCT-ACCATAA
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
9336363 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
* *
9336410 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCTTAACCCTAT
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
* *
9336457 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTCTAA
1 CCTAATTTAATT--AAA----AACCCTAA-C----TTAATTAAAAACCCTAACCCTAA
**
9336515 CCTAATTTAATT-AAAA---T---TT-CCT---AACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
*
9336551 CCTAATTTAATTAAAAACCCTACCTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
9336598 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
*
9336645 CCTAACTTAATT-AAAACCCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
*
9336691 CCTAACTTAATTAAAAACCCTAACTT
1 CCTAATTTAATTAAAAACCCTAACTT
9336717 TAACCTAACT
Statistics
Matches: 315, Mismatches: 15, Indels: 47
0.84 0.04 0.12
Matches are distributed among these distances:
36 25 0.08
37 4 0.01
39 1 0.00
40 3 0.01
43 2 0.01
44 1 0.00
46 85 0.27
47 146 0.46
48 1 0.00
49 3 0.01
51 2 0.01
53 8 0.03
54 1 0.00
55 2 0.01
58 31 0.10
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (47 bp):
CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:9336569 original size:17 final size:17
Alignment explanation
Indices: 9336549--9336685 Score: 73
Period size: 18 Copynumber: 8.5 Consensus size: 17
9336539 CCCTAACCCT
*
9336549 AACCTAATTTAATTAAA
1 AACCTAACTTAATTAAA
*
9336566 AACCCTACCTTAATTAAA
1 AA-CCTAACTTAATTAAA
**
9336584 AACCCTAAC---CCT--A
1 AA-CCTAACTTAATTAAA
*
9336597 A-CCTAATTTAATTAAA
1 AACCTAACTTAATTAAA
9336613 AACCCTAACTTAATTAAA
1 AA-CCTAACTTAATTAAA
**
9336631 AACCCTAAC---CCT---
1 AA-CCTAACTTAATTAAA
9336643 AACCTAACTTAATTAAA
1 AACCTAACTTAATTAAA
*
9336660 ACCCTAACTTAATTAAA
1 AACCTAACTTAATTAAA
9336677 AACCCTAAC
1 AA-CCTAAC
9336686 CCTAACCTAA
Statistics
Matches: 90, Mismatches: 15, Indels: 29
0.67 0.11 0.22
Matches are distributed among these distances:
11 11 0.12
12 2 0.02
13 2 0.02
14 2 0.02
15 2 0.02
16 2 0.02
17 19 0.21
18 50 0.56
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (17 bp):
AACCTAACTTAATTAAA
Found at i:9336621 original size:29 final size:29
Alignment explanation
Indices: 9336428--9336572 Score: 182
Period size: 29 Copynumber: 4.8 Consensus size: 29
9336418 AATTAAAAAC
* * *
9336428 CCTAACTTAATTAAAAACCTTAACCCTAT
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
9336457 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
9336486 CCTAATTTAATTAAAAACCCTAACTCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
9336515 CCTAATTTAATTAAAATTTCCTAACCCTAACCCTAA
1 CCTAATTTAATT-AAA------AACCCTAACCCTAA
9336551 CCTAATTTAATTAAAAACCCTA
1 CCTAATTTAATTAAAAACCCTA
9336573 CCTTAATTAA
Statistics
Matches: 104, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
29 73 0.70
30 3 0.03
35 3 0.03
36 25 0.24
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:9336625 original size:18 final size:18
Alignment explanation
Indices: 9336598--9336685 Score: 93
Period size: 18 Copynumber: 5.3 Consensus size: 18
9336588 CTAACCCTAA
*
9336598 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9336616 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
**
9336634 CCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
9336645 CCTAACTTAATT-AAAAC
1 CCTAACTTAATTAAAAAC
9336662 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9336680 CCTAAC
1 CCTAAC
9336686 CCTAACCTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
11 6 0.10
12 2 0.03
14 1 0.02
15 1 0.02
16 2 0.03
17 12 0.21
18 34 0.59
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:9336704 original size:29 final size:29
Alignment explanation
Indices: 9336662--9336753 Score: 148
Period size: 29 Copynumber: 3.2 Consensus size: 29
9336652 TAATTAAAAC
9336662 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
**
9336691 CCTAACTTAATTAAAAACCCTAACTTTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
9336720 CCTAACTTAATTGAAAACCCTAATCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9336749 CCTAA
1 CCTAA
9336754 TTTTACATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.43, C:0.28, G:0.01, T:0.27
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:9336739 original size:234 final size:234
Alignment explanation
Indices: 9336317--9336756 Score: 767
Period size: 234 Copynumber: 1.9 Consensus size: 234
9336307 TAATAAAAAC
9336317 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTACCATAACCTAATTTAATTAAAAACC
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTACCATAACCTAATTTAATTAAAAACC
*
9336382 CTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACC
66 CTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAACC
* * *
9336447 TTAACCCTATCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CT
131 CTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAATC-
9336511 CTAACCTAATTTAATTAAAATTTCCTAACCCTAACCCTAA
195 CTAACCTAATTTAATTAAAATTTCCTAACCCTAACCCTAA
* *
9336551 CCTAATTTAATTAAAAACCCTACCTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCT-ACCATAACCTAATTTAATTAAAAAC
9336616 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATT-AAAACCCTAACTTAATTAAAAAC
65 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAAC
** *
9336680 CCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTTAACCTAACTTAATTGAAAACCCTAATC
130 CCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAATC
9336745 CTAACCTAATTT
195 CTAACCTAATTT
9336757 TACATAATTT
Statistics
Matches: 195, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
234 130 0.67
235 65 0.33
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (234 bp):
CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTACCATAACCTAATTTAATTAAAAACC
CTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAAAACC
CTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAATCC
TAACCTAATTTAATTAAAATTTCCTAACCCTAACCCTAA
Found at i:9336742 original size:93 final size:93
