Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 308 of 318
Found at i:96050251 original size:26 final size:25
Alignment explanation
Indices: 96050205--96050275 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 25
96050195 GATAACACGT
*
96050205 AATATTTTTAAATTTATATTAATTA
1 AATATATTTAAATTTATATTAATTA
*
96050230 AATATATTTATAA-TTATGATTAA-TC
1 AATATATTTA-AATTTAT-ATTAATTA
96050255 AA-A-ATTT-AATTTATA-TAATTA
1 AATATATTTAAATTTATATTAATTA
96050276 TCTAAAATAG
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
20 3 0.08
21 4 0.10
22 4 0.10
23 4 0.10
24 1 0.03
25 16 0.41
26 7 0.18
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (25 bp):
AATATATTTAAATTTATATTAATTA
Found at i:96054769 original size:15 final size:15
Alignment explanation
Indices: 96054749--96054785 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
96054739 ACCCACGGCC
96054749 GTGTCACTTGGCCAT
1 GTGTCACTTGGCCAT
96054764 GTGTCACTTGGCCAT
1 GTGTCACTTGGCCAT
96054779 GTGTCAC
1 GTGTCAC
96054786 ACACGGCTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.14, C:0.27, G:0.27, T:0.32
Consensus pattern (15 bp):
GTGTCACTTGGCCAT
Found at i:96054812 original size:43 final size:43
Alignment explanation
Indices: 96054764--96054853 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
96054754 ACTTGGCCAT
* * *
96054764 GTGTCACTTGGCCATGTGTCACACACGGCTGAGACCCACGGCC
1 GTGTCACTTGGCCATGTGTCACACACGGCTAAGACACACGCCC
96054807 GTGTCACTTGGCCATGTGTCACACACGGCTAAGACACACGCCC
1 GTGTCACTTGGCCATGTGTCACACACGGCTAAGACACACGCCC
96054850 GTGT
1 GTGT
96054854 GGACAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.20, C:0.33, G:0.27, T:0.20
Consensus pattern (43 bp):
GTGTCACTTGGCCATGTGTCACACACGGCTAAGACACACGCCC
Found at i:96060033 original size:12 final size:12
Alignment explanation
Indices: 96059999--96060033 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
96059989 AAAAAAAAAC
96059999 TATTTTATTTAA
1 TATTTTATTTAA
* *
96060011 TATTCTGTTTAA
1 TATTTTATTTAA
96060023 TATTTTATTTA
1 TATTTTATTTA
96060034 TTTAATTTCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (12 bp):
TATTTTATTTAA
Found at i:96064349 original size:84 final size:84
Alignment explanation
Indices: 96064208--96064369 Score: 324
Period size: 84 Copynumber: 1.9 Consensus size: 84
96064198 AAAACAATAT
96064208 ATTAATAAAATAGATAAAGTATATTTTTCAAAAAAGAAGTCATGTTTGAACATTTGATTCAATAA
1 ATTAATAAAATAGATAAAGTATATTTTTCAAAAAAGAAGTCATGTTTGAACATTTGATTCAATAA
96064273 AAGATTATATATTCAATGC
66 AAGATTATATATTCAATGC
96064292 ATTAATAAAATAGATAAAGTATATTTTTCAAAAAAGAAGTCATGTTTGAACATTTGATTCAATAA
1 ATTAATAAAATAGATAAAGTATATTTTTCAAAAAAGAAGTCATGTTTGAACATTTGATTCAATAA
96064357 AAGATTATATATT
66 AAGATTATATATT
96064370 ATATTGATAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 78 1.00
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.36
Consensus pattern (84 bp):
ATTAATAAAATAGATAAAGTATATTTTTCAAAAAAGAAGTCATGTTTGAACATTTGATTCAATAA
AAGATTATATATTCAATGC
Found at i:96064701 original size:15 final size:16
Alignment explanation
Indices: 96064683--96064720 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
96064673 ATTTATGTAA
*
96064683 TTTTATATATA-AAAT
1 TTTTATATAAATAAAT
*
96064698 TTTTATTTAAATAAAT
1 TTTTATATAAATAAAT
96064714 TTTTATA
1 TTTTATA
96064721 AATCATTATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTATATAAATAAAT
Found at i:96065844 original size:30 final size:29
Alignment explanation
Indices: 96065809--96065878 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 29
96065799 CCTAACCCAA
*
96065809 AAAAAAAAAAAGAAAAAGAAAAAACCTAGCC
1 AAAAAAAAAAA-AAAAAGAAAAAACCTA-AC
96065840 AAAAAAAAAAAAAAAAGAAAAAACCTAAC
1 AAAAAAAAAAAAAAAAGAAAAAACCTAAC
96065869 AAAAAAAAAA
1 AAAAAAAAAA
96065879 TAATAAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 11 0.29
30 16 0.42
31 11 0.29
ACGTcount: A:0.81, C:0.10, G:0.06, T:0.03
Consensus pattern (29 bp):
AAAAAAAAAAAAAAAAGAAAAAACCTAAC
Found at i:96066387 original size:29 final size:29
Alignment explanation
Indices: 96066331--96066387 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
96066321 TCTCTTCTTT
* *
96066331 TTTCATTTATTTTTCGTATTTACCTTAGA
1 TTTCATTTATTTTGCGTATTTAACTTAGA
*
96066360 TTTCATATTATTTTGC-TATTTAATTTAG
1 TTTCAT-TTATTTTGCGTATTTAACTTAG
96066388 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.60
Consensus pattern (29 bp):
TTTCATTTATTTTGCGTATTTAACTTAGA
Found at i:96066647 original size:11 final size:11
Alignment explanation
Indices: 96066631--96066658 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
96066621 GTATATTGTA
96066631 TATATTATATT
1 TATATTATATT
96066642 TATATTATATT
1 TATATTATATT
96066653 TATATT
1 TATATT
96066659 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTATATT
Found at i:96078400 original size:13 final size:13
Alignment explanation
Indices: 96078392--96078416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96078382 TTAAAAAAAG
96078392 AAAAGAAAAAGAA
1 AAAAGAAAAAGAA
96078405 AAAAGAAAAAGA
1 AAAAGAAAAAGA
96078417 GAGAGGGATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAGAA
Found at i:96079648 original size:71 final size:71
Alignment explanation
Indices: 96079464--96079674 Score: 282
Period size: 72 Copynumber: 3.0 Consensus size: 71
96079454 CTTTTAATTT
* *
96079464 TTGTT-TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAT
1 TTGTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTAT
*
96079528 TTTCAA
66 TTTTAA
* * ** * ** * *
96079534 TTTTTGTGTTTTAATTTCAACTCATATTGCGA-CAGATGAGTTGAGCCTCAAGACACGTTGAGGT
1 TTGTTGT-TTTCAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGGGCACGCTGAGGT
96079598 ATTTTTAA
64 ATTTTTAA
96079606 TTGTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTAT
1 TTGTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTAT
96079671 TTTT
66 TTTT
96079675 TAGTTTTAAA
Statistics
Matches: 116, Mismatches: 21, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
70 4 0.03
71 53 0.46
72 59 0.51
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (71 bp):
TTGTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTAT
TTTTAA
Found at i:96079764 original size:188 final size:195
Alignment explanation
Indices: 96079527--96079993 Score: 551
Period size: 188 Copynumber: 2.4 Consensus size: 195
96079517 CGCTGAGGTA
** * * *
96079527 TTTTCAATTTTTGTGTTTT-AATTTCAACTCATATTGCGACAGATGAGTTGAGCCTCAAGACACG
1 TTTT-AATTTTTGT-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* * *
96079591 TTGAGGTATTTTTAATTGTTGT-TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
64 CTGAGGTATTTTCAATTGTTGTGTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA
* * **
