Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold148
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: 1464219
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.32
Warning! 85296 characters in sequence are not A, C, G, or T
File 8 of 9
Found at i:1145104 original size:212 final size:212
Alignment explanation
Indices: 1144737--1145162 Score: 843
Period size: 212 Copynumber: 2.0 Consensus size: 212
1144727 TCACTTCCCT
1144737 TGCTTCTCTAGCTGATGGAATGTTGTATTTATAGGCTAGATTGATGATATATTCGTTGGAGATGA
1 TGCTTCTCTAGCTGATGGAATGTTGTATTTATAGGCTAGATTGATGATATATTCGTTGGAGATGA
*
1144802 AATAATGGAGTTTATAGCCGTTGTAGACTTGTTTAAACGTTGTTTCCGCATTTACACGCTCCAAT
66 AATAATGGAGTTTATAGCCGTTGTAGACTTGTTTAAACGTTGTTTCCGCACTTACACGCTCCAAT
1144867 GTATCGATACAATTTATAATGTATCGATACATGCATTTAAAAATATAGCCGTTGGGCTTTTATTA
131 GTATCGATACAATTTATAATGTATCGATACATGCATTTAAAAATATAGCCGTTGGGCTTTTATTA
1144932 AATAGTGTGAACAGTGA
196 AATAGTGTGAACAGTGA
1144949 TGCTTCTCTAGCTGATGGAATGTTGTATTTATAGGCTAGATTGATGATATATTCGTTGGAGATGA
1 TGCTTCTCTAGCTGATGGAATGTTGTATTTATAGGCTAGATTGATGATATATTCGTTGGAGATGA
1145014 AATAATGGAGTTTATAGCCGTTGTAGACTTGTTTAAACGTTGTTTCCGCACTTACACGCTCCAAT
66 AATAATGGAGTTTATAGCCGTTGTAGACTTGTTTAAACGTTGTTTCCGCACTTACACGCTCCAAT
1145079 GTATCGATACAATTTATAATGTATCGATACATGCATTTAAAAATATAGCCGTTGGGCTTTTATTA
131 GTATCGATACAATTTATAATGTATCGATACATGCATTTAAAAATATAGCCGTTGGGCTTTTATTA
1145144 AATAGTGTGAACAGTGA
196 AATAGTGTGAACAGTGA
1145161 TG
1 TG
1145163 TATCGATACT
Statistics
Matches: 213, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
212 213 1.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (212 bp):
TGCTTCTCTAGCTGATGGAATGTTGTATTTATAGGCTAGATTGATGATATATTCGTTGGAGATGA
AATAATGGAGTTTATAGCCGTTGTAGACTTGTTTAAACGTTGTTTCCGCACTTACACGCTCCAAT
GTATCGATACAATTTATAATGTATCGATACATGCATTTAAAAATATAGCCGTTGGGCTTTTATTA
AATAGTGTGAACAGTGA
Found at i:1145197 original size:13 final size:13
Alignment explanation
Indices: 1145176--1145205 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1145166 CGATACTATT
*
1145176 TACAGTGTATCGA
1 TACAATGTATCGA
1145189 TACAATGTATCGA
1 TACAATGTATCGA
1145202 TACA
1 TACA
1145206 TGAATAGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:1145273 original size:16 final size:15
Alignment explanation
Indices: 1145247--1145277 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
1145237 GTGATACGTG
1145247 AACAGTATGAACAGT
1 AACAGTATGAACAGT
1145262 AACAGCTATGAACAGT
1 AACAG-TATGAACAGT
1145278 GATGTATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.19
Consensus pattern (15 bp):
AACAGTATGAACAGT
Found at i:1148546 original size:84 final size:84
Alignment explanation
Indices: 1148391--1148555 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
1148381 CATTTTCCAC
* * * *
1148391 TTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
1148456 TCATTGATTTACTTTCATT
66 TCATTGATTTACTTTCATT
* *
1148475 TTGCAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTA
1 TTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCTA
* * *
1148537 CACTTATTGATTTATTTTC
63 AACTCATTGATTTACTTTC
1148556 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 9 0.13
84 54 0.78
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:1152152 original size:23 final size:23
Alignment explanation
Indices: 1152124--1152170 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
1152114 CTCAATCACA
*
1152124 TTTTAAATAGTATTAGAATTTAT
1 TTTTAAATAGTATTAAAATTTAT
1152147 TTTTAAATAGTATTAAAATTTAT
1 TTTTAAATAGTATTAAAATTTAT
1152170 T
1 T
1152171 ACTCATTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.53
Consensus pattern (23 bp):
TTTTAAATAGTATTAAAATTTAT
Found at i:1153720 original size:20 final size:21
Alignment explanation
Indices: 1153680--1153729 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
1153670 CTACAATTTA
*
1153680 TATCGATACGACAAGTTAATG
1 TATCGATACGACAAGTGAATG
*
1153701 TATCGATAC-ATAAGTGAATG
1 TATCGATACGACAAGTGAATG
*
1153721 CATCGATAC
1 TATCGATAC
1153730 TGGACCCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (21 bp):
TATCGATACGACAAGTGAATG
Found at i:1156703 original size:20 final size:20
Alignment explanation
Indices: 1156678--1156732 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
1156668 CTGCCAAGCA
1156678 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGA-TC
1156698 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
1156718 TTTGTATCGATACAT
1 AATGTATCGATACAT
1156733 CTGAGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:1164867 original size:20 final size:20
Alignment explanation
Indices: 1164838--1164912 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
1164828 AAAAAGACAT
1164838 AATGTATCGATACATTGCAA
1 AATGTATCGATACATTGCAA
*
1164858 AATATATCGATACATT-CATA
1 AATGTATCGATACATTGCA-A
* * * *
1164878 CATGTATCGATATATAGAAA
1 AATGTATCGATACATTGCAA
1164898 AATGTATCGATACAT
1 AATGTATCGATACAT
1164913 CAGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:1164900 original size:40 final size:39
Alignment explanation
Indices: 1164835--1164912 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1164825 GGTAAAAAGA
* *
1164835 CATAATGTATCGATACATTGCAAAATATATCGATACATT
1 CATAATGTATCGATACATAGAAAAATATATCGATACATT
* *
1164874 CATACATGTATCGATATATAGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATAGAAAAATATATCGATACAT
1164913 CAGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (39 bp):
CATAATGTATCGATACATAGAAAAATATATCGATACATT
Found at i:1165917 original size:115 final size:116
Alignment explanation
Indices: 1165527--1168393 Score: 4005
Period size: 115 Copynumber: 24.9 Consensus size: 116
1165517 ACTGACACGC
1165527 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC-TTGAAAA-GGTGCCACTGACTTGCATGGG
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTG--TGGG
*
1165590 CTTT-AAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAAG-GTGCCACTGAATT
64 CTTTGAAAA-GAGTGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGACTT
* * * *
1165644 GTGGGCTTCG-CAAGGGTGCCACTGACTTGTGGGCTTCG-AAAGGGTGCCACTGACTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
* * ** *
1165707 CTG-AAAGGGTGCCACAAACTTGTGGGCTTTG-AAAGGGTGCCACTGACTT
66 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
* * * * *
1165756 GTGGGCTCTG-AAAGGGTGCCACTAACTTGAGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
* * * *
1165819 TTGAAAAGAGTGCCACAGATTTGTGGGCTTTGAAAGGAGTGCCACTAACTT
66 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1165870 GTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
*
1165934 TTGAAAAGAGTGCCACTGA-TCTATGGGCTTTGAAAAGAGTGCCACTGACTT
66 TTGAAAAGAGTGCCACTGACT-TGTGGGCTTTGAAAAGAGTGCCACTGACTT
* * * * * *
1165985 GTAGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCTTTGAAAAGAGTGCCACTAATTTATGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
* * * *
1166050 TTG-AAAGGGTGCCACCGACTTGTGGGCTTTGAAAAGAGTGCCACTAATTT
66 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
* * * *
1166100 GTGGGCTTTGAAAAGAGTGTCACTGATTTATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
* * *
1166165 TTGAAAGGAGTGCCATTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
66 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1166216 GTGGGCTTTGAAAGGAGTGCCACTCACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
1166280 TTGAAAAGAGTGCCACTGACTT-TGGGGCTTTGAAAA-AGGTGCCACTGACTT
66 TTGAAAAGAGTGCCACTGACTTGT-GGGCTTTGAAAAGA-GTGCCACTGACTT
*
1166331 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
* * *
1166396 TTG-AAAGGGTGCCACTAATTTGTGGGCTTTGAAAAGAGTGCCACTGA-TAT
66 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT-T
* *
1166446 ATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGAGTGCCACTAACTTGTGGGC
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGG-GTGCCACTGACTTGTGGGC
* *
1166510 TTTGAAAAGAGTGCCACTGACTTGTGGGTTTTG-AAAGGGTGCCACTGACTT
65 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1166561 GTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGGGTGCCACTGACTTATGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
* * *
1166626 TTGAAAAGAGTGCCATTGATTTGTGGGCTTT-AAAAGGGTGCCACTGACTT
66 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
* * * * *
1166676 GTGGGCTTTAAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTCGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
* *
1166741 TTG-AAAGGGTGCCACTGACTTGTGGGCTTT-AAACAGAGTGCCACTGATTT
66 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA-AGAGTGCCACTGACTT
*
1166791 GTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGAGTGCCACTGACTTGTGGGC
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGG-GTGCCACTGACTTGTGGGC
* *
1166855 TTTG-AAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGA-TCT
65 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT-T
* *
1166906 ATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGAGTGCCACTGACTTATGGGC
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGG-GTGCCACTGACTTGTGGGC
* * *
1166970 TTTGAAAAGAGTGCCACTGACTTGTGGGTTTTG-AAAGGGTGCCATTGACTT
65 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
* * *
1167021 GTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGTTTTGAAAAGAGTGCCACTGACTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
* * * * *
1167086 TTGAAAGGAGCGCCACTGACTTGTGGTCTTTG-AAAGGGTGCCACTGATTT
66 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
* * * **
1167136 GTGGGCTTTAAAAAGAGTGCCACTGA-TCTATAGGCTTTGAAAAAAGTGCCACTGACTTGTGGGC
1 GTGGGCTTTGAAAAGAGTGCCACTGACT-TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGC
*
1167200 TTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
65 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
* * *
1167252 GTGGGTTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
* * * *
1167315 TTGAAAAGAGTGCCACTGA-TCTATGGGCTTTGAAAAAAATGCCATTGACTT
66 TTGAAAAGAGTGCCACTGACT-TGTGGGCTTTGAAAAGAGTGCCACTGACTT
* * * *
1167366 GTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTCACTTGTGGGTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
* *
1167431 TTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTT
66 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1167481 GTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTCTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTG-C-C--A---CTGACTT
* * *
1167546 GTGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCTTTGAAAAGAGTGCCATTGATTT
59 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1167604 GTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
* * *
1167667 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTAAAAAGGGTGCCACTAACTT
66 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
* * *
1167718 GTGGGCTTTGAAAAGGGTGCCACTGACTTGTGAGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
* * *
1167783 TTGAAAAGAGTGCCACTGATTTGTGGGCTTTG-AAAGGGTGGCACTGACTT
66 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
* * *
1167833 GTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGAATTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
* * *
1167898 TTGAAAAGTGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGGCACTGATTT
66 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
* * *
1167949 GTGGGCTTTGAAAAGGGTGCTACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
* * *
1168014 TTGAAAAGAGTGGCACTGACTTGTGGGTTTTG-AAAGGGTGCCACTGACTT
66 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1168064 GTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
* * *
1168129 TTGAAAAGAGTGCCACTGACTTATGGGCTTTGAAAAGAGTGCCATTGATTT
66 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
* * * * *
1168180 GTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGAGTGCCACTAACTTGTGGGTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
* * *
1168244 TTGAAAAGAGTGCCACTGATTTGTGGGCTTT-CAAAGGGTGCCACTGACTT
66 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1168294 GTGGGCTTTAAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
*
1168359 TTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAA
66 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
1168394 GGGATGAACA
Statistics
Matches: 2467, Mismatches: 233, Indels: 101
0.88 0.08 0.04
Matches are distributed among these distances:
111 4 0.00
112 81 0.03
113 27 0.01
114 242 0.10
115 1524 0.62
116 454 0.18
117 28 0.01
119 2 0.00
120 1 0.00
121 7 0.00
122 44 0.02
123 53 0.02