Alignment explanation
Indices: 9336317--9336716 Score: 419
Period size: 93 Copynumber: 4.3 Consensus size: 93
9336307 TAATAAAAAC
* * *
9336317 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCT-ACCATAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACTT-ATTAAAAACCCTAACCAAAACCTAACTTAATTAAAAAC
9336381 CCTAACTTAATTAAAAACCCTAACCCTAA
65 CCTAACTTAATTAAAAACCCTAACCCTAA
* * ** *
9336410 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCTTAACCCTATCCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACTT-ATTAAAAACCCTAACCAAAACCTAACTTAATT--AAA-
*
9336475 CCTAACCCTAACCTAATTTAATTAAAAACCCTAACTCTAA
62 ---AACCCTAA-C----TTAATTAAAAACCCTAACCCTAA
* ** ** *
9336515 CCTAATTTAATT-AAAA---T---TTCCT---AACCCTAACCCTAACCTAATTTAATTAAAAACC
1 CCTAACTTAATTAAAAACCCTAACTTATTAAAAACCCTAACCAAAACCTAACTTAATTAAAAACC
*
9336570 CTACCTTAATTAAAAACCCTAACCCTAA
66 CTAACTTAATTAAAAACCCTAACCCTAA
* **
9336598 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATT-AAAAC
1 CCTAACTTAATTAAAAACCCTAACTT-ATTAAAAACCCTAACCAAAACCTAACTTAATTAAAAAC
9336662 CCTAACTTAATTAAAAACCCTAACCCTAA
65 CCTAACTTAATTAAAAACCCTAACCCTAA
9336691 CCTAACTTAATTAAAAACCCTAACTT
1 CCTAACTTAATTAAAAACCCTAACTT
9336717 TAACCTAACT
Statistics
Matches: 267, Mismatches: 17, Indels: 46
0.81 0.05 0.14
Matches are distributed among these distances:
83 34 0.13
84 4 0.01
87 2 0.01
88 7 0.03
90 2 0.01
91 1 0.00
92 3 0.01
93 96 0.36
94 64 0.24
96 3 0.01
97 1 0.00
98 2 0.01
100 8 0.03
101 2 0.01
104 4 0.01
105 34 0.13
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (93 bp):
CCTAACTTAATTAAAAACCCTAACTTATTAAAAACCCTAACCAAAACCTAACTTAATTAAAAACC
CTAACTTAATTAAAAACCCTAACCCTAA
Found at i:9336817 original size:55 final size:55
Alignment explanation
Indices: 9336751--9336874 Score: 223
Period size: 55 Copynumber: 2.3 Consensus size: 55
9336741 AATCCTAACC
*
9336751 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTT-GGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACAAAATT-TTAGGACTTAA
9336806 TAATTTTACATAATTTGATAATTTTACTAACCATTAACAAAATTTTAGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACAAAATTTTAGGACTTAA
9336861 TAATTTTACATAAT
1 TAATTTTACATAAT
9336875 GTTAGATTTG
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
54 2 0.03
55 65 0.97
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (55 bp):
TAATTTTACATAATTTGATAATTTTACTAACCATTAACAAAATTTTAGGACTTAA
Found at i:9339636 original size:123 final size:123
Alignment explanation
Indices: 9339417--9339641 Score: 398
Period size: 123 Copynumber: 1.8 Consensus size: 123
9339407 CCCAAACTTG
*
9339417 CTACTGTAGCAAAATCGCGTCCACAAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAACAAAATCGCGTCCACAAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
9339482 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGAC
* * *
9339540 CTACTGTAACAAAATCGCGTCTACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCTTGG
1 CTACTGTAACAAAATCGCGTCCACAAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
9339605 TAGAAGCGATTTTATACTATTTGAC-CAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTG-CTCAGAAACGTCAA
9339642 CTCGAAATAA
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
123 96 0.99
124 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (123 bp):
CTACTGTAACAAAATCGCGTCCACAAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGAC
Found at i:9339838 original size:30 final size:29
Alignment explanation
Indices: 9339776--9339842 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
9339766 CGATTTCCCG
*
9339776 AAAAAT-GGCCCATTCCTGTAAATAATAA
1 AAAAATCGGCCCATTCCGGTAAATAATAA
* **
9339804 AAAAATCGGCCCATTTCGGTAAATTTTAA
1 AAAAATCGGCCCATTCCGGTAAATAATAA
*
9339833 AAAAAACGGC
1 AAAAATCGGC
9339843 TTTTTTTTGG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
28 6 0.18
29 27 0.82
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (29 bp):
AAAAATCGGCCCATTCCGGTAAATAATAA
Found at i:9341399 original size:3 final size:3
Alignment explanation
Indices: 9341391--9341415 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9341381 TTATACCATC
9341391 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
9341416 CATTATTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:9342832 original size:30 final size:31
Alignment explanation
Indices: 9342791--9342850 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
9342781 AAATATGGCT
*
9342791 ATATAAAAGTA-TTAACAACCATATTATTATA
1 ATATAAAAGTATTTAACAACCACATT-TTATA
*
9342822 ATAT-AAAGTATTTCACAACCACATTTTAT
1 ATATAAAAGTATTTAACAACCACATTTTAT
9342851 GGTTGTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (31 bp):
ATATAAAAGTATTTAACAACCACATTTTATA
Found at i:9344747 original size:13 final size:13
Alignment explanation
Indices: 9344716--9344753 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
9344706 GTTACAATAG
*
9344716 TAATATT-TTAAT
1 TAATATTATTTAT
9344728 TAATATTATTTAT
1 TAATATTATTTAT
*
9344741 TATTATTATTTAT
1 TAATATTATTTAT
9344754 ACTATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TAATATTATTTAT
Found at i:9358436 original size:25 final size:25
Alignment explanation
Indices: 9358408--9358465 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
9358398 TATTTTGATA
*
9358408 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAAT
9358433 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAAT
*
9358458 TTTTTTGA
1 TTATTTGA
9358466 GTTATTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAAT
Found at i:9358440 original size:45 final size:45
Alignment explanation
Indices: 9358353--9358440 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
9358343 ATATTTTGAA
* *
9358353 TATTTTGATATTATTTTATATAATAAAATAAAAATTTTTTTGAGT
1 TATTTTGATATTATTTGATATAATAAAATAAAAATTTATTTGAGT
* * *
9358398 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATATAATAAAATAAAAATTTATTTGA
9358441 TGTAATAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (45 bp):
TATTTTGATATTATTTGATATAATAAAATAAAAATTTATTTGAGT