96079655 GGGCACGCTGAGGT-AT-T-TTT-TAGTTT-T-A-AATTGACTCATATTGCGAGAGGTGAGTT-A
129 GGACACGATGAGGTAATCTATTTCT-GTTTGTAAGAATCAACTCATATTGCGAGAGGTGAGTTGA
96079712 AGCC
193 A-CC
* * *
96079716 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
* * ** *
96079781 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 GAGGTATTTTCAATTGTTGTGTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG
*
96079846 ACACGATGAGGTAATCTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
131 ACACGATGAGGTAATCT--ATTTCTGTTTGT-AAGAATCAACTCATATTGCGAGAGGTGAGTTGA
96079911 ACC
193 ACC
** * *
96079914 TTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCC-CAGGTCACGC
1 TTTTAATTT-TTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
96079978 CGAGGTATTTTCAATT
65 TGAGGTATTTTCAATT
96079994 TCCGTTTTTC
Statistics
Matches: 236, Mismatches: 28, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
187 4 0.02
188 65 0.28
189 53 0.22
190 2 0.01
191 1 0.00
194 7 0.03
195 2 0.01
197 1 0.00
198 59 0.25
199 42 0.18
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (195 bp):
TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTATTTTCAATTGTTGTGTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG
ACACGATGAGGTAATCTATTTCTGTTTGTAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACC
Found at i:96079837 original size:72 final size:71
Alignment explanation
Indices: 96079716--96079910 Score: 248
Period size: 72 Copynumber: 2.7 Consensus size: 71
96079706 GAGTTAAGCC
* * * *
96079716 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
96079780 TGAGGTA
65 TGAGGTA
**
96079787 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
96079852 TGAGGTA
65 TGAGGTA
* * * * *
96079859 ATCTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTCAATTTTTGTTT-TTAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
96079911 ACCTTTTAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
71 6 0.06
72 70 0.65
73 31 0.29
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
GAGGTA
Found at i:96079987 original size:198 final size:188
Alignment explanation
Indices: 96079550--96079994 Score: 536
Period size: 198 Copynumber: 2.3 Consensus size: 188
96079540 TGTTTTAATT
* * * * * *
96079550 TCAACTCATATTGCGACAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGTTT
* * *
96079615 TCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTTAGTT
66 TCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGTATTTTTTAGTT
** **
96079680 TTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
131 TTAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTACTTTTTCAAAA
* * *
96079738 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT-T
* ** *
96079803 TTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAATT
65 TTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGT-AT-T---TT
*
96079868 TCT-GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTTCTACTTTT
125 T-TAGTTT-T--A-AATCAACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTT-TACTTTT
96079931 TCAAAA
183 TCAAAA
* * *
96079937 TCAGCTCATATTGCGAGAGGTGAGTTGAGCC-CAGGTCACGCCGAGGTATTTTCAATTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
96079995 CCGTTTTTCA
Statistics
Matches: 218, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
188 54 0.25
189 49 0.22
190 2 0.01
191 1 0.00
194 7 0.03
195 2 0.01
197 1 0.00
198 60 0.28
199 42 0.19
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (188 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGTTT
TCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGTATTTTTTAGTT
TTAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTACTTTTTCAAAA
Found at i:96080004 original size:14 final size:14
Alignment explanation
Indices: 96079985--96080019 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
96079975 CGCCGAGGTA
96079985 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
96079999 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
96080013 CTTTCAA
1 TTTTCAA
96080020 AAAAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:96080340 original size:164 final size:164
Alignment explanation
Indices: 96079933--96080650 Score: 992
Period size: 164 Copynumber: 4.5 Consensus size: 164
96079923 CTACTTTTTC
* * *
96079933 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCC-CAGGT--CACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
*
96079995 CCGTTTTTCAATTTCTGTCTTTCAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 CCGTTTTTCAATTTCTGCCTTTC----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
96080060 TCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAA
127 TCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC-AA
*
96080099 AAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
96080164 CCGTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
66 CCGTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
96080229 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAA
131 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAA
*
96080263 AAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
*
96080328 CCGTTTTTCAATTTTTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
66 CCGTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
96080393 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAA
131 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAA
* *
96080427 AAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTTAGGTCACACGCCGAGG-----T--A--
1 AAAA-TCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATT
* * **
96080483 -----TTTTCAATTTCTG-TTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
65 TCCGTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* * * *
96080540 AGACACGTTGAGGTATTTTCAATTTCTGTTTTCAA
130 GGACACGCTGAGGTAATTTCAATTTCTGTTGTCAA
** * * * * *
96080575 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCAATT
1 AAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACGCCGAGGTATTTTCAATT
* *
96080639 TCTGTCTTTCAA
65 TCCGTTTTTCAA
96080651 AAAAATCAAC
Statistics
Matches: 507, Mismatches: 26, Indels: 43
0.88 0.05 0.07
Matches are distributed among these distances:
146 2 0.00
147 38 0.07
148 71 0.14
150 4 0.01
151 12 0.02
152 1 0.00
154 1 0.00
158 1 0.00
160 1 0.00
161 6 0.01
164 169 0.33
165 121 0.24
166 31 0.06
167 5 0.01
169 44 0.09
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (164 bp):
AAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
CCGTTTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
GACACGCTGAGGTAATTTCAATTTCTGTTGTCAA
Found at i:96080649 original size:148 final size:150
Alignment explanation
Indices: 96080332--96080685 Score: 509