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.29
Consensus pattern (116 bp):
GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCT
TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT
Found at i:1166004 original size:144 final size:145
Alignment explanation
Indices: 1165527--1168393 Score: 4001
Period size: 144 Copynumber: 19.9 Consensus size: 145
1165517 ACTGACACGC
1165527 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC-TTGAAAAG-GTGCCACTGACTTGCATGGG
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTG--TGGG
* * *
1165590 CTTTAAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAAG-GTGCCACTGAATTGTGGGCTTCG
64 CTTTGAAAGGAGTGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
1165654 -CAAGGGTGCCACTGACTT
127 AAAAGAGTGCCACTGACTT
* * * * **
1165672 GTGGGCTTCG-AAAGGGTGCCACTGACTTGTGGGCTCTG-AAAGGGTGCCACAAACTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* * * *
1165735 TTGAAAGG-GTGCCACTGACTTGTGGGCTCTG-AAAGGGTGCCACTAACTTGAGGGCTTTG-AAA
66 TTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA
* *
1165797 GGGTGCCACTAACTT
131 GAGTGCCACTGACTT
* * * *
1165812 GTGGGCTTTGAAAAGAGTGCCACAGATTTGTGGGCTTTGAAAGGAGTGCCACTAACTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* *
1165877 TTGAAAGGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTGGGCTTTGAAAA
66 TTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA
1165941 GAGTGCCACTGA-TCT
131 GAGTGCCACTGACT-T
* * *
1165956 ATGGGCTTTGAAAAGAGTGCCACTGACTTGTAGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* * * * * *
1166021 TTGAAAAGAGTGCCACTAATTTATGGGCTTTG-AAAGGGTGCCACCGACTTGTGGGCTTTGAAAA
66 TTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA
* *
1166085 GAGTGCCACTAATTT
131 GAGTGCCACTGACTT
* * *
1166100 GTGGGCTTTGAAAAGAGTGTCACTGATTTATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* * *
1166165 TTGAAAGGAGTGCCATTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG
66 TTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA
*
1166230 GAGTGCCACTCACTT
131 GAGTGCCACTGACTT
*
1166245 GTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT-TGGGGC
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGT-GGGC
*
1166308 TTTGAAA-AAGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAA
65 TTTGAAAGGA-GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAA
1166372 AAGAGTGCCACTGACTT
129 AAGAGTGCCACTGACTT
* * * *
1166389 GTGGGCTTTG-AAAGGGTGCCACTAATTTGTGGGCTTTGAAAAGAGTGCCACTGA-TATATGGGC
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT-TGTGGGC
* * *
1166452 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTAACTTGTGGGCTTTGAAA
65 TTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
1166517 AGAGTGCCACTGACTT
130 AGAGTGCCACTGACTT
* * *
1166533 GTGGGTTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* * *
1166597 TTGAAAAGG-GTGCCACTGACTTATGGGCTTTGAAAAGAGTGCCATTGATTTGTGGGCTTT-AAA
66 TTG-AAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
*
1166660 AGGGTGCCACTGACTT
130 AGAGTGCCACTGACTT
* * * *
1166676 GTGGGCTTTAAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTCGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
*
1166741 TTGAAAGG-GTGCCACTGACTTGTGGGCTTT-AAACAGAGTGCCACTGATTTGTGGGCTTTGAAA
66 TTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAA-AGAGTGCCACTGACTTGTGGGCTTTGAAA
*
1166804 AGGGTGCCACTGACTT
130 AGAGTGCCACTGACTT
* * *
1166820 GTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* *
1166884 TTGAAAAGAGTGCCACTGA-TCTATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
66 TTGAAAGGAGTGCCACTGACT-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
*
1166948 GGAGTGCCACTGACTT
130 AGAGTGCCACTGACTT
* * * *
1166964 ATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGTTTTG-AAAGGGTGCCATTGACTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* * * *
1167028 TTGAAAAGAGTGCCACTAACTTGTGGGTTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAG
66 TTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA
*
1167093 GAGCGCCACTGACTT
131 GAGTGCCACTGACTT
* * * * * *
1167108 GTGGTCTTTG-AAAGGGTGCCACTGATTTGTGGGCTTTAAAAAGAGTGCCACTGA-TCTATAGGC
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT-TGTGGGC
** *
1167171 TTTGAAAAAAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAA
65 TTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
1167236 AGAGTGCCACTGACTT
130 AGAGTGCCACTGACTT
* * * *
1167252 GTGGGTTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* * * * *
1167315 TTGAAAAGAGTGCCACTGA-TCTATGGGCTTTGAAAAAAATGCCATTGACTTGTGGGCTTTGAAA
66 TTGAAAGGAGTGCCACTGACT-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
*
1167379 GGAGTGCCACTGACTT
130 AGAGTGCCACTGACTT
* * *
1167395 GTGGGCTTTGAAAAGAGTGCCACTCACTTGTGGGTTTTG-AAAGGGTGCCACTGACTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* * *
1167459 TTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA
66 TTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA
1167524 GAGTGCCACTGACTTCTGACTT
131 GAGTG-C-C--A---CTGACTT
* * *
1167546 GTGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCTTTGAAAAGAGTGCCATTGATTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* *
1167611 TTAAAAGG-GTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAA
66 TTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA
1167674 GAGTGCCACTGACTT
131 GAGTGCCACTGACTT
* * * * *
1167689 GTGGGCTTTAAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGAGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* *
1167754 TTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTG-AAA
66 TTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA
* *
1167818 GGGTGGCACTGACTT
131 GAGTGCCACTGACTT
* *
1167833 GTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGAATTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* * * *
1167898 TTGAAAAGTGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGGCACTGATTTGTGGGCTTTGAAAA
66 TTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA
* *
1167963 GGGTGCTACTGACTT
131 GAGTGCCACTGACTT
* *
1167978 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGGCACTGACTTGTGGGTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
*
1168043 TTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAA
66 TTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA
*
1168107 GGGTGCCACTGACTT
131 GAGTGCCACTGACTT
* * *
1168122 GTGGGCTTTGAAAAGAGTGCCACTGACTTATGGGCTTTGAAAAGAGTGCCATTGATTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
* * * *
1168187 TTAAAAGG-GTGCCACTGACTTGTGGGCTTTAAAAAGAGTGCCACTAACTTGTGGGTTTTGAAAA
66 TTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA
*
1168251 GAGTGCCACTGATTT
131 GAGTGCCACTGACTT
* * * *
1168266 GTGGGCTTT-CAAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGAGTGCCACTGATTTGTGGGCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
*
1168330 TTGAAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAA
66 TTG-AAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
1168394 GGGATGAACA
Statistics
Matches: 2469, Mismatches: 211, Indels: 85
0.89 0.08 0.03
Matches are distributed among these distances:
139 4 0.00
140 54 0.02
141 25 0.01
142 45 0.02
143 418 0.17
144 1589 0.64
145 199 0.08
146 2 0.00
148 2 0.00
149 1 0.00
150 37 0.01
151 65 0.03
152 28 0.01
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.29
Consensus pattern (145 bp):
GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCT
TTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAA
GAGTGCCACTGACTT
Found at i:1168395 original size:29 final size:29
Alignment explanation
Indices: 1165527--1168393 Score: 4053
Period size: 29 Copynumber: 99.4 Consensus size: 29
1165517 ACTGACACGC
1165527 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1165556 GTGGGC-TTGAAAAG-GTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1165583 GCATGGGCTTT-AAAAGGAGTGCCACTGACTTGT
1 G--TGGGCTTTGAAAA-GAGTGCCACTGAC-T-T
*
1165616 GTGGGCTTTGAAAAG-GTGCCACTGAATT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* * *
1165644 GTGGGCTTCG-CAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1165672 GTGGGCTTCG-AAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* * **
1165700 GTGGGCTCTG-AAAGGGTGCCACAAACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1165728 GTGGGCTTTG-AAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* * *
1165756 GTGGGCTCTG-AAAGGGTGCCACTAACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* * *
1165784 GAGGGCTTTG-AAAGGGTGCCACTAACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1165812 GTGGGCTTTGAAAAGAGTGCCACAGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1165841 GTGGGCTTTGAAAGGAGTGCCACTAACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1165870 GTGGGCTTTGAAAGGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1165899 GTGGGCTTTG-AAAGGGTGCCACTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1165927 GTGGGCTTTGAAAAGAGTGCCACTGA-TCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACT-T
*
1165956 ATGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1165985 GTAGGCTTTGAAAAGAGTGCCATTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1166014 GTGGGCTTTGAAAAGAGTGCCACTAATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* * *
1166043 ATGGGCTTTG-AAAGGGTGCCACCGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1166071 GTGGGCTTTGAAAAGAGTGCCACTAATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1166100 GTGGGCTTTGAAAAGAGTGTCACTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1166129 ATGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* * *
1166158 GTGGGCTTTGAAAGGAGTGCCATTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1166187 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1166216 GTGGGCTTTGAAAGGAGTGCCACTCACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1166245 GTGGGCTTTG-AAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1166273 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1166302 -TGGGGCTTTGAAAA-AGGTGCCACTGACTT
1 GT-GGGCTTTGAAAAGA-GTGCCACTGACTT
1166331 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1166360 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* * *
1166389 GTGGGCTTTG-AAAGGGTGCCACTAATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1166417 GTGGGCTTTGAAAAGAGTGCCACTGA-TAT
1 GTGGGCTTTGAAAAGAGTGCCACTGACT-T
*
1166446 ATGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1166475 GTGGGCTTTGAAAGGAGTGCCACTAACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1166504 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1166533 GTGGGTTTTG-AAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1166561 GTGGGCTTTGAAAAGAGTGCCACTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1166590 GTGGGCTTTGAAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* * *
1166619 ATGGGCTTTGAAAAGAGTGCCATTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1166648 GTGGGCTTT-AAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1166676 GTGGGCTTTAAAAAGAGTGCCACTAACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1166705 GTGGGCTTTGAAAAGAGTGCCACTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1166734 GTCGGCTTTG-AAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1166762 GTGGGCTTT-AAACAGAGTGCCACTGATTT
1 GTGGGCTTTGAAA-AGAGTGCCACTGACTT
*
1166791 GTGGGCTTTGAAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1166820 GTGGGCTTTGAAAGGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1166849 GTGGGCTTTG-AAAGGGTGCCACTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1166877 GTGGGCTTTGAAAAGAGTGCCACTGA-TCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACT-T
*
1166906 ATGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1166935 GTGGGCTTTGAAAGGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1166964 ATGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* * *
1166993 GTGGGTTTTG-AAAGGGTGCCATTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1167021 GTGGGCTTTGAAAAGAGTGCCACTAACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1167050 GTGGGTTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1167079 GTGGGCTTTGAAAGGAGCGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* * *
1167108 GTGGTCTTTG-AAAGGGTGCCACTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1167136 GTGGGCTTTAAAAAGAGTGCCACTGA-TCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACT-T
* * *
1167165 ATAGGCTTTGAAAAAAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1167194 GTGGGCTTTGAAAGGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1167223 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1167252 GTGGGTTTTG-AAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1167280 GTGGGCTTTG-AAAGGGTGCCACTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1167308 GTGGGCTTTGAAAAGAGTGCCACTGA-TCT
1 GTGGGCTTTGAAAAGAGTGCCACTGACT-T
* * * *
1167337 ATGGGCTTTGAAAAAAATGCCATTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1167366 GTGGGCTTTGAAAGGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1167395 GTGGGCTTTGAAAAGAGTGCCACTCACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1167424 GTGGGTTTTG-AAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1167452 GTGGGCTTTGAAAAGAGTGCCACTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1167481 GTGGGCTTTGAAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1167510 GTGGGCTTTGAAAAGAGTGCCACTGACTTCTGACTT
1 GTGGGCTTTGAAAAGAGTG-C-C--A---CTGACTT
1167546 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* * *
1167575 ATGGGCTTTGAAAAGAGTGCCATTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1167604 GTGGGCTTT-AAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1167632 GTGGGCTTTG-AAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1167660 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* * *
1167689 GTGGGCTTTAAAAAGGGTGCCACTAACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1167718 GTGGGCTTTGAAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1167747 GTGAGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1167776 GTGGGCTTTGAAAAGAGTGCCACTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1167805 GTGGGCTTTG-AAAGGGTGGCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1167833 GTGGGCTTTGAAAAGAGTGCCACTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1167862 GTGGGCTTTGAAAAGAGTGCCACTGAATT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1167891 GTGGGCTTTGAAAAGTGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1167920 GTGGGCTTTGAAAAGAGTGGCACTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1167949 GTGGGCTTTGAAAAGGGTGCTACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1167978 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1168007 GTGGGCTTTGAAAAGAGTGGCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1168036 GTGGGTTTTG-AAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1168064 GTGGGCTTTGAAAAGAGTGCCACTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1168093 GTGGGCTTTGAAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1168122 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* * *
1168151 ATGGGCTTTGAAAAGAGTGCCATTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1168180 GTGGGCTTT-AAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1168208 GTGGGCTTTAAAAAGAGTGCCACTAACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1168237 GTGGGTTTTGAAAAGAGTGCCACTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1168266 GTGGGCTTT-CAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
* *
1168294 GTGGGCTTTAAAAAGAGTGCCACTGATTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1168323 GTGGGCTTTGAAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
*
1168352 GTGGGCTTTGAAAGGAGTGCCACTGACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTT
1168381 GTGGGCTTTGAAA
1 GTGGGCTTTGAAA
1168394 GGGATGAACA
Statistics
Matches: 2546, Mismatches: 241, Indels: 102
0.88 0.08 0.04
Matches are distributed among these distances:
27 17 0.01
28 652 0.26
29 1795 0.71
30 24 0.01
31 21 0.01
32 6 0.00
33 3 0.00
34 1 0.00
35 1 0.00
36 26 0.01
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.29
Consensus pattern (29 bp):
GTGGGCTTTGAAAAGAGTGCCACTGACTT
Found at i:1169623 original size:12 final size:11
Alignment explanation
Indices: 1169609--1169687 Score: 86
Period size: 12 Copynumber: 6.6 Consensus size: 11
1169599 GACCCTTCTA
1169609 TTTTTTTTGCTAT
1 TTTTTTTTG-T-T
*
1169622 TTTTTCTTGTT
1 TTTTTTTTGTT
*
1169633 TTTTTTTGTTTT
1 TTTTTTT-TGTT
1169645 TTTTGTTTTGTT
1 TTTT-TTTTGTT
1169657 TTTTGTTTTGTTT
1 TTTT-TTTTG-TT
1169670 TTTTTTTTGTT
1 TTTTTTTTGTT
1169681 TTTTTTT
1 TTTTTTT
1169688 GGGTGTAAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
11 16 0.27
12 26 0.44
13 17 0.29
ACGTcount: A:0.01, C:0.03, G:0.10, T:0.86
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:1169625 original size:1 final size:1
Alignment explanation
Indices: 1169621--1169687 Score: 62
Period size: 1 Copynumber: 67.0 Consensus size: 1
1169611 TTTTTTGCTA
* * * * * * * *
1169621 TTTTTTCTTGTTTTTTTTTGTTTTTTTTGTTTTGTTTTTTGTTTTGTTTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1169686 TT
1 TT
1169688 GGGTGTAAAG
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.01, G:0.10, T:0.88
Consensus pattern (1 bp):
T
Found at i:1169634 original size:9 final size:9
Alignment explanation
Indices: 1169621--1169686 Score: 71
Period size: 9 Copynumber: 6.9 Consensus size: 9
1169611 TTTTTTGCTA
1169621 TTTTTTCTTG
1 TTTTTT-TTG
1169631 TTTTTTTTTG
1 -TTTTTTTTG
1169641 TTTTTTTTG
1 TTTTTTTTG
1169650 TTTTGTTTT-
1 TTTT-TTTTG
*
1169659 TTGTTTTGTTT
1 TT-TTTT-TTG
1169670 TTTTTTTTG
1 TTTTTTTTG
1169679 TTTTTTTT
1 TTTTTTTT
1169687 TGGGTGTAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
9 27 0.54
10 15 0.30
11 8 0.16
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:1169636 original size:24 final size:23
Alignment explanation
Indices: 1169609--1169687 Score: 97
Period size: 23 Copynumber: 3.3 Consensus size: 23
1169599 GACCCTTCTA
* *
1169609 TTTTTTTTGCTATTTTTTCTTG-T
1 TTTTTTTTG-TTTTTTTTTTTGTT
1169632 TTTTTTTTGTTTTTTTTGTTTTGTT
1 TTTTTTTTG-TTTTTTT-TTTTGTT
1169657 TTTTGTTTTGTTTTTTTTTTTGTT
1 TTTT-TTTTGTTTTTTTTTTTGTT
1169681 TTTTTTT
1 TTTTTTT
1169688 GGGTGTAAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
23 18 0.36
24 15 0.30
25 12 0.24
26 5 0.10
ACGTcount: A:0.01, C:0.03, G:0.10, T:0.86
Consensus pattern (23 bp):
TTTTTTTTGTTTTTTTTTTTGTT
Found at i:1183652 original size:20 final size:20
Alignment explanation
Indices: 1183623--1183697 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
1183613 AAAAAGACAT
*
1183623 AATGTATCGATACATTGCAG
1 AATGTATCGATACATTGCAA
*
1183643 AATATATCGATACATT-CATA
1 AATGTATCGATACATTGCA-A
* * *
1183663 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGCAA
1183683 AATGTATCGATACAT
1 AATGTATCGATACAT
1183698 CAGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:1183691 original size:40 final size:39
Alignment explanation
Indices: 1183620--1183697 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1183610 GGTAAAAAGA
* *
1183620 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1183659 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1183698 CAGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1184550 original size:31 final size:31
Alignment explanation
Indices: 1184512--1184571 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
1184502 TTTGAAATTT
1184512 TTTAAACATTATAAATCTAAAATAAAAAAAA
1 TTTAAACATTATAAATCTAAAATAAAAAAAA
1184543 TTTAAACATTATAAATCTAAAATAAAAAA
1 TTTAAACATTATAAATCTAAAATAAAAAA
1184572 TTTCCATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (31 bp):
TTTAAACATTATAAATCTAAAATAAAAAAAA
Found at i:1187027 original size:13 final size:13
Alignment explanation
Indices: 1187009--1187034 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1186999 AATTTTTTGG
1187009 TGTATCGATACAT
1 TGTATCGATACAT
1187022 TGTATCGATACAT
1 TGTATCGATACAT
1187035 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1187049 original size:32 final size:34
Alignment explanation
Indices: 1186988--1187052 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
1186978 TACAAGCCAA
**
1186988 TGTATCGATACAATTTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTTGGTGTATCGATACAT
1187022 TGTATCGATAC-ATACTTT-GTGTATCGATACA
1 TGTATCGATACAATACTTTGGTGTATCGATACA
1187053 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 5 0.17
34 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (34 bp):
TGTATCGATACAATACTTTGGTGTATCGATACAT
Found at i:1188126 original size:32 final size:32
Alignment explanation
Indices: 1188083--1188144 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
1188073 ATTTTAATGA
* *
1188083 ATGAATGCATTTAGATAAACGAATATATTTAT
1 ATGAATACATTTAGATAAACAAATATATTTAT
* * *
1188115 ATGAATACATTTGGATGAATAAATATATTT
1 ATGAATACATTTAGATAAACAAATATATTT
1188145 TTTGGATGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.39
Consensus pattern (32 bp):
ATGAATACATTTAGATAAACAAATATATTTAT
Found at i:1188165 original size:21 final size:21
Alignment explanation
Indices: 1188124--1188165 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1188114 TATGAATACA
*
1188124 TTTGGATGAATAAATATATTT
1 TTTGGATGAATAAATACATTT
* *
1188145 TTTGGATGAATGAATGCATTT
1 TTTGGATGAATAAATACATTT
1188166 GAATGCATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.45
Consensus pattern (21 bp):
TTTGGATGAATAAATACATTT
Found at i:1188517 original size:179 final size:179
Alignment explanation
Indices: 1188209--1188565 Score: 529
Period size: 179 Copynumber: 2.0 Consensus size: 179
1188199 AGATTCATGA
* * * * *
1188209 TTTGTGAAAAAACTTATCGATTAAGACATATCTTTTTAATTATGTCTTTTGATGATCTATCAATA
1 TTTGTGAAAAAACTTATCAATCAAAACATATCTCTTTAATTATGTCTTTTGATAATCTATCAATA
** ** *
1188274 TTAATCCTAATTGCCAAAATCTTCATATCAAAATTGTCCAAAAATTATTAAAGTTTACTAGAGAG
66 CCAATCCTAATTGCCAAAATCTTCATATCAAAATAATCCAAAAATTACTAAAGTTTACTAGAGAG
*
1188339 AATAA-AAGTTTATAGTATTCTTTAATATTACTAATTGTAGAACTCATAG
131 AATAAGAA-TTTATAGTATTCTTTAATATTACTAATTGTAAAACTCATAG
* *
1188388 TTTGTGAAAAGACTTATCAATCAAAACATATCTCTTTGATTATGTCTTTTGATAATCTATCAATA
1 TTTGTGAAAAAACTTATCAATCAAAACATATCTCTTTAATTATGTCTTTTGATAATCTATCAATA
* *
1188453 CCAATCCTAATTGCCAAAATCTTCATATCAAAATAATCTC-AAAATTACTAGAGTTTATTAGAGA
66 CCAATCCTAATTGCCAAAATCTTCATATCAAAATAATC-CAAAAATTACTAAAGTTTACTAGAGA
* *
1188517 GAATAAGAATTTATAGTGTTCTTTAATATTGCTAATTGTAAAACTCATA
130 GAATAAGAATTTATAGTATTCTTTAATATTACTAATTGTAAAACTCATA
1188566 AAGCTTCATT
Statistics
Matches: 159, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
179 156 0.98
180 3 0.02
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (179 bp):
TTTGTGAAAAAACTTATCAATCAAAACATATCTCTTTAATTATGTCTTTTGATAATCTATCAATA
CCAATCCTAATTGCCAAAATCTTCATATCAAAATAATCCAAAAATTACTAAAGTTTACTAGAGAG
AATAAGAATTTATAGTATTCTTTAATATTACTAATTGTAAAACTCATAG
Found at i:1189088 original size:58 final size:58
Alignment explanation
Indices: 1189018--1189186 Score: 229
Period size: 58 Copynumber: 2.9 Consensus size: 58
1189008 TCATTTTTCC
1189018 CCCATAAAATTAGAATCCAATTTCTAGCCATAGTTAAGAATGGAAATTATTTGTT-TT
1 CCCATAAAATTAGAATCCAATTTCTAGCCATAGTTAAGAATGGAAATTATTTGTTGTT
*
1189075 CCCTATGAAATTAGAATCCAA-TTCTTAGCCATAGTTAAGAAT-GAGAATTATTTGTTGTT
1 CCC-ATAAAATTAGAATCCAATTTC-TAGCCATAGTTAAGAATGGA-AATTATTTGTTGTT
* * * * *
1189134 TCCATAAAATTAGAATCCAATTCCTGGTCATAGTTAA-AATGGGAATTATTTGT
1 CCCATAAAATTAGAATCCAATTTCTAGCCATAGTTAAGAATGGAAATTATTTGT
1189187 GAGTCATATC
Statistics
Matches: 99, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
57 21 0.21
58 72 0.73
59 6 0.06
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
Consensus pattern (58 bp):
CCCATAAAATTAGAATCCAATTTCTAGCCATAGTTAAGAATGGAAATTATTTGTTGTT
Found at i:1189592 original size:35 final size:37
Alignment explanation
Indices: 1189553--1189633 Score: 114
Period size: 35 Copynumber: 2.2 Consensus size: 37
1189543 TGAATATATT
*
1189553 TTTTAATTTTTAATTTGTATCTGA-ATAAATTTTT-A-
1 TTTTAATTTTTAATTTATAT-TGATATAAATTTTTAAT
*
1189588 TTTTAATTTTTAATTTATATTTATATAAATTTTTAAT
1 TTTTAATTTTTAATTTATATTGATATAAATTTTTAAT
1189625 TTTTAATTT
1 TTTTAATTT
1189634 ATATTTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 2 0.05
35 29 0.71
36 1 0.02
37 9 0.22
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.64
Consensus pattern (37 bp):
TTTTAATTTTTAATTTATATTGATATAAATTTTTAAT
Found at i:1189600 original size:7 final size:7
Alignment explanation
Indices: 1189580--1189633 Score: 51
Period size: 7 Copynumber: 7.7 Consensus size: 7
1189570 TATCTGAATA
1189580 AATTTTT
1 AATTTTT
1189587 -A-TTTT
1 AATTTTT
1189592 AATTTTT
1 AATTTTT
*
1189599 AATTTAT
1 AATTTTT
1189606 -ATTTATAT
1 AATTT-T-T
1189614 AAATTTTT
1 -AATTTTT
1189622 AATTTTT