Found at i:9361316 original size:41 final size:41
Alignment explanation
Indices: 9361271--9361431 Score: 286
Period size: 41 Copynumber: 3.9 Consensus size: 41
9361261 AGTCTAATTT
*
9361271 AGTTCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATTC
1 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTC
* *
9361312 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATTT
1 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTC
*
9361353 AATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTC
1 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTC
9361394 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGA
1 AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGA
9361432 ATAATTTCAC
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 113 1.00
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.30
Consensus pattern (41 bp):
AGTTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTC
Found at i:9363555 original size:39 final size:39
Alignment explanation
Indices: 9363501--9363635 Score: 119
Period size: 39 Copynumber: 3.5 Consensus size: 39
9363491 GTGTTTGGAT
* * * *
9363501 AAAAAATGCCACTAAAAATTAGCATTAGCGGCGCTATTA
1 AAAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTA
* * * *
9363540 AAAAAACGCCGCTAAAGATCAAGTATTAGCGGTGCTTTTT
1 AAAAAACGCCGCTAAAAAT-AAGCATTAGCGGCGCTTTTA
** * * * *
9363580 GGAAAACGCCGTTAAAAATGAGCATTAGCGGCGTTTTTC
1 AAAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTA
*
9363619 AAAAAGCGCCGC-AAAAA
1 AAAAAACGCCGCTAAAAA
9363636 CCCTAAGCCC
Statistics
Matches: 74, Mismatches: 21, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
38 5 0.07
39 39 0.53
40 30 0.41
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (39 bp):
AAAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTA
Found at i:9363826 original size:21 final size:22
Alignment explanation
Indices: 9363802--9363846 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
9363792 GCCATTTTAT
*
9363802 CCCCAAATTTCC-CCCCTGAAA
1 CCCCAAATTTCCTCCCCTAAAA
*
9363823 CCCCTAATTTCCTCCCCTAAAA
1 CCCCAAATTTCCTCCCCTAAAA
9363845 CC
1 CC
9363847 TTTAACTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.27, C:0.49, G:0.02, T:0.22
Consensus pattern (22 bp):
CCCCAAATTTCCTCCCCTAAAA
Found at i:9366365 original size:17 final size:18
Alignment explanation
Indices: 9366343--9366376 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9366333 ATGAGTAAAG
9366343 AAAAAC-TTTTTTATTTA
1 AAAAACTTTTTTTATTTA
9366360 AAAAACTTTTTTTATTT
1 AAAAACTTTTTTTATTT
9366377 TATAGGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
AAAAACTTTTTTTATTTA
Found at i:9367814 original size:43 final size:43
Alignment explanation
Indices: 9367766--9367970 Score: 163
Period size: 43 Copynumber: 4.8 Consensus size: 43
9367756 TGTGAAAAAA
* * **
9367766 CGCCGCTAAAGGTCATGAGTTTTAGTGTTGTTT-GTGGTAGAAG
1 CGCCGCTAAAGGTCAAGAGTTTTAGCGGCGTTTCGTGG-AGAAG
* *
9367809 CGCCGCTAAAGGCCAAGA-TCTTTAGCGGCGTTTCTTGGAGAAG
1 CGCCGCTAAAGGTCAAGAGT-TTTAGCGGCGTTTCGTGGAGAAG
* * * *
9367852 CGCCGCTAAAGGTCACGAGCTTTAGCAGCGTTT-GTGGGGCAAG
1 CGCCGCTAAAGGTCAAGAGTTTTAGCGGCGTTTCGTGGAG-AAG
* *
9367895 CGCCACTAAAGGTCACGA-TCTTTAGCGGCGATTGT-GTGG-GAAG
1 CGCCGCTAAAGGTCAAGAGT-TTTAGCGGCG-TT-TCGTGGAGAAG
* * *
9367938 TGCCTCTAAAGGTCACGA-TCTTTAGCGGCGTTT
1 CGCCGCTAAAGGTCAAGAGT-TTTAGCGGCGTTT
9367971 TTCCAAATAA
Statistics
Matches: 138, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
41 1 0.01
42 7 0.05
43 119 0.86
44 6 0.04
45 5 0.04
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.27
Consensus pattern (43 bp):
CGCCGCTAAAGGTCAAGAGTTTTAGCGGCGTTTCGTGGAGAAG
Found at i:9367915 original size:86 final size:86
Alignment explanation
Indices: 9367766--9367970 Score: 236
Period size: 86 Copynumber: 2.4 Consensus size: 86
9367756 TGTGAAAAAA
* * * * *
9367766 CGCCGCTAAAGGTCATGAGTTTTAG-TGTTGTTTGTGGTAGAAGCGCCGCTAAAGGCCAAGATCT
1 CGCCGCTAAAGGTCACGAGCTTTAGCAG-CGTTTGTGGTAGAAGCGCCACTAAAGGCCAAGATCT
*
9367830 TTAGCGGCGTTTCT-TGGAGAAG
65 TTAGCGGCGATTCTGTGG-GAAG
* * *
9367852 CGCCGCTAAAGGTCACGAGCTTTAGCAGCGTTTGTGG-GGCAAGCGCCACTAAAGGTCACGATCT
1 CGCCGCTAAAGGTCACGAGCTTTAGCAGCGTTTGTGGTAG-AAGCGCCACTAAAGGCCAAGATCT
*
9367916 TTAGCGGCGATTGTGTGGGAAG
65 TTAGCGGCGATTCTGTGGGAAG
* * * *
9367938 TGCCTCTAAAGGTCACGATCTTTAGCGGCGTTT
1 CGCCGCTAAAGGTCACGAGCTTTAGCAGCGTTT
9367971 TTCCAAATAA
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
85 1 0.01
86 97 0.95
87 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.27
Consensus pattern (86 bp):
CGCCGCTAAAGGTCACGAGCTTTAGCAGCGTTTGTGGTAGAAGCGCCACTAAAGGCCAAGATCTT
TAGCGGCGATTCTGTGGGAAG
Found at i:9368081 original size:21 final size:22
Alignment explanation
Indices: 9368039--9368093 Score: 94
Period size: 21 Copynumber: 2.5 Consensus size: 22
9368029 CTTGTTAAAG
9368039 CGCCGTTAAAAGCCTAAAAAAA
1 CGCCGTTAAAAGCCTAAAAAAA
9368061 CGCCGTTAAAAGCCT-AAAAAA
1 CGCCGTTAAAAGCCTAAAAAAA
*
9368082 CGCCGCTAAAAG
1 CGCCGTTAAAAG
9368094 TCTTTTTTGC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 17 0.53
22 15 0.47
ACGTcount: A:0.45, C:0.25, G:0.16, T:0.13
Consensus pattern (22 bp):
CGCCGTTAAAAGCCTAAAAAAA
Found at i:9375363 original size:39 final size:39
Alignment explanation
Indices: 9375236--9375365 Score: 118
Period size: 40 Copynumber: 3.3 Consensus size: 39
9375226 GGCGTTTGGA
* * * * *
9375236 ACAAAAGCGCCACAAAAAATCGAGCATTAGTGGCGATTT
1 ACAAAAGCGCCGCTAAAAATAGAGAATTAGCGGCGATTT
* ** **
9375275 AGCCAAAGCGCCGCTAAAGGTAGAGAATCCGCGGCGATTT
1 A-CAAAAGCGCCGCTAAAAATAGAGAATTAGCGGCGATTT
*
9375315 CCAAGAAGCGCCGCTAAAAATAG-GAATTAGCGGCGATTT
1 ACAA-AAGCGCCGCTAAAAATAGAGAATTAGCGGCGATTT
*
9375354 ATATAAAGCGCC
1 ACA-AAAGCGCC
9375366 ACAAAAAACC
Statistics
Matches: 70, Mismatches: 18, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
39 25 0.36
40 45 0.64
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (39 bp):
ACAAAAGCGCCGCTAAAAATAGAGAATTAGCGGCGATTT
Found at i:9375567 original size:41 final size:41
Alignment explanation