Period size: 148 Copynumber: 2.4 Consensus size: 150
96080322 CAATTTCCGT
* * *
96080332 TTTTCAATTTTTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
96080397 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGC
65 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAGTCAACTCATATTGCGAGAGGCGAGTTGAGC
*
96080462 CTTAGGTCACACGCCGAGGTA
130 CTTAGGTCACACGCCGAGCTA
* **
96080483 TTTTCAATTTCTGT-TTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
* * * * *
96080546 GTTGAGGTATTTTCAATTTCTGTTTTCAAAAAA-TCAACTTATATTGCGAGAGGTGAGTTGAGCC
66 GCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAGTCAACTCATATTGCGAGAGGCGAGTTGAGCC
* *
96080610 TT-GGCTCACGCGCTGAGCTA
131 TTAGG-TCACACGCCGAGCTA
96080630 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
96080686 TTCAGATCAC
Statistics
Matches: 180, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
146 2 0.01
147 55 0.31
148 75 0.42
150 36 0.20
151 12 0.07
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.32
Consensus pattern (150 bp):
TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
GCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAGTCAACTCATATTGCGAGAGGCGAGTTGAGCC
TTAGGTCACACGCCGAGCTA
Found at i:96080817 original size:14 final size:13
Alignment explanation
Indices: 96080798--96080833 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
96080788 TGTCGAGGTA
96080798 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
96080811 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
96080825 TTTTCAAAA
1 TTTTCAAAA
96080834 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:96080901 original size:88 final size:89
Alignment explanation
Indices: 96080630--96080906 Score: 265
Period size: 91 Copynumber: 3.1 Consensus size: 89
96080620 CGCTGAGCTA
* * *
96080630 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATC
1 TTTTCAAATTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT-GGATC
** * *** *
96080694 ACACACTGAGGTTTTTTTTTTTTTTTT
63 ACATGCTGAGGTATTTTCAATTTTTGT
* * * * * * *
96080721 TTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCA
1 TTTTCAAATTCT-GTTTTC-AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGATCA
** *
96080786 CATG-TCGAGGTATTTTCAAAATCTGT
64 CATGCT-GAGGTATTTTCAATTTTTGT
* *
96080812 TTTTCAAATTCTGTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACG
1 TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGATCACA
*
96080876 TGCTGAGCTATTTTCAATTTTTG-
66 TGCTGAGGTATTTTCAATTTTTGT
96080899 TTTTCAAA
1 TTTTCAAA
96080907 AAATTTCAAC
Statistics
Matches: 153, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
87 8 0.05
88 58 0.38
89 1 0.01
90 6 0.04
91 77 0.50
92 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (89 bp):
TTTTCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGATCACA
TGCTGAGGTATTTTCAATTTTTGT
Found at i:96080959 original size:30 final size:30
Alignment explanation
Indices: 96080923--96080981 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
96080913 CAACTCATAT
96080923 TGCGAGAGATGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGATGAGTTGAGTC-TTTTAATTTC
*
96080953 TGCGAGAGTTGAGTTGAGTCTTTTAATTT
1 TGCGAGAGATGAGTTGAGTCTTTTAATTT
96080982 TGTTCTTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.22, C:0.08, G:0.27, T:0.42
Consensus pattern (30 bp):
TGCGAGAGATGAGTTGAGTCTTTTAATTTC
Found at i:96081150 original size:337 final size:328
Alignment explanation
Indices: 96080483--96081201 Score: 749
Period size: 337 Copynumber: 2.2 Consensus size: 328
96080473 CGCCGAGGTA
* *
96080483 TTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
* * *
96080548 TGAGGTATTTTCAATTTCTGTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTG
66 TGAGCTATTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTG
*
96080613 GCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTG
131 GCTCACGAGCTGAGCTATTTTCAATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTG
* * * ***** * ** * *
96080678 AGTTGAGCTTCAGATCACACACTGAGGTTTTTTTTTTTTTTTTTTTTCAATTTATATTTTTCAAA
195 AGTTGAACCTCAGATCACACACTGAGGTATTTTCAAAATCTGCTTTTCAAGTTATATGTTTCAAA
* * * *
96080743 AAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAAT
260 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGTCGAGCTATTTTCAAAAT
96080808 CTGT
325 CTGT
* ** *
96080812 TTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTCACG
1 TTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACG
*
96080876 TGCTGAGCTATTTTCAATTTTTGTTTTCAAAAAATTTCAACTCATATTGCGAGAGATGAGTTGAG
65 T--TGAGCTATTTTCAATTTCTGTTTTCAAAAAA--TCAACTCATATTGCGAGAGATGAGTTGAG
* ** * * *
96080941 CTTTTTAATTTCTGCGA-GAGTTGAGTTGAGTCTTTTAATTT-TGT-TCTTC-AAAAATCAACTC
126 C---CT--TGGCT-C-ACGAGCTGAGCT-A-T-TTTCAATTTCTGTCT-TTCAAAAAATCAACTC
* * *
96081002 ATATTGCGAGAGGTGAGTTGAACCTCCGGTCACATA-TCGAGGTATTTTCAAAATCTGCTTTTCA
180 ATATTGCGAGAGGTGAGTTGAACCTCAGATCACACACT-GAGGTATTTTCAAAATCTGCTTTTCA
* * *
96081066 AGTTA-A-GTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCG-C
244 AGTTATATGTTTCAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGTC
**
96081128 TGAGCTATTTTCAATTTCTGT
309 -GAGCTATTTTCAAAATCTGT
* * * * *
96081149 TTTT--AATGTCTGTTTTTAGAGAGTCAATTCATATTGCGAAAAATGAGTTGAGC
1 TTTTCAAAT-TCTGTTTTCA-AAAATCAACTCATATTGCGAGAAATGAGTTGAGC
96081202 TCAGGATCAC
Statistics
Matches: 322, Mismatches: 48, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
328 1 0.00
329 57 0.18
331 29 0.09
333 28 0.09
335 3 0.01
336 11 0.03
337 98 0.30
338 5 0.02
339 72 0.22
340 3 0.01
341 7 0.02
342 8 0.02
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (328 bp):
TTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
TGAGCTATTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTG
GCTCACGAGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGA
GTTGAACCTCAGATCACACACTGAGGTATTTTCAAAATCTGCTTTTCAAGTTATATGTTTCAAAA
AAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGTCGAGCTATTTTCAAAATC
TGT
Found at i:96081866 original size:39 final size:40
Alignment explanation
Indices: 96081809--96081909 Score: 134
Period size: 42 Copynumber: 2.5 Consensus size: 40
96081799 CCCCCCCAAA
* *
96081809 AAAAAACCTAACCCAAAAAAAA-AAAGAAAAAA-AAAAAAG
1 AAAAAACCT-ACCAAAAAAAAAGAAAAAAAAAAGAAAAAAG
96081848 AAAAAACCTAGCCAAAAAAAAAAGAAAAAAAAAAGAAAAAAG
1 AAAAAACCTA-CC-AAAAAAAAAGAAAAAAAAAAGAAAAAAG
*
96081890 AAAAAACCTAACAAAAAAAA
1 AAAAAACCTACCAAAAAAAA
96081910 TAATAAAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
38 1 0.02
39 11 0.20
40 16 0.29
41 10 0.18
42 17 0.31
ACGTcount: A:0.79, C:0.12, G:0.06, T:0.03
Consensus pattern (40 bp):
AAAAAACCTACCAAAAAAAAAGAAAAAAAAAAGAAAAAAG
Found at i:96081869 original size:42 final size:41