1 AATTTTT
1189629 AATTT
1 AATTT
1189634 ATATTTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
5 4 0.10
6 6 0.15
7 22 0.56
8 2 0.05
9 1 0.03
10 4 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
AATTTTT
Found at i:1190199 original size:39 final size:37
Alignment explanation
Indices: 1190155--1190262 Score: 144
Period size: 37 Copynumber: 2.9 Consensus size: 37
1190145 TTTAAATTCG
* *
1190155 ATAAAAAAATATACTATGAATCTGATAAGTTTAACAAAT
1 ATAAAAAAATATA--ATAAATATGATAAGTTTAACAAAT
*
1190194 ATAAAATAATATAATAAATATGATAAGTTTAACAAAT
1 ATAAAAAAATATAATAAATATGATAAGTTTAACAAAT
* * *
1190231 ATAAAATAGTGTAATAAATATGATAAGTTTAA
1 ATAAAAAAATATAATAAATATGATAAGTTTAA
1190263 ATATAATTAA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 52 0.81
39 12 0.19
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (37 bp):
ATAAAAAAATATAATAAATATGATAAGTTTAACAAAT
Found at i:1190227 original size:37 final size:37
Alignment explanation
Indices: 1190177--1190262 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
1190167 ACTATGAATC
1190177 TGATAAGTTTAACAAATATAAAATAATATAATAAATA
1 TGATAAGTTTAACAAATATAAAATAATATAATAAATA
* *
1190214 TGATAAGTTTAACAAATATAAAATAGTGTAATAAATA
1 TGATAAGTTTAACAAATATAAAATAATATAATAAATA
1190251 TGATAAGTTTAA
1 TGATAAGTTTAA
1190263 ATATAATTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (37 bp):
TGATAAGTTTAACAAATATAAAATAATATAATAAATA
Found at i:1190265 original size:19 final size:18
Alignment explanation
Indices: 1190177--1190262 Score: 75
Period size: 19 Copynumber: 4.7 Consensus size: 18
1190167 ACTATGAATC
*
1190177 TGATAAGTTTAACAAATA
1 TGATAAGTTTAATAAATA
* *
1190195 TAAAATAA-TATAATAAATA
1 T--GATAAGTTTAATAAATA
*
1190214 TGATAAGTTTAACAAATA
1 TGATAAGTTTAATAAATA
* * *
1190232 TAAAATAGTGTAATAAATA
1 TGATA-AGTTTAATAAATA
1190251 TGATAAGTTTAA
1 TGATAAGTTTAA
1190263 ATATAATTAA
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
17 4 0.08
18 19 0.37
19 24 0.47
20 4 0.08
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (18 bp):
TGATAAGTTTAATAAATA
Found at i:1190465 original size:37 final size:37
Alignment explanation
Indices: 1190422--1190493 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 37
1190412 TTTTAAATTC
1190422 AATACAAAA-A-TATAATATTAATATGATAAGTTTAATA
1 AATACAAAATAGTATAATA--AATATGATAAGTTTAATA
1190459 AATACAAAATAGTATAATAAATATGATAAGTTTAA
1 AATACAAAATAGTATAATAAATATGATAAGTTTAA
1190494 ATATAATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
37 25 0.76
38 1 0.03
39 7 0.21
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (37 bp):
AATACAAAATAGTATAATAAATATGATAAGTTTAATA
Found at i:1190496 original size:19 final size:18
Alignment explanation
Indices: 1190441--1190493 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 18
1190431 ATATAATATT
1190441 AATATGATAAGTTTAATA
1 AATATGATAAGTTTAATA
** * *
1190459 AATACAAAATAGTATAATA
1 AATATGATA-AGTTTAATA
1190478 AATATGATAAGTTTAA
1 AATATGATAAGTTTAA
1190494 ATATAATTAA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (18 bp):
AATATGATAAGTTTAATA
Found at i:1190846 original size:29 final size:30
Alignment explanation
Indices: 1190814--1190877 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 30
1190804 CTTTAAAAAG
*
1190814 TTAAAAATATATTA-A-TTTTTATTTAATCT
1 TTAAAAAT-TATTATATTTTTTATTAAATCT
* * *
1190843 TTAATAATTTTTATATTTTTTATTAAATTT
1 TTAAAAATTATTATATTTTTTATTAAATCT
1190873 TTAAA
1 TTAAA
1190878 TATGAATAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 4 0.14
29 8 0.29
30 16 0.57
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (30 bp):
TTAAAAATTATTATATTTTTTATTAAATCT
Found at i:1190873 original size:10 final size:10
Alignment explanation
Indices: 1190823--1190875 Score: 54
Period size: 11 Copynumber: 5.2 Consensus size: 10
1190813 GTTAAAAATA
1190823 TATTAATTTT
1 TATTAATTTT
*
1190833 TATTTAATCTT
1 TA-TTAATTTT
*
1190844 TAATAATTTT
1 TATTAATTTT
*
1190854 TA-TATTTTT
1 TATTAATTTT
1190863 TATTAAATTTT
1 TATT-AATTTT
1190874 TA
1 TA
1190876 AATATGAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
9 8 0.23
10 11 0.31
11 16 0.46
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (10 bp):
TATTAATTTT
Found at i:1191284 original size:30 final size:30
Alignment explanation
Indices: 1191229--1191285 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
1191219 ATATAAATTA
*
1191229 TAAACTTTTAATTTTATTAAATTAAATCAT
1 TAAACTTTTAATTTTATAAAATTAAATCAT
1191259 TAAACTTTT-ATTATTA-AAAATTTAAAT
1 TAAACTTTTAATT-TTATAAAA-TTAAAT
1191286 TACTTACGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (30 bp):
TAAACTTTTAATTTTATAAAATTAAATCAT
Found at i:1191623 original size:17 final size:18
Alignment explanation
Indices: 1191588--1191630 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
1191578 TATTAACATA
*
1191588 AAAAAAAAAATGAAAAAG
1 AAAAAGAAAATGAAAAAG
*
1191606 AAAAAGAAAA-GAAGAAG
1 AAAAAGAAAATGAAAAAG
*
1191623 AAGAAGAA
1 AAAAAGAA
1191631 GGAAAGTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (18 bp):
AAAAAGAAAATGAAAAAG
Found at i:1192215 original size:5 final size:5
Alignment explanation
Indices: 1192207--1192261 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
1192197 ACAATTATAT
*
1192207 TATTA TATTA TAATTA -A-TA TGATTAA TATAA TATTA TATTA TATTA
1 TATTA TATTA T-ATTA TATTA T-ATT-A TATTA TATTA TATTA TATTA
*
1192253 TAATA TATT
1 TATTA TATT
1192262 TAATAATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 2 0.05
4 1 0.02
5 29 0.71
6 7 0.17
7 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (5 bp):
TATTA
Found at i:1193494 original size:19 final size:21
Alignment explanation
Indices: 1193470--1193513 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1193460 ATGTTTAATT
1193470 TTTAAAAAA-TAT-TTTTATA
1 TTTAAAAAATTATATTTTATA
1193489 TTTAAAAAATTATATTTTATA
1 TTTAAAAAATTATATTTTATA
1193510 TTTA
1 TTTA
1193514 TGTTTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 9 0.39
20 3 0.13
21 11 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTAAAAAATTATATTTTATA
Found at i:1194537 original size:20 final size:20
Alignment explanation
Indices: 1194499--1194538 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1194489 TATAATTAAT
* **
1194499 TTTTTAAAAAATTTTAAATA
1 TTTTAAAAAAATTAAAAATA
1194519 TTTTAAAAAAATTAAAAATA
1 TTTTAAAAAAATTAAAAATA
1194539 ATATTTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTTAAAAAAATTAAAAATA
Found at i:1194579 original size:13 final size:13
Alignment explanation
Indices: 1194553--1194589 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
1194543 TTTTATTTAT
1194553 TTAAATAT--ATA
1 TTAAATATAAATA
*
1194564 TTAGATATAAATA
1 TTAAATATAAATA
1194577 TTAAATATAAATA
1 TTAAATATAAATA
1194590 ATTTTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 7 0.32
13 15 0.68
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (13 bp):
TTAAATATAAATA
Found at i:1202469 original size:29 final size:30
Alignment explanation
Indices: 1202431--1202495 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
1202421 CCTTCACATT
1202431 AAAAAAGATTCATAGAACA-TTAAGAAAAA
1 AAAAAAGATTCATAGAACATTTAAGAAAAA
* **
1202460 AAAAAAGATTCGTAGAACATTTTTGAAAAA
1 AAAAAAGATTCATAGAACATTTAAGAAAAA
1202490 AAAAAA
1 AAAAAA
1202496 AAAAAGTGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 18 0.56
30 14 0.44
ACGTcount: A:0.63, C:0.06, G:0.11, T:0.20
Consensus pattern (30 bp):
AAAAAAGATTCATAGAACATTTAAGAAAAA
Found at i:1205537 original size:19 final size:21
Alignment explanation
Indices: 1205513--1205553 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
1205503 TAGTTATTTT
1205513 TTATTTAGA-TAAA-TTTAAA
1 TTATTTAGATTAAATTTTAAA
*
1205532 TTATTTGGATTAAATTTTAAA
1 TTATTTAGATTAAATTTTAAA
1205553 T
1 T
1205554 ATAATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 4 0.21
21 7 0.37
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (21 bp):
TTATTTAGATTAAATTTTAAA
Found at i:1205605 original size:18 final size:19
Alignment explanation
Indices: 1205584--1205621 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
1205574 TTAATTTAGC
1205584 ATAAATAAT-TATTTA-ATA
1 ATAAA-AATATATTTATATA
1205602 ATAAAAATATATTTATATA
1 ATAAAAATATATTTATATA
1205621 A
1 A
1205622 ATTTAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.17
18 11 0.61
19 4 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAAAAATATATTTATATA
Found at i:1205623 original size:14 final size:14
Alignment explanation
Indices: 1205597--1205639 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
1205587 AATAATTATT
*
1205597 TAATAATAAAAATA
1 TAATTATAAAAATA
* * *
1205611 TATTTATATAAATT
1 TAATTATAAAAATA
1205625 TAATTATAAAAATA
1 TAATTATAAAAATA
1205639 T
1 T
1205640 CAAAAAAATA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAATTATAAAAATA
Found at i:1206549 original size:32 final size:32
Alignment explanation
Indices: 1206507--1206567 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
1206497 ATTGGGGTGA
*
1206507 AAATTAGTTTGATGTATTGATTTTGTGTATGT
1 AAATTAGTTTGATGTATTGATCTTGTGTATGT
* *
1206539 AAATTGGTTTGATTTATTGATCTTGTGTA
1 AAATTAGTTTGATGTATTGATCTTGTGTA
1206568 CAAAAATTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.25, C:0.02, G:0.21, T:0.52
Consensus pattern (32 bp):
AAATTAGTTTGATGTATTGATCTTGTGTATGT
Found at i:1206575 original size:32 final size:32
Alignment explanation
Indices: 1206506--1206576 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
1206496 AATTGGGGTG
* * **
1206506 AAAATTAGTTTGATGTATTGATTTTGTGTATG
1 AAAATTGGTTTGATGTATTGATCTTGTGTACA
* *
1206538 TAAATTGGTTTGATTTATTGATCTTGTGTACA
1 AAAATTGGTTTGATGTATTGATCTTGTGTACA
1206570 AAAATTG
1 AAAATTG
1206577 ATTCAATTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.48
Consensus pattern (32 bp):
AAAATTGGTTTGATGTATTGATCTTGTGTACA
Found at i:1213908 original size:23 final size:23
Alignment explanation
Indices: 1213878--1213927 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
1213868 TCATTTATAC
1213878 AACAGACAGCCTACAATAATATG
1 AACAGACAGCCTACAATAATATG
*
1213901 AACAGACAGCCTACAATAATTTG
1 AACAGACAGCCTACAATAATATG
1213924 AACA
1 AACA
1213928 CTTTCTTAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.48, C:0.22, G:0.12, T:0.18
Consensus pattern (23 bp):
AACAGACAGCCTACAATAATATG
Found at i:1214437 original size:12 final size:12
Alignment explanation
Indices: 1214420--1214444 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1214410 TAACAAATTA
1214420 AATTTAAATTTG
1 AATTTAAATTTG
1214432 AATTTAAATTTG
1 AATTTAAATTTG
1214444 A
1 A
1214445 TAAACTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
AATTTAAATTTG
Found at i:1215282 original size:13 final size:13
Alignment explanation
Indices: 1215257--1215298 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
1215247 TCTTTAAAAG
1215257 TTATA-TTTATAT
1 TTATATTTTATAT
*
1215269 TTATATTTTTTAT
1 TTATATTTTATAT
* *
1215282 TAATATTTTATTT
1 TTATATTTTATAT
1215295 TTAT
1 TTAT
1215299 TTAAAATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATATTTTATAT
Found at i:1215302 original size:18 final size:18
Alignment explanation
Indices: 1215260--1215308 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
1215250 TTAAAAGTTA
1215260 TATTT-ATATTTATATTTT
1 TATTTAATATTT-TATTTT
1215278 T-TATTAATATTTTATTTT
1 TAT-TTAATATTTTATTTT
*
1215296 TATTTAAAATTTT
1 TATTTAATATTTT
1215309 TAAAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 1 0.04
18 19 0.70
19 7 0.26
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTTAATATTTTATTTT
Found at i:1215788 original size:14 final size:15
Alignment explanation
Indices: 1215761--1215791 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1215751 GTACTTTTAA
1215761 TAATTTGAAAAAAAT
1 TAATTTGAAAAAAAT
1215776 TAATTTGAAAAAAAT
1 TAATTTGAAAAAAAT
1215791 T
1 T
1215792 GTTAGCTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (15 bp):
TAATTTGAAAAAAAT
Found at i:1216112 original size:31 final size:29
Alignment explanation
Indices: 1216048--1216114 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
1216038 ATTATAAATA
*
1216048 AAAATAAAATAATTGTAAAGATTATGGAT
1 AAAATAAAATAATTGTAAAGATCATGGAT
* *
1216077 --AATAAATATAATTTTAAAGGTCATGGAT
1 AAAATAAA-ATAATTGTAAAGATCATGGAT
1216105 GAAAATAAAA
1 -AAAATAAAA
1216115 CGAATGAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
27 6 0.19
28 18 0.58
30 1 0.03
31 6 0.19
ACGTcount: A:0.55, C:0.01, G:0.13, T:0.30
Consensus pattern (29 bp):