Indices: 9375464--9375718 Score: 189
Period size: 41 Copynumber: 6.2 Consensus size: 41
9375454 TTAGTGGCAT
* * * ***
9375464 GCCGCTAATGCTCCGATCTTTAGCGGCGTTTTTATATGAGC
1 GCCGCTAATGCTCGGACCTTTAGTGGCGTTTTTATCCAAGC
* * * *
9375505 GCCGTTAAAT-CTCTGG-CCTTTAGCGGCGTTTTTGTCCAAGT
1 GCCGCT-AATGCTC-GGACCTTTAGTGGCGTTTTTATCCAAGC
*
9375546 GCCGCTAATGCTCGGAGCTTTAGTGGCGTTTTTATCTC-AGC
1 GCCGCTAATGCTCGGACCTTTAGTGGCGTTTTTATC-CAAGC
* * * *
9375587 GCCACTAATCCTCTGG-CCTTTAGTGGCGTTTTTGTCTAAGC
1 GCCGCTAATGCTC-GGACCTTTAGTGGCGTTTTTATCCAAGC
* * **
9375628 GCCGCTAATGCTCGGATCTTTAGTGACGTTTTTATCTGAGC
1 GCCGCTAATGCTCGGACCTTTAGTGGCGTTTTTATCCAAGC
* * * * * *
9375669 GCCACTAATTCTCCTG-CCTTTAGCGGCGTTTGTT-TCTATGC
1 GCCGCTAATGCT-CGGACCTTTAGTGGCGTTT-TTATCCAAGC
9375710 GCCGCTAAT
1 GCCGCTAAT
9375719 AGTAACAAAA
Statistics
Matches: 171, Mismatches: 33, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
40 7 0.04
41 153 0.89
42 11 0.06
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.36
Consensus pattern (41 bp):
GCCGCTAATGCTCGGACCTTTAGTGGCGTTTTTATCCAAGC
Found at i:9375712 original size:82 final size:82
Alignment explanation
Indices: 9375464--9375718 Score: 352
Period size: 82 Copynumber: 3.1 Consensus size: 82
9375454 TTAGTGGCAT
* * * ** *
9375464 GCCGCTAATGCTCCGATCTTTAGCGGCGTTTTTATATGAGCGCCGTTAAATCTCTGGCCTTTAGC
1 GCCGCTAATGCTCGGATCTTTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGGCCTTTAGC
* *
9375529 GGCGTTTTTGTCCAAGT
66 GGCGTTTTTGTCTAAGC
* * * *
9375546 GCCGCTAATGCTCGGAGCTTTAGTGGCGTTTTTATCTCAGCGCCACTAATCCTCTGGCCTTTAGT
1 GCCGCTAATGCTCGGATCTTTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGGCCTTTAGC
9375611 GGCGTTTTTGTCTAAGC
66 GGCGTTTTTGTCTAAGC
*
9375628 GCCGCTAATGCTCGGATCTTTAGTGACGTTTTTATCTGAGCGCCACTAATTCTCCT-GCCTTTAG
1 GCCGCTAATGCTCGGATCTTTAGTGGCGTTTTTATCTGAGCGCCACTAATTCT-CTGGCCTTTAG
*
9375692 CGGCGTTTGTT-TCTATGC
65 CGGCGTTT-TTGTCTAAGC
9375710 GCCGCTAAT
1 GCCGCTAAT
9375719 AGTAACAAAA
Statistics
Matches: 153, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
82 149 0.97
83 4 0.03
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.36
Consensus pattern (82 bp):
GCCGCTAATGCTCGGATCTTTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGGCCTTTAGC
GGCGTTTTTGTCTAAGC
Found at i:9376226 original size:15 final size:15
Alignment explanation
Indices: 9376191--9376229 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
9376181 ATTTAAGGTT
9376191 AATTTAGGGGTTAGA
1 AATTTAGGGGTTAGA
** *
9376206 GGTTTAGGGGTTTGA
1 AATTTAGGGGTTAGA
9376221 AATTTAGGG
1 AATTTAGGG
9376230 TTTCAACGGT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.36
Consensus pattern (15 bp):
AATTTAGGGGTTAGA
Found at i:9378132 original size:27 final size:27
Alignment explanation
Indices: 9378102--9378153 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
9378092 AATAAACAAA
* *
9378102 TAAATAAGTAAGTAATTATTTATTTGT
1 TAAATAAATAAGTAATTAATTATTTGT
**
9378129 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATAAGTAATTAATTATTT
9378154 AAATGTAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (27 bp):
TAAATAAATAAGTAATTAATTATTTGT
Found at i:9379047 original size:11 final size:11
Alignment explanation
Indices: 9379031--9379057 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9379021 TTTGTTTAAT
9379031 TTACTTTCATA
1 TTACTTTCATA
9379042 TTACTTTCATA
1 TTACTTTCATA
9379053 TTACT
1 TTACT
9379058 GGTTGAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.56
Consensus pattern (11 bp):
TTACTTTCATA
Found at i:9381019 original size:21 final size:21
Alignment explanation
Indices: 9380990--9381042 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
9380980 ACATCTTTGA
* *
9380990 TATATATATTTATATACAGTTT
1 TATATATATTTAT-TAAAATTT
9381012 TA-ATATATTTATTAAAATTT
1 TATATATATTTATTAAAATTT
9381032 TATATATATTT
1 TATATATATTT
9381043 GAAAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.29
21 18 0.64
22 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TATATATATTTATTAAAATTT
Found at i:9381151 original size:16 final size:16
Alignment explanation
Indices: 9381090--9381528 Score: 152
Period size: 16 Copynumber: 25.9 Consensus size: 16
9381080 ACACATAGCC
* *
9381090 TACATGACTTACTTAA
1 TACATAACTTACATAA
* *
9381106 TACACAACTTAAATAA
1 TACATAACTTACATAA
*
9381122 TTTAAATAACTTACATAA
1 --TACATAACTTACATAA
9381140 TACATAACTTACAT--
1 TACATAACTTACATAA
9381154 T-CATAACTTACATAA
1 TACATAACTTACATAA
9381169 -ACTTATATGTTACCTTACATAA
1 TAC--ATA----A-CTTACATAA
9381191 TACATAACTT--AT-A
1 TACATAACTTACATAA
* *** *
9381204 TAAATTTTTTATATAAA
1 TACATAACTTACAT-AA
9381221 CTTACATAA--TACATAGCA
1 --TACATAACTTACATA--A
9381239 TACATAACTTACATAA
1 TACATAACTTACATAA
*
9381255 TACAAAACTTACATAA
1 TACATAACTTACATAA
* * * *
9381271 CTTAAATATCTTAAACAA
1 --TACATAACTTACATAA
*
9381289 CTTACATAACCTACATAA
1 --TACATAACTTACATAA
9381307 TACATAACTTACATAA
1 TACATAACTTACATAA
9381323 CTTACATAACTTACATAA
1 --TACATAACTTACATAA
9381341 TACATAATAACTTACATAACA
1 TAC---ATAACTTACAT-A-A
**
9381362 TACATTAA-TTTGATAA
1 TACA-TAACTTACATAA
* *
9381378 CTTACATAAGTTACGTAA
1 --TACATAACTTACATAA
*
9381396 TACATAACTTACA-ACT
1 TACATAACTTACATA-A
*
9381412 TACATAACATACATTAA
1 TACATAACTTACA-TAA
***
9381429 TTTGGTAACTTACATAA
1 -TACATAACTTACATAA
9381446 GTTACATAA--TACATAA
1 --TACATAACTTACATAA
9381462 CTTAC--AACTTACATAACA
1 --TACATAACTTACAT-A-A
* **
9381480 TACATTACTTTGATAA
1 TACATAACTTACATAA
*
9381496 CTTACATAAGTTACATAA
1 --TACATAACTTACATAA
*
9381514 TACACAACTTACATA
1 TACATAACTTACATA
9381529 GCTTACTTAA
Statistics
Matches: 319, Mismatches: 55, Indels: 98
0.68 0.12 0.21
Matches are distributed among these distances:
13 19 0.06
14 5 0.02
15 4 0.01
16 127 0.40
17 18 0.06
18 108 0.34
19 18 0.06
20 1 0.00
21 8 0.03
22 9 0.03
23 2 0.01
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.34
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:9381152 original size:9 final size:9
Alignment explanation
Indices: 9381106--9381585 Score: 259