Alignment explanation
Indices: 96081823--96081920 Score: 133
Period size: 42 Copynumber: 2.4 Consensus size: 41
96081813 AACCTAACCC
* *
96081823 AAAAAAAAAAAGAAAAAAAAAAAAGAAAAAACCTAGCCAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAGAAAAAACCTA-ACAAAA
* *
96081865 AAAAAAGAAAAAAAAAAGAAAAAAGAAAAAACCTAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAGAAAAAACCTAACAAAA
* *
96081906 AAAATAATAAAAAAA
1 AAAAAAAAAAAAAAA
96081921 CTTAGCCACC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 17 0.35
42 32 0.65
ACGTcount: A:0.83, C:0.07, G:0.06, T:0.04
Consensus pattern (41 bp):
AAAAAAAAAAAAAAAAAAAAAAAAGAAAAAACCTAACAAAA
Found at i:96081905 original size:24 final size:23
Alignment explanation
Indices: 96081837--96081919 Score: 86
Period size: 24 Copynumber: 3.7 Consensus size: 23
96081827 AAAAAAAGAA
*
96081837 AAAAAAAAAAGAAAAAACCTAGCC
1 AAAAAAAAAAGAAAAAACCTA-AC
96081861 AAAAAAAAAAG-AAAAA---AA-
1 AAAAAAAAAAGAAAAAACCTAAC
*
96081879 AAAGAAAAAAGAAAAAACCTAAC
1 AAAAAAAAAAGAAAAAACCTAAC
*
96081902 AAAAAAAATAATAAAAAA
1 AAAAAAAA-AAGAAAAAA
96081920 ACTTAGCCAC
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
18 10 0.20
19 5 0.10
20 1 0.02
22 2 0.04
23 12 0.24
24 19 0.39
ACGTcount: A:0.81, C:0.08, G:0.06, T:0.05
Consensus pattern (23 bp):
AAAAAAAAAAGAAAAAACCTAAC
Found at i:96082422 original size:29 final size:29
Alignment explanation
Indices: 96082366--96082422 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
96082356 TCTCTTCTTT
* *
96082366 TTTCATTTATTTTTCGTATTTACCTTAGA
1 TTTCATTTATTTTGCGTATTTAACTTAGA
*
96082395 TTTCATATTATTTTGC-TATTTAATTTAG
1 TTTCAT-TTATTTTGCGTATTTAACTTAG
96082423 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.60
Consensus pattern (29 bp):
TTTCATTTATTTTGCGTATTTAACTTAGA
Found at i:96082683 original size:11 final size:11
Alignment explanation
Indices: 96082667--96082694 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
96082657 GTATATTGTA
96082667 TATATTATATT
1 TATATTATATT
96082678 TATATTATATT
1 TATATTATATT
96082689 TATATT
1 TATATT
96082695 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATTATATT
Found at i:96085047 original size:29 final size:29
Alignment explanation
Indices: 96085014--96085071 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
96085004 TATTTCTTTA
*
96085014 TTTTTGTTATTATTT-TTCCTTTTTATTTT
1 TTTTTATT-TTATTTCTTCCTTTTTATTTT
**
96085043 TTTTTATTTTATTTCTTTTTTTTTATTTT
1 TTTTTATTTTATTTCTTCCTTTTTATTTT
96085072 CAACTCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.10, C:0.05, G:0.02, T:0.83
Consensus pattern (29 bp):
TTTTTATTTTATTTCTTCCTTTTTATTTT
Found at i:96085049 original size:26 final size:25
Alignment explanation
Indices: 96085003--96085071 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
96084993 TCTCCTTTTG
96085003 TTATTTC--TTTATTTTTGTTATTA-T
1 TTATTTCTTTTTATTTTT-TT-TTATT
*
96085027 TT-TTCCTTTTTATTTTTTTTTATT
1 TTATTTCTTTTTATTTTTTTTTATT
*
96085051 TTATTTCTTTTT-TTTTATTTT
1 TTATTTCTTTTTATTTTTTTTT
96085072 CAACTCAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 6 0.16
24 15 0.39
25 17 0.45
ACGTcount: A:0.12, C:0.06, G:0.01, T:0.81
Consensus pattern (25 bp):
TTATTTCTTTTTATTTTTTTTTATT
Found at i:96090885 original size:14 final size:14
Alignment explanation
Indices: 96090865--96090903 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
96090855 TTGTTTCATT
96090865 GAAAATGATTTTCGA
1 GAAAATGATTTT-GA
*
96090880 -AAAATGATTTTTA
1 GAAAATGATTTTGA
96090893 GAAAATGATTT
1 GAAAATGATTT
96090904 ACTTTTCTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.38
Consensus pattern (14 bp):
GAAAATGATTTTGA
Found at i:96091385 original size:15 final size:15
Alignment explanation
Indices: 96091365--96091416 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
96091355 ACTACAAAAC
96091365 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
96091380 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
96091399 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
96091414 ATT
1 ATT
96091417 AACATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:96091480 original size:16 final size:16
Alignment explanation
Indices: 96091449--96091485 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
96091439 ATGCTAATAA
96091449 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
96091465 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
96091481 TATTA
1 TATTA
96091486 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:96091534 original size:21 final size:21
Alignment explanation
Indices: 96091509--96091550 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
96091499 AGATTAAATA
96091509 ATTTATTAAATAATAAATTAT
1 ATTTATTAAATAATAAATTAT
* * *
96091530 ATTTATTTATTAATAATTTAT
1 ATTTATTAAATAATAAATTAT
96091551 TATAAGACTA
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTATTAAATAATAAATTAT
Found at i:96092597 original size:46 final size:48
Alignment explanation
Indices: 96092523--96092612 Score: 166
Period size: 46 Copynumber: 1.9 Consensus size: 48
96092513 TTTCCCAAAT
96092523 GAAATTTTTTAAATTTTTTTTATCTTTTATAGGGGACCAAAACGGTGC
1 GAAATTTTTTAAATTTTTTTTATCTTTTATAGGGGACCAAAACGGTGC
96092571 GAAA-TTTTTAAA-TTTTTTTATCTTTTATAGGGGACCAAAACG
1 GAAATTTTTTAAATTTTTTTTATCTTTTATAGGGGACCAAAACG
96092613 CACCGTTTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
46 30 0.71
47 8 0.19
48 4 0.10
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (48 bp):
GAAATTTTTTAAATTTTTTTTATCTTTTATAGGGGACCAAAACGGTGC
Found at i:96093065 original size:3 final size:3
Alignment explanation
Indices: 96092986--96093117 Score: 113
Period size: 3 Copynumber: 43.0 Consensus size: 3
96092976 TTTTTGTTGT
* * * * *
96092986 TTA TTC TTA TT- TTC TTA TTAA ATA TTC TTA TTA TTTA TATA ATA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA -TTA T-TA TTA TTA
* * * * * * *
96093033 GTA CTA TTA CTA TTA CTA TTG TTC TTA TTA TTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
96093081 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TGTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
96093118 GTTTATGTTT
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
2 2 0.02
3 91 0.88
4 10 0.10
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:96093349 original size:15 final size:15
Alignment explanation
Indices: 96093316--96093354 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
96093306 TTTAATGTCG
*
96093316 TATTATTATGTTTTAA
1 TATTA-TATATTTTAA
*
96093332 TATTATATATTTTCA
1 TATTATATATTTTAA
96093347 TATTATAT
1 TATTATAT
96093355 TATATACATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTATATATTTTAA
Found at i:96103523 original size:45 final size:46