AAAATAAAATAATTGTAAAGATCATGGAT
Found at i:1217165 original size:32 final size:33
Alignment explanation
Indices: 1217097--1217177 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 33
1217087 TATATATCTT
*
1217097 TATTAAGTGTGTTAGGTGGTATGTTAGGTAAACA
1 TATTAAGTGTGTTAGGTGG-ATGGTAGGTAAACA
* * * *
1217131 TATTAGGTATGTTAGGTGG-TGGTAGGTGAGCA
1 TATTAAGTGTGTTAGGTGGATGGTAGGTAAACA
1217163 TATTAAGTGTGTTAG
1 TATTAAGTGTGTTAG
1217178 ACGATGTGTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 23 0.57
34 17 0.43
ACGTcount: A:0.26, C:0.02, G:0.33, T:0.38
Consensus pattern (33 bp):
TATTAAGTGTGTTAGGTGGATGGTAGGTAAACA
Found at i:1221914 original size:22 final size:22
Alignment explanation
Indices: 1221880--1221956 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
1221870 AGGTGGTATG
* *
1221880 TTAGGTAAACATATTAGGTGTA
1 TTAGGTGAGCATATTAGGTGTA
*
1221902 TTAGGTGAGCATATTAGGTGTG
1 TTAGGTGAGCATATTAGGTGTA
*
1221924 TTAGGTGAGCATATTAGGTATA
1 TTAGGTGAGCATATTAGGTGTA
1221946 TTAGGTGAGCA
1 TTAGGTGAGCA
1221957 AAATAATTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
TTAGGTGAGCATATTAGGTGTA
Found at i:1222597 original size:25 final size:26
Alignment explanation
Indices: 1222562--1222615 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
1222552 ATATTATAGT
*
1222562 ATATAATTTTAAAATTATTATGTAAA
1 ATATAATTTTAAAATTATTATCTAAA
***
1222588 ATAT-ATTTTATCTTTATTATCTAAA
1 ATATAATTTTAAAATTATTATCTAAA
1222613 ATA
1 ATA
1222616 CAAGTTGGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (26 bp):
ATATAATTTTAAAATTATTATCTAAA
Found at i:1223627 original size:22 final size:24
Alignment explanation
Indices: 1223601--1223645 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1223591 TTTTAATTTA
1223601 AAATT-TTTAAAA-AATAAATATC
1 AAATTATTTAAAATAATAAATATC
*
1223623 AAATTATTTAAAATAATCAATAT
1 AAATTATTTAAAATAATAAATAT
1223646 TAATAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 7 0.35
24 8 0.40
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
AAATTATTTAAAATAATAAATATC
Found at i:1224183 original size:15 final size:15
Alignment explanation
Indices: 1224160--1224212 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
1224150 AGCATAATGA
*
1224160 AAAAATAAAAAAATT
1 AAAAATAAAAAATTT
*
1224175 AAAAGTAAAAAATTT
1 AAAAATAAAAAATTT
*
1224190 AAAATTTAAAAAATTT
1 AAAA-ATAAAAAATTT
1224206 AAAAATA
1 AAAAATA
1224213 TTGAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 19 0.58
16 14 0.42
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (15 bp):
AAAAATAAAAAATTT
Found at i:1224518 original size:9 final size:9
Alignment explanation
Indices: 1224506--1224530 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1224496 CCCTTTTTCG
1224506 TCTTTCTTT
1 TCTTTCTTT
1224515 TCTTTCTTT
1 TCTTTCTTT
1224524 TCTTTCT
1 TCTTTCT
1224531 CTTCCCTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (9 bp):
TCTTTCTTT
Found at i:1224648 original size:16 final size:16
Alignment explanation
Indices: 1224627--1224678 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
1224617 AATTTTATAA
* *
1224627 TTTAAATTTTCATATT
1 TTTAAATTTTAAAATT
*
1224643 TTTAAAATTTAAAATT
1 TTTAAATTTTAAAATT
*
1224659 TTTATATTTTTCAAAATT
1 TTTA-AATTTT-AAAATT
1224677 TT
1 TT
1224679 AATTTTGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 17 0.59
17 4 0.14
18 8 0.28
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTAAATTTTAAAATT
Found at i:1224665 original size:24 final size:23
Alignment explanation
Indices: 1224619--1224684 Score: 87
Period size: 24 Copynumber: 2.8 Consensus size: 23
1224609 TTATTTCAAA
*
1224619 TTTTATAATTTAAATTTTCATAT
1 TTTTAAAATTTAAATTTTCATAT
*
1224642 TTTTAAAATTTAAAATTTTTATAT
1 TTTTAAAATTT-AAATTTTCATAT
*
1224666 TTTTCAAAATTTTAATTTT
1 TTTT-AAAATTTAAATTTT
1224685 GAATTTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 10 0.26
24 21 0.55
25 7 0.18
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTTAAAATTTAAATTTTCATAT
Found at i:1224829 original size:19 final size:18
Alignment explanation
Indices: 1224807--1224859 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
1224797 TTTTACAAAG
1224807 TTTATTTTATTTTTTTCAT
1 TTTATTTTATTTTTTT-AT
* *
1224826 TTTAATTTTAGTTTTATAT
1 TTT-ATTTTATTTTTTTAT
*
1224845 TTTATTATATTTTTT
1 TTTATTTTATTTTTT
1224860 AAAATTAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 11 0.39
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTATTTTATTTTTTTAT
Found at i:1224860 original size:19 final size:20
Alignment explanation
Indices: 1224807--1224860 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
1224797 TTTTACAAAG
1224807 TTTATTTTATTTTTT-TCAT
1 TTTATTTTATTTTTTATCAT
*
1224826 TTTAATTTTA-GTTTTAT-AT
1 TTT-ATTTTATTTTTTATCAT
*
1224845 TTTATTATATTTTTTA
1 TTTATTTTATTTTTTA
1224861 AAATTAACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.17
19 17 0.59
20 7 0.24
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTATTTTATTTTTTATCAT
Found at i:1225772 original size:3 final size:3
Alignment explanation
Indices: 1225764--1225789 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1225754 TACTTTGTTA
1225764 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
1225790 GTATGATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1227781 original size:32 final size:30
Alignment explanation
Indices: 1227745--1227803 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
1227735 GAAATTAAAT
1227745 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
1227777 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
1227804 CTTTGATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:1228102 original size:13 final size:13
Alignment explanation
Indices: 1228084--1228109 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1228074 AATTTTTTTG
1228084 TGTATCGATACAT
1 TGTATCGATACAT
1228097 TGTATCGATACAT
1 TGTATCGATACAT
1228110 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1228120 original size:32 final size:34
Alignment explanation
Indices: 1228063--1228127 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
1228053 TACAAACCAA
*
1228063 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
1228097 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
1228128 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:1228204 original size:20 final size:20
Alignment explanation
Indices: 1228158--1228231 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
1228148 ATCCCAATGA
***
1228158 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
1228179 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
1228199 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
1228219 TATGTATCGATAC
1 CATGTATCGATAC
1228232 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:1230201 original size:21 final size:20
Alignment explanation
Indices: 1230172--1230214 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1230162 GACTAGTGTG
* *
1230172 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
1230193 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
1230213 GG
1 GG
1230215 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:1230664 original size:13 final size:13
Alignment explanation
Indices: 1230646--1230683 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1230636 ATAATCCCCT
1230646 TGTATCGATACAG
1 TGTATCGATACAG
*
1230659 TGTATCGATACAT
1 TGTATCGATACAG
1230672 TGTATCGATACA
1 TGTATCGATACA
1230684 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1232784 original size:15 final size:15
Alignment explanation
Indices: 1232764--1232794 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1232754 ATTTCGTTTG
*
1232764 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1232779 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1232794 G
1 G
1232795 GATATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1234626 original size:21 final size:21
Alignment explanation
Indices: 1234597--1234641 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1234587 AAGTTTTTAT
*
1234597 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1234617 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1234639 TTT
1 TTT
1234642 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1236561 original size:32 final size:30
Alignment explanation
Indices: 1236525--1236583 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
1236515 GAAATTAAAT
1236525 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
1236557 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
1236584 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:1236882 original size:13 final size:13
Alignment explanation
Indices: 1236864--1236889 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1236854 AATTTTTTTG
1236864 TGTATCGATACAT
1 TGTATCGATACAT
1236877 TGTATCGATACAT
1 TGTATCGATACAT
1236890 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1236900 original size:32 final size:34
Alignment explanation
Indices: 1236843--1236907 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
1236833 TACAAGCCAA
*
1236843 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
1236877 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
1236908 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:1237003 original size:20 final size:20
Alignment explanation
Indices: 1236959--1237014 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
1236949 ACATCTTTTT
*
1236959 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
1236979 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
* *
1236998 TTATGTATCAATACTTT
1 -CATGTATCGATACTTT
1237015 TAAGGGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:1237643 original size:15 final size:14
Alignment explanation
Indices: 1237617--1237660 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
1237607 ACGTTGCTAC
*
1237617 CCAAAGGTACTTATG
1 CCAAA-GTACTTATA
*
1237632 CCGAAAGTACTTGTA
1 CC-AAAGTACTTATA
1237647 CCAAAGTACTTATA
1 CCAAAGTACTTATA
1237661 TCAAGGGTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 11 0.44
15 11 0.44
16 3 0.12
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (14 bp):
CCAAAGTACTTATA
Found at i:1237710 original size:14 final size:14
Alignment explanation
Indices: 1237682--1237803 Score: 93
Period size: 14 Copynumber: 8.5 Consensus size: 14
1237672 GCACTAAAAA
*
1237682 TACCTGTGCTAAAAG
1 TACCTGTGC-CAAAG
*
1237697 TACCTATGCCAAAG
1 TACCTGTGCCAAAG
*
1237711 TACTTGTGCCAAAG
1 TACCTGTGCCAAAG
**
1237725 TACCTGCACCAAAGG
1 TACCTGTGCCAAA-G
* *
1237740 TAGCTTTGCCAAAG
1 TACCTGTGCCAAAG
* *
1237754 TAGCTGTACCAAAG
1 TACCTGTGCCAAAG
**
1237768 TAGTTGTGCCAAAAG
1 TACCTGTGCC-AAAG
*
1237783 TACCTATGCC-AAG
1 TACCTGTGCCAAAG
1237796 ATACCTGT
1 -TACCTGT
1237804 ACTAAAAAAT
Statistics
Matches: 85, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
13 3 0.04
14 53 0.62
15 29 0.34
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (14 bp):
TACCTGTGCCAAAG
Found at i:1237719 original size:29 final size:28
Alignment explanation
Indices: 1237686--1237794 Score: 94
Period size: 29 Copynumber: 3.8 Consensus size: 28
1237676 TAAAAATACC
*
1237686 TGTGCTAAAAGTACCTATGCCAAAGTACT
1 TGTGC-AAAAGTACCTATACCAAAGTACT
* **
1237715 TGTGCCAAAGTACCTGCACCAAAGGTAGCT
1 TGTGCAAAAGTACCTATACCAAA-GTA-CT
* * * *
1237745 T-TGCCAAAGTAGCTGTACCAAAGTAGT
1 TGTGCAAAAGTACCTATACCAAAGTACT
*
1237772 TGTGCCAAAAGTACCTATGCCAA
1 TGTG-CAAAAGTACCTATACCAA
1237795 GATACCTGTA
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
27 2 0.03
28 19 0.29
29 41 0.63
30 3 0.05
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (28 bp):
TGTGCAAAAGTACCTATACCAAAGTACT
Found at i:1237804 original size:43 final size:43
Alignment explanation
Indices: 1237682--1237805 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 43
1237672 GCACTAAAAA
* * *
1237682 TACCTGTGCTAAAAGTACCTATGCCAAAGTACTTGTGCCAAAG
1 TACCTGTGCCAAAAGTACCTATGCCAAAGTACCTGTACCAAAG
** * * * *
1237725 TACCTGCACCAAAGGTAGCTTTGCCAAAGTAGCTGTACCAAAG
1 TACCTGTGCCAAAAGTACCTATGCCAAAGTACCTGTACCAAAG
**
1237768 TAGTTGTGCCAAAAGTACCTATGCC-AAGATACCTGTAC
1 TACCTGTGCCAAAAGTACCTATGCCAAAG-TACCTGTAC
1237806 TAAAAAATAC
Statistics
Matches: 63, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
42 3 0.05
43 60 0.95
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (43 bp):
TACCTGTGCCAAAAGTACCTATGCCAAAGTACCTGTACCAAAG