Period size: 9 Copynumber: 55.3 Consensus size: 9
9381096 ACTTACTTAA
*
9381106 TACACAACT
1 TACATAACT
* *
9381115 TAAATAATT
1 TACATAACT
*
9381124 TAAATAACT
1 TACATAACT
9381133 TACATAA--
1 TACATAACT
9381140 TACATAACT
1 TACATAACT
9381149 TAC---A-T
1 TACATAACT
9381154 T-CATAACT
1 TACATAACT
9381162 TACATAAACT
1 TACAT-AACT
* *
9381172 TATATGTTACCT
1 TACA---TAACT
9381184 TACATAA--
1 TACATAACT
9381191 TACATAACT
1 TACATAACT
* *
9381200 TATATAAATTTTT
1 TACAT-AA---CT
*
9381213 TATATAAACT
1 TACAT-AACT
9381223 TACATAA--
1 TACATAACT
* *
9381230 TACATAGCA
1 TACATAACT
9381239 TACATAACT
1 TACATAACT
9381248 TACATAA--
1 TACATAACT
*
9381255 TACAAAACT
1 TACATAACT
9381264 TACATAACT
1 TACATAACT
* *
9381273 TAAATATCT
1 TACATAACT
* *
9381282 TAAACAACT
1 TACATAACT
*
9381291 TACATAACC
1 TACATAACT
9381300 TACATAA--
1 TACATAACT
9381307 TACATAACT
1 TACATAACT
9381316 TACATAACT
1 TACATAACT
9381325 TACATAACT
1 TACATAACT
*
9381334 TACATAATACA
1 TACAT-A-ACT
9381345 TA-ATAACT
1 TACATAACT
*
9381353 TACATAACA
1 TACATAACT
9381362 TACATTAA-T
1 TACA-TAACT
**
9381371 TTGATAACT
1 TACATAACT
*
9381380 TACATAAGT
1 TACATAACT
*
9381389 TACGTAA--
1 TACATAACT
9381396 TACATAACT
1 TACATAACT
9381405 TAC--AACT
1 TACATAACT
*
9381412 TACATAACA
1 TACATAACT
9381421 TACATTAA-T
1 TACA-TAACT
***
9381430 TTGGTAACT
1 TACATAACT
*
9381439 TACATAAGT
1 TACATAACT
9381448 TACATAA--
1 TACATAACT
9381455 TACATAACT
1 TACATAACT
9381464 TAC--AACT
1 TACATAACT
*
9381471 TACATAACA
1 TACATAACT
*
9381480 TACATTACT
1 TACATAACT
**
9381489 TTGATAACT
1 TACATAACT
*
9381498 TACATAAGT
1 TACATAACT
9381507 TACATAA--
1 TACATAACT
*
9381514 TACACAACT
1 TACATAACT
*
9381523 TACATAGCT
1 TACATAACT
*
9381532 TACTTAA--
1 TACATAACT
*
9381539 TACATGACT
1 TACATAACT
9381548 TACATAACT
1 TACATAACT
*
9381557 T--ATACACG
1 TACATA-ACT
9381565 TACATAACT
1 TACATAACT
*
9381574 TACATAATT
1 TACATAACT
9381583 TAC
1 TAC
9381586 TTAATACATA
Statistics
Matches: 361, Mismatches: 65, Indels: 90
0.70 0.13 0.17
Matches are distributed among these distances:
4 1 0.00
5 2 0.01
6 1 0.00
7 75 0.21
8 15 0.04
9 221 0.61
10 26 0.07
11 4 0.01
12 6 0.02
13 10 0.03
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.34
Consensus pattern (9 bp):
TACATAACT
Found at i:9381160 original size:13 final size:15
Alignment explanation
Indices: 9381127--9381167 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
9381117 AATAATTTAA
9381127 ATAACTTACATAATAC
1 ATAACTTACAT-ATAC
9381143 ATAACTTACAT-T-C
1 ATAACTTACATATAC
9381156 ATAACTTACATA
1 ATAACTTACATA
9381168 AACTTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAACTTACATATAC
Found at i:9381247 original size:25 final size:24
Alignment explanation
Indices: 9381219--9381363 Score: 92
Period size: 25 Copynumber: 6.0 Consensus size: 24
9381209 TTTTTATATA
9381219 AACTTACATAATACATAGCATACAT
1 AACTTACATAATACATA-CATACAT
* *
9381244 AACTTACATAATACAAAACTTACAT
1 AACTTACATAATAC-ATACATACAT
* *
9381269 AACTTAAAT-AT-CTTA-A-AC--
1 AACTTACATAATACATACATACAT
9381287 AACTTACATAACCTACATA-ATACAT
1 AACTTACATAA--TACATACATACAT
*
9381312 AACTTACATAACTTACATAACTTACAT
1 AACTTACATAA--TACAT-ACATACAT
*
9381339 AA--TACATAATAACTTACATAACAT
1 AACTTACATAAT-ACATACAT-ACAT
9381363 A
1 A
9381364 CATTAATTTG
Statistics
Matches: 96, Mismatches: 12, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
18 8 0.08
19 1 0.01
20 2 0.02
21 1 0.01
22 5 0.05
23 7 0.07
24 10 0.10
25 52 0.54
26 3 0.03
27 7 0.07
ACGTcount: A:0.50, C:0.20, G:0.01, T:0.30
Consensus pattern (24 bp):
AACTTACATAATACATACATACAT
Found at i:9381311 original size:43 final size:41
Alignment explanation
Indices: 9381244--9381349 Score: 131
Period size: 43 Copynumber: 2.5 Consensus size: 41
9381234 TAGCATACAT
* *
9381244 AACTTACATAATACAAAACTTACATAACTTAAATATCTTAAAC
1 AACTTACATAATACATAA--TACATAACTTAAATAACTTAAAC
* * *
9381287 AACTTACATAACCTACATAATACATAACTTACATAACTTACAT
1 AACTTACATAA--TACATAATACATAACTTAAATAACTTAAAC
9381330 AACTTACATAATACATAATA
1 AACTTACATAATACATAATA
9381350 ACTTACATAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
41 9 0.16
43 41 0.73
45 6 0.11
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (41 bp):
AACTTACATAATACATAATACATAACTTAAATAACTTAAAC
Found at i:9381430 original size:59 final size:59
Alignment explanation
Indices: 9381319--9381526 Score: 343
Period size: 59 Copynumber: 3.6 Consensus size: 59
9381309 CATAACTTAC
*
9381319 ATAACTTACATAACTTACATAATACATAA--T--AACTTACATAACATACATTAATTTG
1 ATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAACATACATTAATTTG
*
9381374 ATAACTTACATAAGTTACGTAATACATAACTTACAACTTACATAACATACATTAATTTG
1 ATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAACATACATTAATTTG
* *
9381433 GTAACTTACATAAGTTACATAATACATAACTTACAACTTACATAACATACATTACTTTG
1 ATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAACATACATTAATTTG
*
9381492 ATAACTTACATAAGTTACATAATACACAACTTACA
1 ATAACTTACATAAGTTACATAATACATAACTTACA
9381527 TAGCTTACTT
Statistics
Matches: 142, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
55 27 0.19
57 1 0.01
59 114 0.80
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (59 bp):
ATAACTTACATAAGTTACATAATACATAACTTACAACTTACATAACATACATTAATTTG
Found at i:9381534 original size:25 final size:25
Alignment explanation
Indices: 9381494--9381558 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
9381484 TTACTTTGAT
9381494 AACTTACATAAG-TTACATAATACAC
1 AACTTACAT-AGCTTACATAATACAC
* *
9381519 AACTTACATAGCTTACTTAATACAT
1 AACTTACATAGCTTACATAATACAC
* *
9381544 GACTTACATAACTTA
1 AACTTACATAGCTTA
9381559 TACACGTACA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 2 0.06
25 33 0.94
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (25 bp):
AACTTACATAGCTTACATAATACAC
Found at i:9381542 original size:118 final size:114
Alignment explanation
Indices: 9381285--9381558 Score: 349
Period size: 118 Copynumber: 2.4 Consensus size: 114
9381275 AATATCTTAA
* *
9381285 ACAACTTACATAACCTACATAATACA-TAACTTACATAACTTACATAACTTACATAATACATAAT