Alignment explanation
Indices: 96103426--96103542 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 46
96103416 TTATGCTTAA
*
96103426 GATGAAAACCCGAAAAGGGCATCTTAATAAAAAAAAAAGGATCAAG
1 GATGAAAACCCGAAAAGGGCGTCTTAATAAAAAAAAAAGGATCAAG
* * ** * *
96103472 G-CGAAAACCCGAAAAGGGCGTCTTGATTAGTACAAAAA-GAT-TAG
1 GATGAAAACCCGAAAAGGGCGTCTT-AATAAAAAAAAAAGGATCAAG
* *
96103516 GATGAAAACCCG-AGAGGGCGTCCTAAT
1 GATGAAAACCCGAAAAGGGCGTCTTAAT
96103543 GAAACAAACC
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
43 2 0.03
44 13 0.22
45 33 0.57
46 10 0.17
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.15
Consensus pattern (46 bp):
GATGAAAACCCGAAAAGGGCGTCTTAATAAAAAAAAAAGGATCAAG
Found at i:96104861 original size:54 final size:54
Alignment explanation
Indices: 96104710--96104924 Score: 317
Period size: 54 Copynumber: 4.0 Consensus size: 54
96104700 TCTACTTTCC
* * *
96104710 AATTCCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTTTC
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
* *
96104764 AATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
1 AATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
96104819 AATTTCTGTTTTTCAAAAAGT-AACTCATATTGCGAGAGGTGAGTTGTA-CCTTTT
1 AATTTCTGTTTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTT
* * *
96104873 AATTTTTGTTTTTCAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
96104925 AGGTCATATG
Statistics
Matches: 146, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
53 2 0.01
54 92 0.63
55 52 0.36
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (54 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT
Found at i:96105723 original size:32 final size:32
Alignment explanation
Indices: 96105669--96105729 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
96105659 CTGACCCACA
* * * *
96105669 AAACCCAATACACAGAAGCCCAAACCCCTTAC
1 AAACCCAAAACACAAAACCCCAAAACCCTTAC
*
96105701 AAACCCAAAACCCAAAACCCCAAAACCCT
1 AAACCCAAAACACAAAACCCCAAAACCCT
96105730 AATCAGCCGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.48, C:0.43, G:0.03, T:0.07
Consensus pattern (32 bp):
AAACCCAAAACACAAAACCCCAAAACCCTTAC
Found at i:96106328 original size:14 final size:15
Alignment explanation
Indices: 96106309--96106341 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
96106299 TGGCCGGTGC
96106309 TCTCCCCTCTCTT-T
1 TCTCCCCTCTCTTCT
96106323 TCTCCCCTCTCTTCT
1 TCTCCCCTCTCTTCT
96106338 TCTC
1 TCTC
96106342 TCCTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (15 bp):
TCTCCCCTCTCTTCT
Found at i:96106869 original size:3 final size:3
Alignment explanation
Indices: 96106812--96106918 Score: 115
Period size: 3 Copynumber: 34.7 Consensus size: 3
96106802 TCTTATTAAA
* * * * * * *
96106812 TAT TCT TAT TATT TAT ATAA TAT TAG TAC TAT TAC TAT TAC TAT TGT
1 TAT TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
96106859 TCT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96106907 TAT TAT GTAT TA
1 TAT TAT -TAT TA
96106919 GTTTATGTTT
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
3 79 0.91
4 8 0.09
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:96107150 original size:15 final size:15
Alignment explanation
Indices: 96107117--96107155 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
96107107 TTTAATGTCG
*
96107117 TATTATTATGTTTTAA
1 TATTA-TATATTTTAA
*
96107133 TATTATATATTTTCA
1 TATTATATATTTTAA
96107148 TATTATAT
1 TATTATAT
96107156 TATATACATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTATATATTTTAA
Found at i:96110885 original size:21 final size:21
Alignment explanation
Indices: 96110859--96110898 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
96110849 TATACAAAAC
96110859 AAAATATACACATAATATATT
1 AAAATATACACATAATATATT
**
96110880 AAAATATATGCATAATATA
1 AAAATATACACATAATATA
96110899 CGTCAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (21 bp):
AAAATATACACATAATATATT
Found at i:96112268 original size:24 final size:24
Alignment explanation
Indices: 96112235--96112300 Score: 114
Period size: 24 Copynumber: 2.8 Consensus size: 24
96112225 GGTATTGGGT
* *
96112235 TTAGTAGGTTTTGGGGTTATTGGC
1 TTAGTGGGTTTAGGGGTTATTGGC
96112259 TTAGTGGGTTTAGGGGTTATTGGC
1 TTAGTGGGTTTAGGGGTTATTGGC
96112283 TTAGTGGGTTTAGGGGTT
1 TTAGTGGGTTTAGGGGTT
96112301 TTAGGCCCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.12, C:0.03, G:0.41, T:0.44
Consensus pattern (24 bp):
TTAGTGGGTTTAGGGGTTATTGGC
Found at i:96122502 original size:51 final size:51
Alignment explanation
Indices: 96122426--96122530 Score: 140
Period size: 51 Copynumber: 2.1 Consensus size: 51
96122416 ATTTTAAAGA
* * *
96122426 CTCCCAACTGAATTGCGTAATGTGATTGGATAAGTATGAAAGGCTTATTAT
1 CTCCCAACTGAATTGCGTAAGGTGATTAGATAAGCATGAAAGGCTTATTAT
* * *
96122477 CTCCCAATTGAATTGC-TAGAGGTGATTAGATAAGCATGAAAGTCTTCTTAT
1 CTCCCAACTGAATTGCGTA-AGGTGATTAGATAAGCATGAAAGGCTTATTAT
96122528 CTC
1 CTC
96122531 TTAGTAATCA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 2 0.04
51 45 0.96
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (51 bp):
CTCCCAACTGAATTGCGTAAGGTGATTAGATAAGCATGAAAGGCTTATTAT
Found at i:96124664 original size:29 final size:29
Alignment explanation
Indices: 96124645--96124708 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
96124635 ATGTATTATA
96124645 TAATAATGAAAATAGTTATATAATAATAG
1 TAATAATGAAAATAGTTATATAATAATAG
* *
96124674 TTATAATGATAATAGTTATAATAATAGAATAG
1 TAATAATGAAAATAGTTAT-ATAAT--AATAG
96124706 TAA
1 TAA
96124709 GTGGAAGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 17 0.59
30 5 0.17
32 7 0.24
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (29 bp):
TAATAATGAAAATAGTTATATAATAATAG
Found at i:96124687 original size:15 final size:15
Alignment explanation
Indices: 96124647--96124695 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
96124637 GTATTATATA
*
96124647 ATAATGAAAATAGTT
1 ATAATGATAATAGTT
*
96124662 AT-ATAATAATAGTT
1 ATAATGATAATAGTT
96124676 ATAATGATAATAGTT
1 ATAATGATAATAGTT
96124691 ATAAT
1 ATAAT
96124696 AATAGAATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (15 bp):
ATAATGATAATAGTT
Found at i:96124748 original size:12 final size:12
Alignment explanation
Indices: 96124733--96124805 Score: 83
Period size: 12 Copynumber: 5.8 Consensus size: 12
96124723 AATTAAATAG
96124733 AAAAAGAAGAAA
1 AAAAAGAAGAAA
96124745 AAAAAGAAAGAAAA
1 AAAAAG-AAG-AAA
96124759 AAAAAGAAGAAA
1 AAAAAGAAGAAA
* *
96124771 GAAAATAAGGAAA
1 AAAAAGAA-GAAA
96124784 AATAAAGAAGAAA
1 AA-AAAGAAGAAA
*
96124797 GAAAAGAAG
1 AAAAAGAAG
96124806 GAGAACGCAC
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
12 22 0.42
13 16 0.31
14 14 0.27