Found at i:1241491 original size:180 final size:178
Alignment explanation
Indices: 1241109--1241496 Score: 430
Period size: 180 Copynumber: 2.2 Consensus size: 178
1241099 AAAAATTTCA
* * * * *
1241109 ATACCCCTACGGATGTCCATAAGAATATTGAAAATTTCGAAAAATTAGGATATTAAATTTTATTT
1 ATACCCCTACGGATGTCCATAGGAATATTAAAAATTTCAAAAAATTAGGATAATAAATTTTATTA
* * *
1241174 GATAAGAATATTCATTCATTTTTTTATTTAATTTTACTTTAGTTTATTTTAGAAAATATCATTTC
66 GAAAAGAATATTCATGCATTTGTTTATTTAATTTTACTTTAGTTTATTTTAGAAAATATCATTTC
* * * * **
1241239 GTACTTTAAGGGAGGCTCGAAAATATATGAAAAGTTTTGAAAATTCTT
131 ATACCTTAAGAGAGACTCGAAAATATACAAAAAGTTTTGAAAATTCTT
* *
1241287 ATACCCCTACGGATGCCCATAGGAATATTAAAAA-TTCTAAAAAATTAGGATAATAATTTTTATT
1 ATACCCCTACGGATGTCCATAGGAATATTAAAAATTTC-AAAAAATTAGGATAATAAATTTTATT
* * *
1241351 CAGTAAAATAATATTTATGCA-TTGTTTATTTAATTTTTACTTTA-TTTCCTTTTCA-AAAATAT
65 -AG-AAAAGAATATTCATGCATTTGTTTATTTAA-TTTTACTTTAGTTT-ATTTT-AGAAAATAT
* *
1241413 CATTTCATACCTTAATAGAGAC-CATAAAATATACAAAAAGTTTT-AAAGACTT-TT
125 CATTTCATACCTTAAGAGAGACTC-GAAAATATACAAAAAGTTTTGAAA-A-TTCTT
* * *
1241467 ATATCCCTATGGATGTCTATAGGAATATTA
1 ATACCCCTACGGATGTCCATAGGAATATTA
1241497 TAAGCCTTAA
Statistics
Matches: 176, Mismatches: 25, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
177 3 0.02
178 54 0.31
179 19 0.11
180 97 0.55
181 3 0.02
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (178 bp):
ATACCCCTACGGATGTCCATAGGAATATTAAAAATTTCAAAAAATTAGGATAATAAATTTTATTA
GAAAAGAATATTCATGCATTTGTTTATTTAATTTTACTTTAGTTTATTTTAGAAAATATCATTTC
ATACCTTAAGAGAGACTCGAAAATATACAAAAAGTTTTGAAAATTCTT
Found at i:1242988 original size:167 final size:163
Alignment explanation
Indices: 1242817--1243464 Score: 609
Period size: 167 Copynumber: 3.9 Consensus size: 163
1242807 ATTGCAAAGA
* * * * * * * *
1242817 AAAAAATTCAAAACTCATGAACATGAATTAATTTTTCAAGACCGATTGAGTATAAATCAAATAAT
1 AAAAAATTCAAAACTCATGAAAATGAATTAATTTTTGAAAACTGATTTAATATGAATTAAATAAT
* * *
1242882 TATAATTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCCGAAAAAAATTAC-AGAGTA
66 AAT-ATTTATAAATTTTAAAAATTAAAAACCAAGAAAAAT-CCCCTGAAAAAAATTACGA-AGTA
* *
1242946 TAAAACTCCGTATTTCGAAAATATAAGATTTTCAAGG
128 GAAAACTCCGTATTTCGAAAATA-AAGAATTTCAAGG
* * * * * * *
1242983 AAAAAATTGAAATATTTATGAAAATAAATGAATTTTTGAAAACTGGTTTAACATGAATTAAATAA
1 AAAAAATTCAAA-ACTCATGAAAATGAATTAATTTTTGAAAACTGATTTAATATGAATTAAATAA
* * **** ** * * *
1243048 TAATACTTGATGAATTTTAAAAATTTTGGATGAATAAAAATCCTCTAAAAAAAATTACGAAGTAG
65 TAATA-TTTATAAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTGAAAAAAATTACGAAGTAG
* * * *
1243113 AAAATTTCGTATTTTGAAAATAGAAAAATTTCAAGG
129 AAAACTCCGTATTTCGAAAATA-AAGAATTTCAAGG
* * ** *
1243149 AAAAAATTCAAAACCTCATGAAAACT-CATGAAATTTTAAAAAATTGATTTAATATGAATTAAAT
1 AAAAAATTCAAAA-CTCATGAAAA-TGAAT-TAATTTTTGAAAACTGATTTAATATGAATTAAAT
* * * * * * * * * *
1243213 AATAATATATAATAAATTTTAAAAAATAAAAATCAAGAAAAATTTCTCTTAAAATATTTATGGAG
63 AATAATAT-TTATAAATTTTAAAAATTAAAAACCAAGAAAAA-TCCCCTGAAAAAAATTACGAAG
* * *
1243278 TAGAAAACTTCGTTTTTCGAAAATAAAGGAATTTCAAAG
126 TAGAAAACTCCGTATTTCGAAAATAAA-GAATTTCAAGG
*
1243317 AAAAAATTCAAAACTCATGAAAATGAA-TAATTTTTGAAAATTGATTTAATATGAATTAAATAAT
1 AAAAAATTCAAAACTCATGAAAATGAATTAATTTTTGAAAACTGATTTAATATGAATTAAATAAT
* * * *
1243381 AATATTTGATAAATGTTAAAAATTAAAAACTAAGAAAAATCCCCTGAAAATAATTATGAAGTAGA
66 AATATTT-ATAAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTGAAAAAAATTACGAAGTAGA
* *
1243446 AAACTCCTTATTTCAAAAA
130 AAACTCCGTATTTCGAAAA
1243465 CAAGAGAAAT
Statistics
Matches: 389, Mismatches: 82, Indels: 24
0.79 0.17 0.05
Matches are distributed among these distances:
164 37 0.10
165 67 0.17
166 83 0.21
167 142 0.37
168 60 0.15
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.31
Consensus pattern (163 bp):
AAAAAATTCAAAACTCATGAAAATGAATTAATTTTTGAAAACTGATTTAATATGAATTAAATAAT
AATATTTATAAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTGAAAAAAATTACGAAGTAGAA
AACTCCGTATTTCGAAAATAAAGAATTTCAAGG
Found at i:1243531 original size:332 final size:334
Alignment explanation
Indices: 1242941--1243544 Score: 693
Period size: 332 Copynumber: 1.8 Consensus size: 334
1242931 AAAAATTACA
* * * * * *
1242941 GAGTATAAAACTCCGTATTTCGAAAATATAAGATTTTCAAGGAAAAAATTGAAATATTTATGAAA
1 GAGTAGAAAACTCCGTATTTCGAAAATATAAGAATTTCAAAGAAAAAATTCAAATACTCATGAAA
* * *
1243006 ATAAATGAATTTTTGAAAACTGGTTTAACATGAATTAAATAATAATACTTGATGAATTTTAAAAA
66 ATAAATGAATTTTTGAAAACTGATTTAACATGAATTAAATAATAATACTTGATAAATGTTAAAAA
**** * * * * ** *
1243071 TTTTGGATGAATAAAAATCCTCTAAAAAAAATTACGAAGTAGAAAATTTCGTATTTTGAAAATAG
131 TTAAAAATGAAGAAAAATCCCCTAAAAAAAATTACGAAGTAGAAAACTCCGTATTTCAAAAAAAG
* * ** *
1243136 AAAAATTTCAAGGAAAAAATTCAAAACCTCATGAAAACTCATGAAATTTTAAAAAATTGATTTAA
196 AAAAATTTCAAGGAAAAAAATCAAAACCTCATGAAAACTAAAAAAATTTTAAAAAACTGATTTAA
1243201 TA-TGAATTAAATAATAATATATAATAAATTTTAAAAAATAAAAATCAAGAAAAATTTCTCTTAA
261 TAGT-AATTAAATAATAATATATAATAAATTTTAAAAAATAAAAATCAAGAAAAATTTCTCTTAA
1243265 AATATTTATG
325 AATATTTATG
* *
1243275 GAGTAGAAAACTTCGTTTTTCGAAAATA-AAGGAATTTCAAAGAAAAAATTCAAA-ACTCATGAA
1 GAGTAGAAAACTCCGTATTTCGAAAATATAA-GAATTTCAAAGAAAAAATTCAAATACTCATGAA
* * * *
1243338 AATGAAT-AATTTTTGAAAATTGATTTAATATGAATTAAATAATAATATTTGATAAATGTTAAAA
65 AATAAATGAATTTTTGAAAACTGATTTAACATGAATTAAATAATAATACTTGATAAATGTTAAAA
* * * *
1243402 ATTAAAAACT-AAGAAAAATCCCCTGAAAATAATTATGAAGTAGAAAACTCCTTATTTCAAAAAC
130 ATTAAAAA-TGAAGAAAAATCCCCTAAAAAAAATTACGAAGTAGAAAACTCCGTATTTCAAAAA-
* ***** * ** *
1243466 AAGAGAAATTTTTTTTAAAAAAATCAATAACC-CAT-TAAA-TAAAAACAATTTTTCAATACTGA
193 AAGAAAAATTTCAAGGAAAAAAATCAA-AACCTCATGAAAACTAAAAA-AATTTTAAAAAACTGA
1243528 TTTAATAGTAATTAAAT
256 TTTAATAGTAATTAAAT
1243545 GATGATATTT
Statistics
Matches: 219, Mismatches: 45, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
331 3 0.01
332 128 0.58
333 39 0.18
334 49 0.22
ACGTcount: A:0.50, C:0.08, G:0.09, T:0.32
Consensus pattern (334 bp):
GAGTAGAAAACTCCGTATTTCGAAAATATAAGAATTTCAAAGAAAAAATTCAAATACTCATGAAA
ATAAATGAATTTTTGAAAACTGATTTAACATGAATTAAATAATAATACTTGATAAATGTTAAAAA
TTAAAAATGAAGAAAAATCCCCTAAAAAAAATTACGAAGTAGAAAACTCCGTATTTCAAAAAAAG
AAAAATTTCAAGGAAAAAAATCAAAACCTCATGAAAACTAAAAAAATTTTAAAAAACTGATTTAA
TAGTAATTAAATAATAATATATAATAAATTTTAAAAAATAAAAATCAAGAAAAATTTCTCTTAAA
ATATTTATG
Found at i:1253673 original size:20 final size:20
Alignment explanation
Indices: 1253648--1253721 Score: 105
Period size: 20 Copynumber: 3.7 Consensus size: 20
1253638 GCTTTTTGAA
1253648 ATGTATCGATACATTATTCG
1 ATGTATCGATACATTATTCG
*
1253668 ATGTATTGATACATTATTCG
1 ATGTATCGATACATTATTCG
*
1253688 ATGTATCGATACATTGA-TCT
1 ATGTATCGATACATT-ATTCG
*
1253708 TTGTATCGATACAT
1 ATGTATCGATACAT
1253722 CTAGGAAGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 48 0.98
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTATTCG
Found at i:1256152 original size:51 final size:50
Alignment explanation
Indices: 1256091--1256214 Score: 140
Period size: 52 Copynumber: 2.4 Consensus size: 50
1256081 TCCCGGTTGC
*
1256091 ATTTCCAAAACATCAATTTTTATCAATCGGGGATACTCCAACTCTGATTTT
1 ATTTCCAAAACA-CAATTTTTAGCAATCGGGGATACTCCAACTCTGATTTT
** * *** *
1256142 ATTTTTAAAACACCCATTTCCCCGCAATTGGGGATACTCCAACTCTGATTTT
1 ATTTCCAAAACA-CAATTT-TTAGCAATCGGGGATACTCCAACTCTGATTTT
1256194 ATTTCCAAAACACTAATTTTT
1 ATTTCCAAAACAC-AATTTTT
1256215 TACAATTAGA
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
51 16 0.28
52 41 0.72
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (50 bp):
ATTTCCAAAACACAATTTTTAGCAATCGGGGATACTCCAACTCTGATTTT
Found at i:1256293 original size:28 final size:27
Alignment explanation
Indices: 1256225--1256294 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 27
1256215 TACAATTAGA
* *
1256225 GATACTCCAACCTCGTTATTTCATCGGG
1 GATACTCCAACCCCATTATTTCA-CGGG
1256253 GATACTCTC-ACCCCATTATTTTCGA-GGG
1 GATACTC-CAACCCCATTA-TTTC-ACGGG
1256281 GATACTCCAACCCC
1 GATACTCCAACCCC
1256295 GGCTTTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
27 1 0.03
28 29 0.81
29 5 0.14
30 1 0.03
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.29
Consensus pattern (27 bp):
GATACTCCAACCCCATTATTTCACGGG
Found at i:1256412 original size:79 final size:79
Alignment explanation
Indices: 1256247--1256421 Score: 221
Period size: 79 Copynumber: 2.2 Consensus size: 79
1256237 TCGTTATTTC
*
1256247 ATCGGGGATACTCTC-ACCCCATTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAA
1 ATCGGGGATACTC-CAACCCCATTATTTTCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAA
* ** *
1256311 TATTAATTTCTCATA
65 CACCAATTTCTCACA
* * * *
1256326 ATTGGGGATATTCCAATCCCATTA-TTTCTGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCATTATTTTC-GAGGGGATACTCCAACCCCAGCTTTATTTCTAAAA
1256390 CACCAA-TTCTCCACA
65 CACCAATTTCT-CACA
1256405 ATCGGGGATACTCCAAC
1 ATCGGGGATACTCCAAC
1256422 TCCGATTTTA
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
78 9 0.11
79 72 0.89
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAAC
ACCAATTTCTCACA
Found at i:1256417 original size:51 final size:51
Alignment explanation
Indices: 1256357--1256465 Score: 141
Period size: 51 Copynumber: 2.1 Consensus size: 51
1256347 TTATTTCTGA
1256357 GGGGATACTCCAACCCC-AGTTTTA-TTTCTAAAACACCAATTCTCCACAATC
1 GGGGATACTCCAACCCCGA-TTTTATTTTC-AAAACACCAATTCTCCACAATC
* * * * *
1256408 GGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTCACAATT
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTCTCCACAATC
1256459 GGGGATA
1 GGGGATA
1256466 TTTCAGCCTT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
51 46 0.90
52 5 0.10
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTCTCCACAATC
Found at i:1256599 original size:237 final size:239
Alignment explanation
Indices: 1256119--1256608 Score: 607
Period size: 237 Copynumber: 2.1 Consensus size: 239
1256109 TTTATCAATC
* * * * * *
1256119 GGGGATACTCCAA-CTCTGATTTTATTTTTAAAACACCCATTTCCCCGCAATTGGGGATACTCCA
1 GGGGATACTCCAACCCCAGATTTTATTTCTAAAACACCCAATTCCCCACAATCGGGGATACTCCA
* *
1256183 ACTCTGATTTTATTTCCAAAACACTAATTTTTTACAATTAGAGATACTCCAACCTCGTTATTTCA
66 ACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATTAGAGATACTCCAACCTCGTTATTTCA
*
1256248 TCGGGGATACTCTCACCCCATTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATA
131 TCGGGGATACTCTCACCCCATTATTTTCGAGAGGATACTCCAACCCCGGCTTTATTTCTAAAATA
* ** * * *
1256313 TTAATTTCTCATAATTGGGGATATTCCAATCCCATTATTTCTGA
196 TTAATTTCTCACAATCAGGGATACTCCAACCCCATTATTTCTAA
*
1256357 GGGGATACTCCAACCCCAG-TTTTATTTCTAAAACA-CCAATTCTCCACAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCAGATTTTATTTCTAAAACACCCAATTCCCCACAATCGGGGATACTCCA
* * * * * * *
1256420 ACTCCGATTTTATTTTCAAAACACTAATTTTTCACAATTGGGGATATTTCAGCCTTGTTATTTCA
66 ACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATTAGAGATACTCCAACCTCGTTATTTCA
* * * * **
1256485 TCGGGGATACTC-CAACCCCGTTATTTTTGAGAGGATACTCCAACCTCGGTTTTATTT-TCGGAA
131 TCGGGGATACTCTC-ACCCCATTATTTTCGAGAGGATACTCCAACCCCGGCTTTATTTCT-AAAA
* * *
1256548 TACTT-ATTTTTCACAGTCAGGGATACTCCAACCCCGTTATTT-TCAA
194 TA-TTAATTTCTCACAATCAGGGATACTCCAACCCCATTATTTCT-AA
1256594 GGGGATACTCCAACC
1 GGGGATACTCCAACC
1256609 TCGTTATGAT
Statistics
Matches: 215, Mismatches: 32, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
236 3 0.01
237 179 0.83
238 30 0.14
239 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (239 bp):
GGGGATACTCCAACCCCAGATTTTATTTCTAAAACACCCAATTCCCCACAATCGGGGATACTCCA
ACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATTAGAGATACTCCAACCTCGTTATTTCA
TCGGGGATACTCTCACCCCATTATTTTCGAGAGGATACTCCAACCCCGGCTTTATTTCTAAAATA
TTAATTTCTCACAATCAGGGATACTCCAACCCCATTATTTCTAA
Found at i:1268970 original size:1 final size:1
Alignment explanation
Indices: 1268966--1269041 Score: 62
Period size: 1 Copynumber: 76.0 Consensus size: 1
1268956 ATTCTTTTTT
* * * * * * * *
1268966 AAAAAAAAACAAAAACAACAAAAAACAAAAAAACAAAAAAACAAAAAAAAACAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
1269031 GAGAAAAAAAA
1 AAAAAAAAAAA
1269042 GAGAATCTGC
Statistics
Matches: 55, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:1269005 original size:26 final size:25
Alignment explanation
Indices: 1268966--1269041 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 25
1268956 ATTCTTTTTT
*
1268966 AAAAAAAAACAAAAACAACAAAAAAC
1 AAAAAAAAA-AAAAACAAAAAAAAAC
1268992 AAAAAAACAAAAAAACAAAAAAAAAC
1 AAAAAAA-AAAAAAACAAAAAAAAAC
* *
1269018 AAAAAGAAAAAAAGAGAAAAAAAA
1 AAAAA-AAAAAAAAACAAAAAAAA
1269042 GAGAATCTGC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 41 0.91