1 ACAACTTACAT-ACTTACTTAATACATTAACTTACATAACTTACATAACTTACATAATACATAAT
*
9381349 AACTTACATAACATACATTAATTTGATAACTTACATAAGTTACGTAATAC
65 AACTTACATAACATACATTAATTTGATAACTTACATAAGTTACATAATAC
* * *** *
9381399 ATAACTTACA-ACTTACATAACATACATTAA-TTTGGTAACTTACATAAGTTACATAATACATAA
1 ACAACTTACATACTTAC-TTA-ATACATTAACTTACATAACTTACATAACTTACATAATACATAA
*
9381462 CTTACAACTTACATAACATACATTACTTTGATAACTTACATAAGTTACATAATAC
64 --T--AACTTACATAACATACATTAATTTGATAACTTACATAAGTTACATAATAC
*
9381517 ACAACTTACATAGCTTACTTAATACA-TGACTTACATAACTTA
1 ACAACTTACATA-CTTACTTAATACATTAACTTACATAACTTA
9381559 TACACGTACA
Statistics
Matches: 134, Mismatches: 16, Indels: 16
0.81 0.10 0.10
Matches are distributed among these distances:
112 5 0.04
113 1 0.01
114 43 0.32
115 3 0.02
116 1 0.01
117 2 0.01
118 71 0.53
119 3 0.02
120 5 0.04
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.33
Consensus pattern (114 bp):
ACAACTTACATACTTACTTAATACATTAACTTACATAACTTACATAACTTACATAATACATAATA
ACTTACATAACATACATTAATTTGATAACTTACATAAGTTACATAATAC
Found at i:9381558 original size:59 final size:60
Alignment explanation
Indices: 9381285--9381534 Score: 311
Period size: 59 Copynumber: 4.3 Consensus size: 60
9381275 AATATCTTAA
* * ** *
9381285 ACAACTTACATAACCTACAT-A-ATACATAACTTACATAACTTACATAACTTACATAATAC
1 ACAACTTACAT-ACTTACATAACATACATTACTTTGATAACTTACATAAGTTACATAATAC
* * *
9381344 ATAA--T--A-ACTTACATAACATACATTAATTTGATAACTTACATAAGTTACGTAATAC
1 ACAACTTACATACTTACATAACATACATTACTTTGATAACTTACATAAGTTACATAATAC
* * *
9381399 ATAACTTACA-ACTTACATAACATACATTAATTTGGTAACTTACATAAGTTACATAATAC
1 ACAACTTACATACTTACATAACATACATTACTTTGATAACTTACATAAGTTACATAATAC
*
9381458 ATAACTTACA-ACTTACATAACATACATTACTTTGATAACTTACATAAGTTACATAATAC
1 ACAACTTACATACTTACATAACATACATTACTTTGATAACTTACATAAGTTACATAATAC
9381517 ACAACTTACATAGCTTAC
1 ACAACTTACATA-CTTAC
9381535 TTAATACATG
Statistics
Matches: 170, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
53 7 0.04
54 1 0.01
55 37 0.22
57 2 0.01
59 117 0.69
60 1 0.01
61 5 0.03
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (60 bp):
ACAACTTACATACTTACATAACATACATTACTTTGATAACTTACATAAGTTACATAATAC
Found at i:9386857 original size:21 final size:21
Alignment explanation
Indices: 9386833--9386883 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
9386823 CTACAACTTA
* *
9386833 AAGCAGATGCGGCAACGAGAG
1 AAGCAGAGGCAGCAACGAGAG
*
9386854 AAGCAGAGGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAACGAGAG
*
9386875 AAGCTGAGG
1 AAGCAGAGG
9386884 TTCAACGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.18, G:0.41, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAACGAGAG
Found at i:9387342 original size:43 final size:43
Alignment explanation
Indices: 9387277--9387789 Score: 645
Period size: 43 Copynumber: 11.9 Consensus size: 43
9387267 CAAAATTAGC
** * * *
9387277 GGCGTTTTTTGGGTAAGCGCCGCTAAAGAACACGGCCTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
9387320 GGCATTTTTCGTATAAGCGCCGCTAAAGACCTTGGTCTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * *
9387363 GACGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTTTAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
9387406 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATCGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
9387449 GGC-TTTTTTGGCTAAGCGCTGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
9387491 GGCGTTTTTTGTCTAAACGCCGCTAAAGACAATGGCCTATAAT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
9387534 GGCGTTTTTTTGTCCAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCG-TTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * * *
9387578 GGCGTTTTTTGTCCAATCGCCGCTAAAAAACACGGTCTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
9387621 GGCGTTTTTTGTCCAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * * *
9387664 GGCATTTTATGTAC-AAACGCCGCTAAAAGACCATGATCTATAGT
1 GGCGTTTTTTGT-CTAAGCGCCGCT-AAAGACCATGGTCTATAGT
* * * * *
9387708 GGCGTTTTTTGTAT-AGCGCCGCAAAAGACTATGGCCTATAGC
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
9387750 GGCGTTTTTTGTGTAAGCGCCGCTAAAGACCATAGTCTAT
1 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTAT
9387790 TGCGGCGCTT
Statistics
Matches: 405, Mismatches: 59, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
42 67 0.17
43 271 0.67
44 67 0.17
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (43 bp):
GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
Found at i:9397523 original size:27 final size:26
Alignment explanation
Indices: 9397489--9397599 Score: 109
Period size: 27 Copynumber: 4.1 Consensus size: 26
9397479 AAAATTTTGA
9397489 AAATTTAAAAAAATATAAAAATTATT
1 AAATTTAAAAAAATATAAAAATTATT
*
9397515 AAATCTTAAAAAAATATGAAAATTGATAT
1 AAAT-TTAAAAAAATATAAAAATT-AT-T
*
9397544 AGAATTATAAAAAAAT-TATAAAATTATA
1 A-AATT-TAAAAAAATATA-AAAATTATT
* *
9397572 AAATAT-AAAAAATCTAATAAATTATT
1 AAATTTAAAAAAATATAA-AAATTATT
9397598 AA
1 AA
9397600 TAAAACATAT
Statistics
Matches: 72, Mismatches: 5, Indels: 16
0.77 0.05 0.17
Matches are distributed among these distances:
25 8 0.11
26 16 0.22
27 21 0.29
28 3 0.04
29 6 0.08
30 18 0.25
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (26 bp):
AAATTTAAAAAAATATAAAAATTATT
Found at i:9397623 original size:21 final size:23
Alignment explanation
Indices: 9397590--9397636 Score: 71
Period size: 21 Copynumber: 2.1 Consensus size: 23
9397580 AAAATCTAAT
9397590 AAATTATTAATAAAACATATTTA
1 AAATTATTAATAAAACATATTTA
*
9397613 AAATT-TT-ATAAAACCTATTTA
1 AAATTATTAATAAAACATATTTA
9397634 AAA
1 AAA
9397637 ACTATACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.70
22 2 0.09
23 5 0.22
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATTATTAATAAAACATATTTA
Found at i:9397709 original size:10 final size:9
Alignment explanation
Indices: 9397450--9397711 Score: 90
Period size: 9 Copynumber: 27.6 Consensus size: 9
9397440 TTTTTTCATA
9397450 AAAATATTA-
1 AAAA-ATTAT