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (12 bp):
AAAAAGAAGAAA
Found at i:96124768 original size:17 final size:17
Alignment explanation
Indices: 96124731--96124775 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
96124721 AAAATTAAAT
*
96124731 AGAA-AAAGAAGAAAAA
1 AGAAGAAAGAAAAAAAA
96124747 A-AAGAAAGAAAAAAAA
1 AGAAGAAAGAAAAAAAA
96124763 AGAAGAAAGAAAA
1 AGAAGAAAGAAAA
96124776 TAAGGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 2 0.08
16 13 0.50
17 11 0.42
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AGAAGAAAGAAAAAAAA
Found at i:96124806 original size:26 final size:26
Alignment explanation
Indices: 96124733--96124807 Score: 114
Period size: 26 Copynumber: 2.9 Consensus size: 26
96124723 AATTAAATAG
* *
96124733 AAAAAGAAGAAAAAAAAGAAAGAAAA
1 AAAAAGAAGAAAGAAAAGAAGGAAAA
*
96124759 AAAAAGAAGAAAGAAAATAAGGAAAA
1 AAAAAGAAGAAAGAAAAGAAGGAAAA
*
96124785 ATAAAGAAGAAAGAAAAGAAGGA
1 AAAAAGAAGAAAGAAAAGAAGGA
96124808 GAACGCACGG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (26 bp):
AAAAAGAAGAAAGAAAAGAAGGAAAA
Found at i:96128487 original size:32 final size:32
Alignment explanation
Indices: 96128451--96128519 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
96128441 AGGACCTTAA
96128451 AAATAGTTTGGAAACAATCAGGAACAAAATTG
1 AAATAGTTTGGAAACAATCAGGAACAAAATTG
96128483 AAATAGTTTGGAAACAATCAGGAACAAAATTG
1 AAATAGTTTGGAAACAATCAGGAACAAAATTG
96128515 AAATA
1 AAATA
96128520 AAATTGAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.52, C:0.09, G:0.17, T:0.22
Consensus pattern (32 bp):
AAATAGTTTGGAAACAATCAGGAACAAAATTG
Found at i:96131996 original size:31 final size:31
Alignment explanation
Indices: 96131961--96132019 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
96131951 TATTTGAGTT
96131961 AATTAAGTTATTCGGATCAACTCGAATAAAA
1 AATTAAGTTATTCGGATCAACTCGAATAAAA
* * *
96131992 AATTAAGTTTTTCGGTTTAACTCGAATA
1 AATTAAGTTATTCGGATCAACTCGAATA
96132020 CGAATTACAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.36
Consensus pattern (31 bp):
AATTAAGTTATTCGGATCAACTCGAATAAAA
Found at i:96134917 original size:30 final size:30
Alignment explanation
Indices: 96134883--96134942 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
96134873 ACTTAACAAG
96134883 CAAATAACTCTAAAATAATAACAAAATTAA
1 CAAATAACTCTAAAATAATAACAAAATTAA
** *
96134913 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATAACTCTAAAATAATAACAAAATTAA
96134943 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.60, C:0.13, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATAACTCTAAAATAATAACAAAATTAA
Found at i:96138791 original size:18 final size:18
Alignment explanation
Indices: 96138758--96138792 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96138748 GTTCATTTGA
*
96138758 CTGAATTAACCAAATTAG
1 CTGAATTAAACAAATTAG
*
96138776 CTGAATTAAACGAATTA
1 CTGAATTAAACAAATTA
96138793 AAACTACATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (18 bp):
CTGAATTAAACAAATTAG
Found at i:96141393 original size:22 final size:22
Alignment explanation
Indices: 96141329--96141395 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
96141319 CATTCGTACA
96141329 TATGTGTATAAGTTATGGTTAT
1 TATGTGTATAAGTTATGGTTAT
** **
96141351 TA--TG-ATTCGTTA-AATTGAT
1 TATGTGTATAAGTTATGGTT-AT
96141370 TATGTGTATAAGTTATGGTTAT
1 TATGTGTATAAGTTATGGTTAT
96141392 TATG
1 TATG
96141396 ACTTGGAATA
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
18 2 0.06
19 10 0.31
20 2 0.06
21 2 0.06
22 14 0.44
23 2 0.06
ACGTcount: A:0.28, C:0.01, G:0.21, T:0.49
Consensus pattern (22 bp):
TATGTGTATAAGTTATGGTTAT
Found at i:96148969 original size:14 final size:14
Alignment explanation
Indices: 96148950--96148986 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
96148940 TATTTAACTT
96148950 ATTCCACATATGAA
1 ATTCCACATATGAA
96148964 ATTCCACATATGAA
1 ATTCCACATATGAA
*
96148978 ATTCTACAT
1 ATTCCACAT
96148987 TATCCCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (14 bp):
ATTCCACATATGAA
Found at i:96149203 original size:30 final size:31
Alignment explanation
Indices: 96149169--96149226 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
96149159 TCTTCAAGGT
96149169 TAAAATTTGCA-A-TTAATCCCTATACTTTGA
1 TAAAATTTG-ATACTTAATCCCTATACTTTGA
*
96149199 TAAAATTTGATACTTAATCTCTATACTT
1 TAAAATTTGATACTTAATCCCTATACTT
96149227 AAAAAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 10 0.40
31 14 0.56
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (31 bp):
TAAAATTTGATACTTAATCCCTATACTTTGA
Found at i:96150378 original size:5 final size:5
Alignment explanation
Indices: 96150368--96150395 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
96150358 CAAACCTTGA
96150368 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
96150396 TTCTCGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:96154770 original size:9 final size:9
Alignment explanation
Indices: 96154756--96154785 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
96154746 AAAATTATTA
96154756 TTTAAAATT
1 TTTAAAATT
96154765 TTTAAAATTT
1 TTTAAAA-TT
96154775 TTTAAAATT
1 TTTAAAATT
96154784 TT
1 TT
96154786 AAATTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTAAAATT
Found at i:96154778 original size:10 final size:10
Alignment explanation
Indices: 96154756--96154785 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
96154746 AAAATTATTA
96154756 TTTAAAA-TT
1 TTTAAAATTT
96154765 TTTAAAATTT
1 TTTAAAATTT
96154775 TTTAAAATTT
1 TTTAAAATTT
96154785 T
1 T
96154786 AAATTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.35
10 13 0.65
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTAAAATTT
Found at i:96156832 original size:31 final size:31
Alignment explanation
Indices: 96156769--96156833 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
96156759 TCATTAAACC
* *
96156769 ATTCGAAAGTTTTCATTTAAGCCCTTGAGCT
1 ATTCGAAAGTTTTCATATAAGCCATTGAGCT
* *
96156800 ATTCGAAAG-TTTCTATATAAGTCATTGGGCT
1 ATTCGAAAGTTTTC-ATATAAGCCATTGAGCT
96156831 ATT
1 ATT
96156834 AAATTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 4 0.14
31 25 0.86
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (31 bp):
ATTCGAAAGTTTTCATATAAGCCATTGAGCT
Found at i:96163536 original size:29 final size:28
Alignment explanation
Indices: 96163486--96163541 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
96163476 GTACATATCA
96163486 AGAAAAACGAAATTTGGAATTAAATCGAG
1 AGAAAAACGAAATTTGGAATT-AATCGAG
96163515 AGAAAAAC-AAAGTTTCGG-ATTAATCGA
1 AGAAAAACGAAA-TTT-GGAATTAATCGA
96163542 TTTATTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 9 0.36
29 14 0.56
30 2 0.08
ACGTcount: A:0.50, C:0.09, G:0.20, T:0.21