27 4 0.09
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAAAAAACAAAAAAAAAC
Found at i:1269032 original size:8 final size:8
Alignment explanation
Indices: 1268968--1269030 Score: 85
Period size: 8 Copynumber: 7.9 Consensus size: 8
1268958 TCTTTTTTAA
1268968 AAAAAAAC
1 AAAAAAAC
1268976 AAAAACAAC
1 AAAAA-AAC
1268985 -AAAAAAC
1 AAAAAAAC
1268992 AAAAAAAC
1 AAAAAAAC
1269000 AAAAAAAC
1 AAAAAAAC
1269008 AAAAAAA-
1 AAAAAAAC
*
1269015 AACAAAAAG
1 AA-AAAAAC
1269024 AAAAAAA
1 AAAAAAA
1269031 GAGAAAAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
7 5 0.10
8 41 0.80
9 5 0.10
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:1269037 original size:16 final size:16
Alignment explanation
Indices: 1268966--1269040 Score: 87
Period size: 16 Copynumber: 4.6 Consensus size: 16
1268956 ATTCTTTTTT
*
1268966 AAAAAAAAACAAAAAC
1 AAAAAAAAACAAAAAA
*
1268982 AACAAAAAACAAAAAA
1 AAAAAAAAACAAAAAA
*
1268998 ACAAAAAAACAAAAAA
1 AAAAAAAAACAAAAAA
* *
1269014 AAACAAAAAGAAAAAA
1 AAAAAAAAACAAAAAA
1269030 AGAGAAAAAAA
1 A-A-AAAAAAA
1269041 AGAGAATCTG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
16 42 0.86
17 1 0.02
18 6 0.12
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (16 bp):
AAAAAAAAACAAAAAA
Found at i:1270341 original size:62 final size:62
Alignment explanation
Indices: 1270196--1270936 Score: 740
Period size: 62 Copynumber: 11.7 Consensus size: 62
1270186 GACGCCTTTT
* * * * * *
1270196 AAAGCCCACATAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAGTAGGATGCCTTCTCCTTTT--
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCT-TTTTTGC
*
1270256 AAAGCCCACACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTGC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTGC
*
1270318 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTCTGC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTGC
* *
1270380 AAAGCCCACACAAGTTGGTGGCAC-TTCCTAGTCCTCAAAGAGCAGGACGCTCTTTCCTTTCGCC
1 AAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGATG--CTTT-C-TT----
*
1270444 TTTTTC
57 TTTTGC
* * * * * *
1270450 TTTTAAAGCCCACATAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAGTAGGATGCCTTCTCCTTTT
1 ----AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCT-TTTTT
1270514 --
61 GC
*
1270514 AAAGCCCACACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTGC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTGC
*
1270576 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTCTGC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTGC
* *
1270638 AAAGCCCACACAAGTTGGTGGCAC-TTCCTAGTCCTCAAAGAGCAGGACGCTCTTTCCTTTCGCC
1 AAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGATG--CTTT-C-TT----
*
1270702 TTTTTC
57 TTTTGC
* * * * * *
1270708 TTTTAAAGCCCACATAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
1 ----AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCT-TTTTT
1270772 --
61 GC
* * *
1270772 AAAGCCCACACAAGTTAGTGACACTTTTCAGTCCTTAAAGAGCAGGATGCTTTC-TTTTTGC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTGC
* * * *
1270833 AAAGCCCACACAAGTTGGTGGCA-TCTTCCAGTCCTCAAAGGGCAGGACG-TATT-TTCTTTT-A
1 AAAGCCCACACAAGTTGGTGGCACT-TTTCAGTCCTCAAAGAGCAGGATGCT-TTCTT-TTTTGC
* * *
1270894 AAAGCCCACACGAGTTGGTGCCATTTTTCAGTCCTCAAAGAGC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGC
1270937 GGGACACACT
Statistics
Matches: 579, Mismatches: 60, Indels: 83
0.80 0.08 0.11
Matches are distributed among these distances:
59 4 0.01
60 72 0.12
61 166 0.29
62 211 0.36
64 8 0.01
65 2 0.00
66 12 0.02
69 2 0.00
70 10 0.02
71 6 0.01
73 38 0.07
74 48 0.08
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (62 bp):
AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTGC
Found at i:1270617 original size:196 final size:197
Alignment explanation
Indices: 1270251--1270622 Score: 606
Period size: 196 Copynumber: 1.9 Consensus size: 197
1270241 ATGCCTTCTC
* * * *
1270251 CTTTTAAAGCCCACACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTT
1 CTTTTAAAGCCCACACAAGCTGATGGCACTCTTCAGTCCTCAAAGAGCAGGATGCCTTCTCTTTT
*
1270316 GCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTCTGCA
66 -CAAAGCCCACACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTCTGCA
1270381 AAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTTTCCTTTCGCCTT
130 AAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTTTCCTTTCGCCTT
1270446 TTT
195 TTT
* * *
1270449 CTTTTAAAGCCCACATAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAGTAGGATGCCTTCTCCTTT
1 CTTTTAAAGCCCACACAAGCTGATGGCACTCTTCAGTCCTCAAAGAGCAGGATGCCTTCT-CTTT
*
1270513 T-AAAGCCCACACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTGCA
65 TCAAAGCCCACACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTCTGCA
*
1270577 AAGCCCACACAAGTTGGTGGCACTT-TTCAGTCCTCAAAGAGCAGGA
130 AAGCCCACACAAGTTGGTGGCACTTCCT-AGTCCTCAAAGAGCAGGA
1270623 TGCTTTCTTT
Statistics
Matches: 162, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
195 1 0.01
196 104 0.64
197 27 0.17
198 30 0.19
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (197 bp):
CTTTTAAAGCCCACACAAGCTGATGGCACTCTTCAGTCCTCAAAGAGCAGGATGCCTTCTCTTTT
CAAAGCCCACACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTCTGCAA
AGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTTTCCTTTCGCCTTT
TT
Found at i:1270648 original size:258 final size:258
Alignment explanation
Indices: 1270191--1270879 Score: 1285
Period size: 258 Copynumber: 2.7 Consensus size: 258
1270181 AGTAAGACGC
1270191 CTTTTAAAGCCCACATAAGCTGGTGGCACCTTCAGTCCTCAAAGAGTAGGATGCCTTCTCCTTTT
1 CTTTTAAAGCCCACATAAGCTGGTGGCACCTTCAGTCCTCAAAGAGTAGGATGCCTTCTCCTTTT
1270256 AAAGCCCACACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTGCAAA
66 AAAGCCCACACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTGCAAA
1270321 GCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTCTGCAAAGCC
131 GCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTCTGCAAAGCC
1270386 CACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTTTCCTTTCGCCTTTTT
196 CACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTTTCCTTTCGCCTTTTT
1270449 CTTTTAAAGCCCACATAAGCTGGTGGCACCTTCAGTCCTCAAAGAGTAGGATGCCTTCTCCTTTT
1 CTTTTAAAGCCCACATAAGCTGGTGGCACCTTCAGTCCTCAAAGAGTAGGATGCCTTCTCCTTTT
1270514 AAAGCCCACACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTGCAAA
66 AAAGCCCACACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTGCAAA
1270579 GCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTCTGCAAAGCC
131 GCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTCTGCAAAGCC
1270644 CACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTTTCCTTTCGCCTTTTT
196 CACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTTTCCTTTCGCCTTTTT
* *
1270707 CTTTTAAAGCCCACATAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
1 CTTTTAAAGCCCACATAAGCTGGTGGCACCTTCAGTCCTCAAAGAGTAGGATGCCTTCTCCTTTT
* *
1270772 AAAGCCCACACAAGTT-AGTGACACTTTTCAGTCCTTAAAGAGCAGGATGCTTTC-TTTTTGCAA
66 AAAGCCCACACAAGTTGA-TGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTGCAA
* *
1270835 AGCCCACACAAGTTGGTGGCA-TCTTCCAGTCCTCAAAGGGCAGGA
130 AGCCCACACAAGTTGGTGGCACT-TTTCAGTCCTCAAAGAGCAGGA
1270880 CGTATTTTCT
Statistics
Matches: 423, Mismatches: 6, Indels: 5
0.97 0.01 0.01
Matches are distributed among these distances:
256 1 0.00
257 51 0.12
258 371 0.88
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (258 bp):
CTTTTAAAGCCCACATAAGCTGGTGGCACCTTCAGTCCTCAAAGAGTAGGATGCCTTCTCCTTTT
AAAGCCCACACAAGTTGATGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTGCAAA
GCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTCTGCAAAGCC
CACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTCTTTCCTTTCGCCTTTTT
Found at i:1270928 original size:122 final size:121
Alignment explanation
Indices: 1270712--1270936 Score: 317
Period size: 122 Copynumber: 1.9 Consensus size: 121
1270702 TTTTTCTTTT
* *
1270712 AAAGCCCACATAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGC
1 AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCATTCTCCTTTTAAAGC
*
1270777 CCACACAAGTTAGTGACACTTTTCAGTCCTTAAAGAGCAGGATGCTTTCTTTTTGC
66 CCACACAAGTTAGTGACACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGC
* * * * *
1270833 AAAGCCCACACAAGTTGGTGGCATCTTCCAGTCCTCAAAGGGCAGGACGTATT-TTCTTTTAAAA
1 AAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCATTCTCCTTTT-AAA
* * * *
1270897 GCCCACACGAGTTGGTGCCATTTTTCAGTCCTCAAAGAGC
64 GCCCACACAAGTTAGTGACACTTTTCAGTCCTCAAAGAGC
1270937 GGGACACACT
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
121 30 0.33
122 60 0.67
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (121 bp):
AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCATTCTCCTTTTAAAGC
CCACACAAGTTAGTGACACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGC
Found at i:1271046 original size:42 final size:44
Alignment explanation
Indices: 1270956--1271046 Score: 107
Period size: 42 Copynumber: 2.1 Consensus size: 44
1270946 TTCCTTCCCT
* * *
1270956 TCTTTTCTCTTTTGTCCTCAAAGAGTAGGATGCACTTTATTTTC
1 TCTTTTCTCTTTTATCCTCAAAGAGCAGGACGCACTTTATTTTC
* * *
1271000 -CTTTT-TCTTTTATCCTCAGAGAGCAGGACGTA-TTTCTTTTC
1 TCTTTTCTCTTTTATCCTCAAAGAGCAGGACGCACTTTATTTTC
1271041 TCTTTT
1 TCTTTT
1271047 GTCCTCAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
41 8 0.20
42 27 0.68
43 5 0.12
ACGTcount: A:0.16, C:0.21, G:0.13, T:0.49
Consensus pattern (44 bp):
TCTTTTCTCTTTTATCCTCAAAGAGCAGGACGCACTTTATTTTC
Found at i:1271189 original size:160 final size:159
Alignment explanation
Indices: 1270918--1271210 Score: 532
Period size: 160 Copynumber: 1.8 Consensus size: 159
1270908 TTGGTGCCAT
* *
1270918 TTTTCAGTCCTCAAAGAGCGGGACACACTTCCTTCCCTTCTTTTCTCTTTTGTCCTCAAAGAGTA
1 TTTTCACTCCTCAAAGAGCGGGACACACTTCCTTCCCTTCTTTTCTCTTTTGTCCTCAAAGAGCA
*
1270983 GGATGCACTTTATTTTCCTTTTTCTTTTATCCTCAGAGAGCAGGACGTATTTCTTTTCTCTTTTG
66 GGATGCACTTTATTTTCCTTTTTCTTTTATCCTCAGAGAGCAGGACGTATTTCGTTTC-CTTTTG
1271048 TCCTCAAAGAGAAAAGAGAGCATGATGCAC
130 TCCTCAAAGAGAAAAGAGAGCATGATGCAC
1271078 TTTTCACTCCTCAAAGAGCGGGACACACTTCCTTCCCTTCTTTTCTCTTTTGTCCTCAAAGAGCA
1 TTTTCACTCCTCAAAGAGCGGGACACACTTCCTTCCCTTCTTTTCTCTTTTGTCCTCAAAGAGCA
* *
1271143 TGATGCACTTTATTTTCCTTTTTCTTTTATCCTCAGAGAGCAGGACGTATTTCGTTTCCTTTTTT
66 GGATGCACTTTATTTTCCTTTTTCTTTTATCCTCAGAGAGCAGGACGTATTTCGTTTCCTTTTGT
1271208 CCT
131 CCT
1271211 TTGTCCTCAA
Statistics
Matches: 128, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
159 9 0.07
160 119 0.93
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (159 bp):
TTTTCACTCCTCAAAGAGCGGGACACACTTCCTTCCCTTCTTTTCTCTTTTGTCCTCAAAGAGCA
GGATGCACTTTATTTTCCTTTTTCTTTTATCCTCAGAGAGCAGGACGTATTTCGTTTCCTTTTGT
CCTCAAAGAGAAAAGAGAGCATGATGCAC
Found at i:1271977 original size:20 final size:20
Alignment explanation
Indices: 1271952--1272005 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
1271942 TGCCAAGGAA
1271952 ATGTATCGATACATT-ATTCG
1 ATGTATCGATACATTGA-TCG
* * *
1271972 ATGTATAGGTACATTGATCT
1 ATGTATCGATACATTGATCG
*
1271992 TTGTATCGATACAT
1 ATGTATCGATACAT
1272006 CTAGGAAGTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTGATCG
Found at i:1274435 original size:28 final size:27
Alignment explanation
Indices: 1274399--1274472 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 27
1274389 ATTTTTCACA
*
1274399 ATCGGGGATACTCCAACCCCGTTATTT
1 ATCGAGGATACTCCAACCCCGTTATTT
*
1274426 CATCGAGGATACTCCCACCCCGTTATTT
1 -ATCGAGGATACTCCAACCCCGTTATTT
1274454 -TCGAGGGGATACTCCAACC
1 ATCGA--GGATACTCCAACC
1274473 TCGGCTTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
26 4 0.10
28 37 0.90
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (27 bp):
ATCGAGGATACTCCAACCCCGTTATTT
Found at i:1274563 original size:79 final size:79
Alignment explanation
Indices: 1274432--1274601 Score: 225
Period size: 79 Copynumber: 2.2 Consensus size: 79
1274422 ATTTCATCGA
* * * * * **
1274432 GGATACTCCCACCCCGTTATTTTCGAGGGGATACTCCAACCTCGGCTTTATTTCTAAAATATTAA
1 GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAACACCAA
1274497 TT-TCTCATAATCAG
66 TTCTC-CATAATCAG
* * *
1274511 GGATACTCCAATCCCGTTATTTCCTAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAA
1 GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAACACCAA
*
1274576 TTCTCCATAATCGG
66 TTCTCCATAATCAG
1274590 GGATACTCCAAC
1 GGATACTCCAAC
1274602 TCCGATTTTA
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