9397459 AAAAATTAT
1 AAAAATTAT
* *
9397468 AAGGAATTAG
1 AA-AAATTAT
*
9397478 AAAAATTTT
1 AAAAATTAT
*
9397487 GAAAATT-T
1 AAAAATTAT
*
9397495 AAAAAAATAT
1 -AAAAATTAT
9397505 AAAAATTATT
1 AAAAATTA-T
**
9397515 AAATCTTA-
1 AAAAATTAT
*
9397523 AAAAAATAT
1 AAAAATTAT
*
9397532 GAAAATTGAT
1 AAAAATT-AT
*
9397542 ATAGAATTAT
1 A-AAAATTAT
9397552 AAAAAAATTAT
1 --AAAAATTAT
9397563 -AAAATTAT
1 AAAAATTAT
9397571 -AAAA-TAT
1 AAAAATTAT
9397578 AAAAAATCTAAT
1 -AAAAAT-T-AT
*
9397590 AAATTATTAAT
1 AAA-AATT-AT
*
9397601 AAAACATATTT
1 AAAA-AT-TAT
*
9397612 AAAATTTTAT
1 AAAA-ATTAT
9397622 AAAACCTATT-T
1 AAAA---ATTAT
*
9397633 AAAAACTAT
1 AAAAATTAT
* *
9397642 ACAAATCAT
1 AAAAATTAT
9397651 AAAAATTAT
1 AAAAATTAT
9397660 AAAAA-TAT
1 AAAAATTAT
* *
9397668 TAAAAGTAT
1 AAAAATTAT
*
9397677 GAAAATTGAT
1 AAAAATT-AT
*
9397687 ATAAATTTAT
1 A-AAAATTAT
9397697 AAAAATTATT
1 AAAAATTA-T
9397707 AAAAA
1 AAAAA
9397712 AACATAAAGA
Statistics
Matches: 190, Mismatches: 38, Indels: 49
0.69 0.14 0.18
Matches are distributed among these distances:
7 3 0.02
8 31 0.16
9 70 0.37
10 36 0.19
11 41 0.22
12 9 0.05
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:9398852 original size:24 final size:24
Alignment explanation
Indices: 9398823--9398870 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9398813 TTTTTAATTA
*
9398823 TTTTAAAGAACTCT-AATAAGTTTT
1 TTTTAAA-AAATCTAAATAAGTTTT
*
9398847 TTTTAAAAAATTTAAATAAGTTTT
1 TTTTAAAAAATCTAAATAAGTTTT
9398871 ACTAATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (24 bp):
TTTTAAAAAATCTAAATAAGTTTT
Found at i:9398984 original size:18 final size:19
Alignment explanation
Indices: 9398958--9399002 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
9398948 TTTTAATATT
*
9398958 TAATATTTA-ATATTTTTA
1 TAATTTTTAGATATTTTTA
*
9398976 TAATTTTTATGATTTTTTTA
1 TAATTTTTA-GATATTTTTA
9398996 TAATTTT
1 TAATTTT
9399003 AATGAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
20 15 0.65
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TAATTTTTAGATATTTTTA
Found at i:9398995 original size:20 final size:20
Alignment explanation
Indices: 9398970--9399007 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9398960 ATATTTAATA
*
9398970 TTTTTATAATTTTTATGATT
1 TTTTTATAATTTTAATGATT
9398990 TTTTTATAATTTTAATGA
1 TTTTTATAATTTTAATGA
9399008 AAATATTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTTATAATTTTAATGATT
Found at i:9407201 original size:54 final size:54
Alignment explanation
Indices: 9407097--9407201 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
9407087 AAACAGGGGT
* * * * *
9407097 CACACGGTTGTGTCCCAGCCTGTGTCTCTACTCATGTAACTCACTGACTTGAGA
1 CACAAGGTCGTGTCCCAGCCCGTGTCTCTACCCATGTAACTCACTAACTTGAGA
* * * *
9407151 CACAAGGTCGTGTCCCAGCCCGTGTCTTTGCCCGTGTAACTCATTAACTTG
1 CACAAGGTCGTGTCCCAGCCCGTGTCTCTACCCATGTAACTCACTAACTTG
9407202 GGTCACACGG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (54 bp):
CACAAGGTCGTGTCCCAGCCCGTGTCTCTACCCATGTAACTCACTAACTTGAGA
Found at i:9411061 original size:11 final size:11
Alignment explanation
Indices: 9411041--9411106 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
9411031 TAAAAATTAA
9411041 AAAAAGTATTTT
1 AAAAA-TATTTT
9411053 AAAAATATTTT
1 AAAAATATTTT
9411064 --AAA-A--TT
1 AAAAATATTTT
*
9411070 AAAAA-AATTT
1 AAAAATATTTT
9411080 AAAAAGTATTTT
1 AAAAA-TATTTT
*
9411092 AAAAAAATTTT
1 AAAAATATTTT
9411103 AAAA
1 AAAA
9411107 TTTAAAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
6 2 0.04
8 5 0.11
9 3 0.07
10 7 0.15
11 15 0.33
12 14 0.30
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:9411073 original size:17 final size:16
Alignment explanation
Indices: 9411051--9411135 Score: 53
Period size: 16 Copynumber: 4.8 Consensus size: 16
9411041 AAAAAGTATT
*
9411051 TTAAAAATATTTTAAAA
1 TTAAAAA-AATTTAAAA
9411068 TTAAAAAAATTTAAAAAGTA
1 TTAAAAAAATTT--AAA--A
9411088 TTTTAAAAAAATTTTAAAA
1 --TTAAAAAAA-TTTAAAA
* **
9411107 TTTAAAAAATAAAAAA
1 TTAAAAAAATTTAAAA
*
9411123 ATAAAAAAATTTA
1 TTAAAAAAATTTA
9411136 TTATTCGGGC
Statistics
Matches: 53, Mismatches: 8, Indels: 15
0.70 0.11 0.20
Matches are distributed among these distances:
16 18 0.34
17 15 0.28
18 3 0.06
19 1 0.02
20 1 0.02
21 3 0.06
22 9 0.17
23 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (16 bp):
TTAAAAAAATTTAAAA
Found at i:9411084 original size:39 final size:40
Alignment explanation
Indices: 9411032--9411123 Score: 143
Period size: 39 Copynumber: 2.4 Consensus size: 40
9411022 AAATTAAAAT
*
9411032 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAAAATTTTAAAATTAA
* *
9411072 AAAAATT-TAAAAAGTATTTTAAAAAAATTTTAAAATTTA
1 AAAAATTAAAAAAAGTATTTTAAAAAAATTTTAAAATTAA
9411111 AAAAA-TAAAAAAA
1 AAAAATTAAAAAAA
9411124 TAAAAAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
38 1 0.02
39 39 0.83
40 7 0.15
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (40 bp):
AAAAATTAAAAAAAGTATTTTAAAAAAATTTTAAAATTAA
Found at i:9412924 original size:26 final size:27
Alignment explanation
Indices: 9412881--9412934 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
9412871 AAACTAAATT
*
9412881 ATAATTATTTTTAAATGTGTAATTATC
1 ATAATTATTTTTAAATGTATAATTATC
9412908 ATAATT-TTTTTAAATGTATAATTATC
1 ATAATTATTTTTAAATGTATAATTATC
9412934 A
1 A
9412935 CAACTTCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.52
Consensus pattern (27 bp):
ATAATTATTTTTAAATGTATAATTATC
Found at i:9415134 original size:3 final size:3
Alignment explanation
Indices: 9415126--9415176 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
9415116 AAGGGCTAGT
*
9415126 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA -TA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9415172 TTA TT
1 TTA TT
9415177 TCTTGAAGGA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 4 0.09
3 40 0.91
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:9415144 original size:98 final size:98
Alignment explanation
Indices: 9414930--9415121 Score: 356