Consensus pattern (28 bp):
AGAAAAACGAAATTTGGAATTAATCGAG
Found at i:96171144 original size:27 final size:29
Alignment explanation
Indices: 96171105--96171162 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 29
96171095 TTTTATTTTA
* *
96171105 ATTTTTATAATTAAAT-TTAAATA-AAAT
1 ATTTTAATAATTAAATAATAAATAGAAAT
*
96171132 ATTTTAATCATTAAATAATAAATAGAAAT
1 ATTTTAATAATTAAATAATAAATAGAAAT
96171161 AT
1 AT
96171163 AAGCCCAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 14 0.54
28 6 0.23
29 6 0.23
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
ATTTTAATAATTAAATAATAAATAGAAAT
Found at i:96171903 original size:14 final size:16
Alignment explanation
Indices: 96171874--96171905 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
96171864 CCGATACTAA
96171874 AATTAATTCTCCATCC
1 AATTAATTCTCCATCC
96171890 AATTAA-TC-CCATCC
1 AATTAATTCTCCATCC
96171904 AA
1 AA
96171906 ACTTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (16 bp):
AATTAATTCTCCATCC
Found at i:96173141 original size:17 final size:17
Alignment explanation
Indices: 96173119--96173152 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
96173109 TAAATCTAAT
*
96173119 GTATAAAAATTATTTTA
1 GTATAAAAATTAATTTA
96173136 GTATAAAAATTAATTTA
1 GTATAAAAATTAATTTA
96173153 TTTATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
GTATAAAAATTAATTTA
Found at i:96177033 original size:69 final size:69
Alignment explanation
Indices: 96176946--96177084 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
96176936 TTAATAAGAG
96176946 ATAAGGTTCTTATAATTACCAACACTACCTTCCCTAATCAATTAGCTTCCTAATCCTACCACATA
1 ATAAGGTTCTTATAATTACCAACACTACCTTCCCTAATCAATTAGCTTCCTAATCCTACCACATA
96177011 TTTC
66 TTTC
96177015 ATAAGGTTCTTATAATTACCAACACTACCTTCCCTAATCAATTAGCTTCCTAATCCTACCACATA
1 ATAAGGTTCTTATAATTACCAACACTACCTTCCCTAATCAATTAGCTTCCTAATCCTACCACATA
96177080 TTTC
66 TTTC
96177084 A
1 A
96177085 GCATTCACTA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (69 bp):
ATAAGGTTCTTATAATTACCAACACTACCTTCCCTAATCAATTAGCTTCCTAATCCTACCACATA
TTTC
Found at i:96182207 original size:15 final size:15
Alignment explanation
Indices: 96182187--96182216 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
96182177 CCATTTTTTT
*
96182187 ATATTAGGATAATTA
1 ATATTAAGATAATTA
96182202 ATATTAAGATAATTA
1 ATATTAAGATAATTA
96182217 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:96185451 original size:30 final size:28
Alignment explanation
Indices: 96185404--96185461 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
96185394 ATTGCTTGGC
* *
96185404 CCTTATTTGACCCTTTTGAAAAGTTTAA
1 CCTTATTTGACACTTTTGAAAAGATTAA
*
96185432 CCTTCATTTGAGCACTTTTGTAAAGATTAA
1 CCTT-ATTTGA-CACTTTTGAAAAGATTAA
96185462 GTGCTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.16
29 6 0.24
30 15 0.60
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (28 bp):
CCTTATTTGACACTTTTGAAAAGATTAA
Found at i:96191113 original size:38 final size:38
Alignment explanation
Indices: 96191062--96191139 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
96191052 AAAACGATAA
*
96191062 CTCTTTTCACTTCACGGGCTACTATGGGAATGCTGACC
1 CTCTTTTCACTTCACGGGCTACTATGGGAATACTGACC
**
96191100 CTCTTTTCACTTCACGGGCTTTTATGGGAATACTGACC
1 CTCTTTTCACTTCACGGGCTACTATGGGAATACTGACC
96191138 CT
1 CT
96191140 AATAAAAGAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.35
Consensus pattern (38 bp):
CTCTTTTCACTTCACGGGCTACTATGGGAATACTGACC
Found at i:96195259 original size:44 final size:44
Alignment explanation
Indices: 96195209--96195524 Score: 187
Period size: 42 Copynumber: 7.3 Consensus size: 44
96195199 ACCTGTTACC
* *
96195209 CTACTGCTTTGGGGTTTAAGGTTCCTCGTCTTCGGTCTGCTCCA
1 CTACTGCTTAGGGGTTTAAGGTTCCTCGTCTTCGATCTGCTCCA
* * * * *
96195253 CTACTGCTTAGGGAG-ATAA-GAT-CT-G-CAATTCAACCTGTTACC-
1 CTACTGCTTAGGG-GTTTAAGGTTCCTCGTC--TTCGATCTGCT-CCA
*
96195295 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGTTTAAGGTTCCTCGTCTTCGATCTGCTCCA
* * * ** * * **
96195339 CTACTGCTTAGGGAG-ATAA-GAT-CTGGAATTCAACCTATTACC-
1 CTACTGCTTAGGG-GTTTAAGGTTCCTCGTCTTCGATCTGCT-CCA
* **
96195381 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTATTCCA
1 CTACTGCTTAGGGGTTTAAGGTTCCTCGTCTTCGATCTGCTCCA
* * * * *
96195425 CTACTGCTTAGGGAG-ATAA-GAT-CT-G-CAATTCAACCTGTTACC-
1 CTACTGCTTAGGG-GTTTAAGGTTCCTCGTC--TTCGATCTGCT-CCA
*
96195467 CTACTGCTTAGGGGTTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGG-TTTAAGGTTCCTCGTCTTCGATCTGCTCCA
96195512 CTACTGCTTAGGG
1 CTACTGCTTAGGG
96195525 AGATAAGATC
Statistics
Matches: 202, Mismatches: 43, Indels: 53
0.68 0.14 0.18
Matches are distributed among these distances:
40 2 0.01
41 5 0.02
42 72 0.36
43 23 0.11
44 71 0.35
45 26 0.13
46 2 0.01
47 1 0.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (44 bp):
CTACTGCTTAGGGGTTTAAGGTTCCTCGTCTTCGATCTGCTCCA
Found at i:96195287 original size:86 final size:86
Alignment explanation
Indices: 96195196--96195574 Score: 659
Period size: 86 Copynumber: 4.4 Consensus size: 86
96195186 ATCTGTAAAC
* * *
96195196 TCAACCTGTTACCCTACTGCTTTGGGGTTTAAGGTTCCTCGTCTTCGGTCTGCTCCACTACTGCT
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCT
96195261 TAGGGAGATAAGATCTGCAAT
66 TAGGGAGATAAGATCTGCAAT
96195282 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCT
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCT
*
96195347 TAGGGAGATAAGATCTGGAAT
66 TAGGGAGATAAGATCTGCAAT
* **
96195368 TCAACCTATTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTATTCCACTACTGCT
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCT
96195433 TAGGGAGATAAGATCTGCAAT
66 TAGGGAGATAAGATCTGCAAT
96195454 TCAACCTGTTACCCTACTGCTTAGGGGTTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGC
1 TCAACCTGTTACCCTACTGCTTAGGGG-TTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGC
*
96195519 TTAGGGAGATAAGATCTGGAAT
65 TTAGGGAGATAAGATCTGCAAT
* *
96195541 TCAACCTATTACCCTACGGCTTAGGGGTTTAAGG
1 TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGG
96195575 CTTGTAAATT
Statistics
Matches: 278, Mismatches: 14, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
86 197 0.71
87 81 0.29
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (86 bp):
TCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCT
TAGGGAGATAAGATCTGCAAT
Found at i:96195645 original size:129 final size:131
Alignment explanation
Indices: 96195512--96195749 Score: 331
Period size: 129 Copynumber: 1.8 Consensus size: 131
96195502 ATCTGCTCCA
* *
96195512 CTACTGCTTAGGGAGA-TAAGATCTGGAATTCAACCTATTACCCTACGGCTTAGGGGTTTAAG-G
1 CTACTACTTAGGG-GATTAAGATCTGCAATTCAACCTATTACCCTACGGCTTAGGGGTTTAAGAG
* *