79 76 0.97
80 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (79 bp):
GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAACACCAA
TTCTCCATAATCAG
Found at i:1274597 original size:51 final size:51
Alignment explanation
Indices: 1274537--1274650 Score: 158
Period size: 51 Copynumber: 2.2 Consensus size: 51
1274527 TTATTTCCTA
* *
1274537 GGGGATACTCCAACCCC-AGTTTTATTTCTAAAACACCAATTCTCCATAATC
1 GGGGATACTCCAACCCCGA-TTTTATTTCCAAAACACCAATTCTCCACAATC
* * * *
1274588 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATC
1274639 GGGGATACTCCA
1 GGGGATACTCCA
1274651 GCCCTGTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 55 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATC
Found at i:1274672 original size:28 final size:28
Alignment explanation
Indices: 1274636--1274712 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
1274626 ATTTTTCACA
* * *
1274636 ATCGGGGATACTCCAGCCCTGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
1274664 ATCGAGGATACTCCAACCCCGTTATTT-
1 ATCGAGGATACTCCAACCCCGTTATTTC
*
1274691 -TTGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
1274713 GCTTTATTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
26 3 0.07
28 40 0.93
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:1274737 original size:107 final size:107
Alignment explanation
Indices: 1274588--1274795 Score: 301
Period size: 107 Copynumber: 1.9 Consensus size: 107
1274578 CTCCATAATC
* * *
1274588 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAGC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAAC
* *
1274653 CCTGTTA-TTTCATCGAGGATACTCCAACCCCGTTATTTTTGA
66 CCCGTTATTTTCAACGA-GATACTCCAACCCCGTTATTTTTGA
* * * *
1274695 GGGGATACTCCAACCCCGGCTTTATTTCCGAAATACTGATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAAC
* *
1274760 CCCGTTATTTTCAAGGAGATACTCCATCCCCGTTAT
66 CCCGTTATTTTCAACGAGATACTCCAACCCCGTTAT
1274796 GATCTCCAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
107 82 0.92
108 7 0.08
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTTCAACGAGATACTCCAACCCCGTTATTTTTGA
Found at i:1274766 original size:237 final size:237
Alignment explanation
Indices: 1274349--1274790 Score: 713
Period size: 237 Copynumber: 1.9 Consensus size: 237
1274339 ATTTTTCATC
* *
1274349 TCGGGGATACTCTAACTCTGATTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCA
* *
1274414 ACCCCGTTATTTCATCGAGGATACTCCCACCCCGTTATTTTCGAGGGGATACTCCAACCTCGGCT
66 ACCCCGTTATTTCATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCT
* * * * * *
1274479 TTATTTCTAAAATATTAATTTCTCATAATCAGGGATACTCCAATCCCGTTATTTCCTAGGGGATA
131 TTATTTCCAAAATACTAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGGAGATA
1274544 CTCCAACCCCAGTTTTATTTCTAAAACACCAATTCTCCATAA
196 CTCCAACCCCAGTTTTATTTCTAAAACACCAATTCTCCATAA
1274586 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCA
* * *
1274651 GCCCTGTTATTTCATCGAGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGGCT
66 ACCCCGTTATTTCATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCT
* * * * *
1274716 TTATTTCCGAAATACTGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCAAGGAGATA
131 TTATTTCCAAAATACTAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGGAGATA
*
1274781 CTCCATCCCC
196 CTCCAACCCC
1274791 GTTATGATCT
Statistics
Matches: 186, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
237 186 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (237 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACTCCA
ACCCCGTTATTTCATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCT
TTATTTCCAAAATACTAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGGAGATA
CTCCAACCCCAGTTTTATTTCTAAAACACCAATTCTCCATAA
Found at i:1278000 original size:13 final size:13
Alignment explanation
Indices: 1277982--1278007 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1277972 CATTATTCCA
1277982 TGTATCGATACAT
1 TGTATCGATACAT
1277995 TGTATCGATACAT
1 TGTATCGATACAT
1278008 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1280290 original size:52 final size:51
Alignment explanation
Indices: 1280218--1280352 Score: 148
Period size: 52 Copynumber: 2.6 Consensus size: 51
1280208 TTAAGTTTCT
* * *
1280218 CAATTGTT-CATAATCAGGGATACTCCAACCCTGGTTTTA-TTTCCAAAACAC
1 CAATT-TTCCATAATCGGGGATACTCCAACCC-GATTTTATTTTCAAAAACAC
* *
1280269 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAATAC
1 CAATTTTCC-ATAATCGGGGATACTCCAAC-CCGATTTTATTTTCAAAAACAC
* * *
1280322 CAATTTTTCACAATCGAGGATACTCCAACCC
1 CAATTTTCCATAATCGGGGATACTCCAACCC
1280353 CGTTATTTCT
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
50 2 0.03
51 8 0.11
52 41 0.58
53 20 0.28
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (51 bp):
CAATTTTCCATAATCGGGGATACTCCAACCCGATTTTATTTTCAAAAACAC
Found at i:1280427 original size:79 final size:80
Alignment explanation
Indices: 1280285--1280433 Score: 201
Period size: 79 Copynumber: 1.9 Consensus size: 80
1280275 TCCTTTAATC
* * *
1280285 GGGGATACTCCAACTCCGATTTTATTTTCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTTCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
1280350 CCCCGTTATTTCTGA
66 CCCCGTTATTTCTGA
* * *** * *
1280365 GGGGATACTCCAACCCCGGCTTTA-TTTCTAAAATATTGATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTTCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
1280429 CCCCG
66 CCCCG
1280434 GTTTTATTTC
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
79 38 0.64
80 21 0.36
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (80 bp):
GGGGATACTCCAACCCCGACTTTATTTTCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTCTGA
Found at i:1280542 original size:52 final size:52
Alignment explanation
Indices: 1280365--1280585 Score: 268
Period size: 51 Copynumber: 4.3 Consensus size: 52
1280355 TTATTTCTGA
* * * * * * *
1280365 GGGGATACTCCAACCCCGGCTTTA-TTTCTAAAATATTGATTTCTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAAACACTAATTTTTCACAATC
*
1280416 GGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAAACACTAATTTTTCACAATC
* *
1280467 GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACTAATTTTCCTTCAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAAACACTAATTTTTC-ACAATC
** * *
1280519 GGGGATACTCCAACTTCGATTTTATTTTCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAAACACTAATTTTTCACAATC
* *
1280571 GAGGATACTTCAACC
1 GGGGATACTCCAACC
1280586 TCATTATTTC
Statistics
Matches: 150, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
51 84 0.56
52 52 0.35
53 14 0.09
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTTTCAAAAACACTAATTTTTCACAATC
Found at i:1280709 original size:106 final size:108
Alignment explanation
Indices: 1280519--1280725 Score: 285
Period size: 106 Copynumber: 1.9 Consensus size: 108
1280509 TCCTTCAATC
* *
1280519 GGGGATACTCCAACTTCGATTTTATTTTCAAAAACACCAATTTTTCACAATCGAGGATACTTCAA
1 GGGGATACTCCAACTTCGATTTTATTTTCAAAAACACCAATTTTTCACAACCGAGGATACTCCAA
* * *
1280584 CCTCATTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGA
66 CCCCATTATTTCATAGGGGATACTCCAACCCAGTTACCTCCGA
* * * * *
1280627 GGGGATACTCCAATTTCGATTTTA-TTTC-TAATCATCGATTTTTCACAACCGAGGATACTCCAA
1 GGGGATACTCCAACTTCGATTTTATTTTCAAAAACACCAATTTTTCACAACCGAGGATACTCCAA
*
1280690 CCCCGTTATTTTCA-AGGGGATACTCCAACCCAGTTA
66 CCCCATTA-TTTCATAGGGGATACTCCAACCCAGTTA
1280726 TTATCCCCAA
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
106 55 0.63
107 9 0.10
108 23 0.26
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (108 bp):
GGGGATACTCCAACTTCGATTTTATTTTCAAAAACACCAATTTTTCACAACCGAGGATACTCCAA
CCCCATTATTTCATAGGGGATACTCCAACCCAGTTACCTCCGA
Found at i:1282685 original size:19 final size:21
Alignment explanation
Indices: 1282637--1282685 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
1282627 TTATTGCATG
*
1282637 ACATTTGATTTTTTATATGAT
1 ACATTTGATTTGTTATATGAT
1282658 ACATTTGATTTGTTATATGA-
1 ACATTTGATTTGTTATATGAT
1282678 AC-TTTGAT
1 ACATTTGAT
1282686 GAAGATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 6 0.22
20 2 0.07
21 19 0.70
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (21 bp):
ACATTTGATTTGTTATATGAT
Found at i:1293977 original size:38 final size:38
Alignment explanation
Indices: 1293926--1294003 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
1293916 CTTCCGTGAA
1293926 AGATAGTTTCTTGTGTCGGAAATTTAAAAGATCTATAC
1 AGATAGTTTCTTGTGTCGGAAATTTAAAAGATCTATAC
1293964 AGATAGTTTCTTGTGTCGGAAATTTAAAAGATCTATAC
1 AGATAGTTTCTTGTGTCGGAAATTTAAAAGATCTATAC
1294002 AG
1 AG
1294004 TCACAGACAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (38 bp):
AGATAGTTTCTTGTGTCGGAAATTTAAAAGATCTATAC
Found at i:1298677 original size:16 final size:16
Alignment explanation
Indices: 1298656--1298688 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1298646 GCTGCCATGG
1298656 TGAACTTAAGCTCTGA
1 TGAACTTAAGCTCTGA
1298672 TGAACTTAAGCTCTGA
1 TGAACTTAAGCTCTGA
1298688 T
1 T
1298689 ACCATTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (16 bp):
TGAACTTAAGCTCTGA
Found at i:1300241 original size:84 final size:82
Alignment explanation
Indices: 1300127--1300294 Score: 300
Period size: 84 Copynumber: 2.0 Consensus size: 82
1300117 ATAATCGAAA
1300127 GCTCTTTTTTTCCCTCTTTTCTTGCTAATTAACAACAAGGAAAAAAGGAAACTCAAGTCATCTTT
1 GCTCTTTTTTTCCCTCTTTTCTTGCTAATTAACAACAAGGAAAAAAGGAAACTCAAGTCATCTTT
1300192 ATTGCTCCAATCACTTG
66 ATTGCTCCAATCACTTG
*
1300209 GCTCTTTATTTTCCCCTCTTTTCTTGCTAATTAATAACAAGGAAAAAAGGAAACTCAAGTCATCT
1 GCTCTTT-TTTT-CCCTCTTTTCTTGCTAATTAACAACAAGGAAAAAAGGAAACTCAAGTCATCT
*
1300274 TTGTTGCTCCAATCACTTG
64 TTATTGCTCCAATCACTTG
1300293 GC
1 GC
1300295 CAAAGGCTAG
Statistics
Matches: 82, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
82 7 0.09
83 4 0.05
84 71 0.87
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (82 bp):
GCTCTTTTTTTCCCTCTTTTCTTGCTAATTAACAACAAGGAAAAAAGGAAACTCAAGTCATCTTT
ATTGCTCCAATCACTTG
Found at i:1303447 original size:23 final size:23
Alignment explanation
Indices: 1303402--1303462 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 23
1303392 ATTTAATTTT
* *
1303402 TTATTTATAA-AATAAATTAATA
1 TTATTAATAATAAAAAATTAATA
1303424 TTATTAATAATAAAAAATT--TA
1 TTATTAATAATAAAAAATTAATA
1303445 -TATTAATAATTAAAAAAT
1 TTATTAATAA-TAAAAAAT
1303463 AAGAATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 9 0.26
21 10 0.29
22 9 0.26
23 7 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TTATTAATAATAAAAAATTAATA
Found at i:1303520 original size:15 final size:15
Alignment explanation
Indices: 1303490--1303522 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
1303480 TTAATTTAAA
1303490 ATATTATTTATAATT
1 ATATTATTTATAATT
1303505 ATATT-TTTATATATT
1 ATATTATTTATA-ATT
1303520 ATA
1 ATA
1303523 AATTACAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATATTATTTATAATT
Found at i:1303566 original size:20 final size:19
Alignment explanation
Indices: 1303530--1303569 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1303520 ATAAATTACA
**
1303530 AATAAAAAATATGATAATT
1 AATAAAAAATAAAATAATT
1303549 AATAAAAAATTAAAATAATT
1 AATAAAAAA-TAAAATAATT
1303569 A
1 A
1303570 TAATTGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (19 bp):
AATAAAAAATAAAATAATT
Found at i:1303755 original size:2 final size:2
Alignment explanation
Indices: 1303742--1303777 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
1303732 ATAATTATTT
* *
1303742 TA TA TT TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1303778 AAATATCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:1307452 original size:3 final size:3
Alignment explanation
Indices: 1307444--1307472 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1307434 CAACTATTGC
1307444 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1307473 CTACTTGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1311620 original size:36 final size:37
Alignment explanation
Indices: 1311580--1311654 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 37
1311570 GAATTGCCTT
* *
1311580 TTTAAGTCAATTGAATTGAATTGTTTAATTTA-AAAA
1 TTTAAGACAATGGAATTGAATTGTTTAATTTAGAAAA
1311616 TTTAAGACAATGGAATTGAATTGTTTAATTTAGAAAA
1 TTTAAGACAATGGAATTGAATTGTTTAATTTAGAAAA
1311653 TT
1 TT
1311655 AAATGTTAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 30 0.83
37 6 0.17
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.43
Consensus pattern (37 bp):
TTTAAGACAATGGAATTGAATTGTTTAATTTAGAAAA
Done.