Period size: 98 Copynumber: 2.0 Consensus size: 98
9414920 TAAAAAAAGA
9414930 AGAAAA-A-ATTATCCA-ATT-TACGTTTATTAAAGTTAGCATTGCAAATTGTCCATGAAGCATG
1 AGAAAATATATTATCCATATTATACGTTTATTAAAGTTAGCATTGCAAATTGTCCATGAAGCATG
9414991 GAGTTTAGAGGATGGATACTAAATCACAAGGGC
66 GAGTTTAGAGGATGGATACTAAATCACAAGGGC
9415024 AGAAAATATATTATCCATATTATACGTTTATTAAAGTTAGCATTGCAAATTGTCCATGAAGCATG
1 AGAAAATATATTATCCATATTATACGTTTATTAAAGTTAGCATTGCAAATTGTCCATGAAGCATG
9415089 GAGTTTAGAGGATGGATACTAAATCACAAGGGC
66 GAGTTTAGAGGATGGATACTAAATCACAAGGGC
9415122 TAGTTTATTA
Statistics
Matches: 94, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
94 6 0.06
95 1 0.01
96 8 0.09
97 3 0.03
98 76 0.81
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (98 bp):
AGAAAATATATTATCCATATTATACGTTTATTAAAGTTAGCATTGCAAATTGTCCATGAAGCATG
GAGTTTAGAGGATGGATACTAAATCACAAGGGC
Found at i:9416886 original size:18 final size:17
Alignment explanation
Indices: 9416860--9416895 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9416850 TTTGGTTATA
9416860 TTTAATTTTCGATATGTT
1 TTTAATTTT-GATATGTT
*
9416878 TTTATTTTTGATATGTT
1 TTTAATTTTGATATGTT
9416895 T
1 T
9416896 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTAATTTTGATATGTT
Found at i:9423998 original size:25 final size:25
Alignment explanation
Indices: 9423969--9424017 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9423959 TAAGCTCTTT
*
9423969 CGAGCTGAATAACGGGAACCTCATG
1 CGAGCTGAATAACGGAAACCTCATG
*
9423994 CGAGCTGAATAACGGAAAGCTCAT
1 CGAGCTGAATAACGGAAACCTCAT
9424018 AAGAGTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.27, T:0.16
Consensus pattern (25 bp):
CGAGCTGAATAACGGAAACCTCATG
Found at i:9424027 original size:25 final size:25
Alignment explanation
Indices: 9423970--9424027 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
9423960 AAGCTCTTTC
* **
9423970 GAGCTGAATAACGGGAACCTCATGC
1 GAGCTGAATAACGGAAACCTCATAA
*
9423995 GAGCTGAATAACGGAAAGCTCATAA
1 GAGCTGAATAACGGAAACCTCATAA
*
9424020 GAGTTGAA
1 GAGCTGAA
9424028 ATCGGTAACC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.17
Consensus pattern (25 bp):
GAGCTGAATAACGGAAACCTCATAA
Found at i:9431453 original size:25 final size:25
Alignment explanation
Indices: 9431424--9431482 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
9431414 TAAGCTCTTT
*
9431424 CGAGCTGAATAACGGGAACCTCATG
1 CGAGCTGAATAACGGGAACCTCATA
* *
9431449 CGAGCTGAATAACGTGAAGCTCATA
1 CGAGCTGAATAACGGGAACCTCATA
*
9431474 AGAGCTGAA
1 CGAGCTGAA
9431483 ATCAGTGACC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (25 bp):
CGAGCTGAATAACGGGAACCTCATA
Found at i:9439131 original size:22 final size:24
Alignment explanation
Indices: 9439089--9439133 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
9439079 CTACTAAGTT
9439089 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
9439113 TACTT-CTTTTCT-ACTTAATTC
1 TACTTACTTTTCTAACTTAATTC
9439134 TTTGCCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.43
23 7 0.33
24 5 0.24
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.53
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:9439476 original size:6 final size:6
Alignment explanation
Indices: 9439459--9439489 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
9439449 TAGTTTTTCC
*
9439459 TTTCTT TCTCTT TTTCTT TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
9439490 CTTTCTCCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTCTT
Found at i:9439588 original size:19 final size:19
Alignment explanation
Indices: 9439541--9439577 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
9439531 CTGTTTCTTT
9439541 CTTTCTTTTATTTCATTTG
1 CTTTCTTTTATTTCATTTG
9439560 CTTTCTTTTATTTCATTT
1 CTTTCTTTTATTTCATTT
9439578 CATTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.16, G:0.03, T:0.70
Consensus pattern (19 bp):
CTTTCTTTTATTTCATTTG
Found at i:9442491 original size:23 final size:24
Alignment explanation
Indices: 9442465--9442509 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
9442455 TGTAAGTAAA
9442465 CTTTTACCCTTTACTCT-TTTACT
1 CTTTTACCCTTTACTCTATTTACT
9442488 CTTTTACCCTTTACTCTATTTA
1 CTTTTACCCTTTACTCTATTTA
9442510 ATCATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.16, C:0.29, G:0.00, T:0.56
Consensus pattern (24 bp):
CTTTTACCCTTTACTCTATTTACT
Found at i:9447605 original size:16 final size:16
Alignment explanation
Indices: 9447573--9447618 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
9447563 AACTTTTAAT
*
9447573 TTCTTTGTT-TTTGTTG
1 TTCTTTCTTCTTT-TTG
9447589 TTCTTTCTTCTTTTTG
1 TTCTTTCTTCTTTTTG
*
9447605 TTTTTTCTTCTTTT
1 TTCTTTCTTCTTTT
9447619 CTGCGACTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 24 0.89
17 3 0.11
ACGTcount: A:0.00, C:0.13, G:0.09, T:0.78
Consensus pattern (16 bp):
TTCTTTCTTCTTTTTG
Found at i:9449557 original size:15 final size:16
Alignment explanation
Indices: 9449537--9449566 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9449527 TGGTGCGTTG
9449537 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
9449552 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
9449567 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:9457086 original size:79 final size:79
Alignment explanation
Indices: 9457003--9457162 Score: 230
Period size: 79 Copynumber: 2.0 Consensus size: 79
9456993 AATCTCATCA
* *
9457003 AATCAATTATACTTAATATAATAATACAAAAGATCATAAAATCAACTTATATCTTCATGGATTAC
1 AATCAATTATACTTAATATAAGAATACAAAAGATCATAAAATCAACTCATATCTTCATGGATTAC
*
9457068 ATATCTCAATATAT
66 ATATCTCAACATAT
* * * * * **
9457082 AATCAATTGTCCTTAATATAAGGATACAAAAGATCATAAAATTATCTCATATCTTCATGGATTGT
1 AATCAATTATACTTAATATAAGAATACAAAAGATCATAAAATCAACTCATATCTTCATGGATTAC
9457147 ATATCTCAACATAT
66 ATATCTCAACATAT
9457161 AA
1 AA
9457163 GGTAAATGGA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 71 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.35
Consensus pattern (79 bp):
AATCAATTATACTTAATATAAGAATACAAAAGATCATAAAATCAACTCATATCTTCATGGATTAC
ATATCTCAACATAT
Done.