96195575 CTTGT-AA-ATTTAGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCACTTTTGATCTATT
65 CTTATGAACA-TCAGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCACTTTTGATCTATT
96195638 TCC
129 TCC
**** * * *
96195641 CTACTACTTAGGGGATTAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGATC
1 CTACTACTTAGGGGATTAAGATCTGCAATTCAACCTATTACCCTACGGCTTAGGGGTTTAAGAGC
96195706 TTATGAACATCAGCTTGTTACCCTACTGCTTAGGGGGTTAAAGC
66 TTATGAACATCAGCTTGTTACCCTACTGCTTAGGGGGTTAAAGC
96195750 TTGGTGGTTT
Statistics
Matches: 94, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
128 2 0.02
129 51 0.54
130 4 0.04
131 36 0.38
132 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (131 bp):
CTACTACTTAGGGGATTAAGATCTGCAATTCAACCTATTACCCTACGGCTTAGGGGTTTAAGAGC
TTATGAACATCAGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCACTTTTGATCTATTTC
C
Found at i:96213606 original size:75 final size:75
Alignment explanation
Indices: 96213499--96213648 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
96213489 AATATCAACC
*
96213499 AATTGACCAAACGATACTTAGGTAAGAATCAACCTAGAATTCATCTAAAATTCTCGATCTAATTT
1 AATTGACCAAACGATACCTAGGTAAGAATCAACCTAGAATTCATCTAAAATTCTCGATCTAATTT
96213564 ATACAATTTA
66 ATACAATTTA
96213574 AATTGACCAAACGATACCTAGGTAAGAATCAACCTAGAATTCATCTAAAATTCTCGATCTAATTT
1 AATTGACCAAACGATACCTAGGTAAGAATCAACCTAGAATTCATCTAAAATTCTCGATCTAATTT
96213639 ATACAATTTA
66 ATACAATTTA
96213649 TTTTCTTAGT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.31
Consensus pattern (75 bp):
AATTGACCAAACGATACCTAGGTAAGAATCAACCTAGAATTCATCTAAAATTCTCGATCTAATTT
ATACAATTTA
Found at i:96215329 original size:2 final size:2
Alignment explanation
Indices: 96215290--96215319 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
96215280 ATTTCTTGAA
96215290 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96215320 GGGGATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96215645 original size:29 final size:30
Alignment explanation
Indices: 96215613--96215671 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
96215603 TTATGTGTAT
*
96215613 AATTACAC-CAAATTAAAATTCATATATAC
1 AATTACACACAAATCAAAATTCATATATAC
*
96215642 AATTACACATTAAATCAAAATTCATATATA
1 AATTACACA-CAAATCAAAATTCATATATA
96215672 ATTTTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
31 18 0.69
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (30 bp):
AATTACACACAAATCAAAATTCATATATAC
Found at i:96219183 original size:31 final size:31
Alignment explanation
Indices: 96219145--96219208 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
96219135 TGTAAAAGTA
*
96219145 AAATTATGGAAAAATATAAAATTTTTATGAT
1 AAATTATGAAAAAATATAAAATTTTTATGAT
*
96219176 AAATTATGAAAAAATATGAAATTTTTATGAT
1 AAATTATGAAAAAATATAAAATTTTTATGAT
96219207 AA
1 AA
96219209 CAATAACTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (31 bp):
AAATTATGAAAAAATATAAAATTTTTATGAT
Found at i:96233625 original size:18 final size:18
Alignment explanation
Indices: 96233602--96233639 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
96233592 CATAACTCGA
96233602 ATACTAACGGATACACGG
1 ATACTAACGGATACACGG
96233620 ATACTAACGGATACACGG
1 ATACTAACGGATACACGG
96233638 AT
1 AT
96233640 CCAACCCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (18 bp):
ATACTAACGGATACACGG
Found at i:96233629 original size:10 final size:10
Alignment explanation
Indices: 96233602--96233633 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
96233592 CATAACTCGA
96233602 ATACTAACGG
1 ATACTAACGG
96233612 ATAC--ACGG
1 ATACTAACGG
96233620 ATACTAACGG
1 ATACTAACGG
96233630 ATAC
1 ATAC
96233634 ACGGATCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.40
10 12 0.60
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (10 bp):
ATACTAACGG
Found at i:96234543 original size:4 final size:4
Alignment explanation
Indices: 96234534--96234562 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
96234524 CCCTTTTCTA
96234534 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
96234563 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:96241015 original size:47 final size:47
Alignment explanation
Indices: 96240906--96241016 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
96240896 CCGGGATAAG
*
96240906 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
96240953 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
96241000 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
96241017 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:96242741 original size:21 final size:23
Alignment explanation
Indices: 96242694--96242747 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
96242684 CATTCAAGAT
**
96242694 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
96242717 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
96242738 AAAAT-ATATA
1 AAAATAATATA
96242748 ATGTGTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:96242801 original size:52 final size:49
Alignment explanation
Indices: 96242720--96242818 Score: 121
Period size: 52 Copynumber: 2.0 Consensus size: 49
96242710 CTCTTTAAAA
*
96242720 ATAATATATAAACAATTCAAAATATATAATGTGTGAAAAAAGTTTGAAATAC
1 ATAATATATAAACAATTCAAAATAAATAATGTGT--AAAAA-TTTGAAATAC
*
96242772 ATAATATATGAAA-ATATT-AAAGTAAATAATGTGTAAAAATTTGAAAT
1 ATAATATAT-AAACA-ATTCAAAATAAATAATGTGTAAAAATTTGAAAT
96242819 GAGCATTATA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
49 8 0.19
50 5 0.12
52 24 0.56
53 6 0.14
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.32
Consensus pattern (49 bp):
ATAATATATAAACAATTCAAAATAAATAATGTGTAAAAATTTGAAATAC
Found at i:96242966 original size:17 final size:16
Alignment explanation
Indices: 96242946--96243000 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
96242936 TAATATTAGT
96242946 ATATAAATAGAAATA-AA
1 ATAT-AATA-AAATAGAA
96242963 ATATAAT-AAATAGAA
1 ATATAATAAAATAGAA
*
96242978 ATATAATAATAGTAGAA
1 ATATAATAA-AATAGAA
96242995 ATATAA
1 ATATAA
96243001 ATAGATAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
14 5 0.15
15 9 0.26
16 4 0.12
17 16 0.47
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.27
Consensus pattern (16 bp):
ATATAATAAAATAGAA
Found at i:96242971 original size:20 final size:20
Alignment explanation
Indices: 96242948--96242985 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
96242938 ATATTAGTAT
96242948 ATAAATAGAAATAAAATATA
1 ATAAATAGAAATAAAATATA
*
96242968 ATAAATAGAAATATAATA
1 ATAAATAGAAATAAAATA
96242986 ATAGTAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (20 bp):
ATAAATAGAAATAAAATATA
Found at i:96242981 original size:15 final size:15
Alignment explanation
Indices: 96242956--96243000 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
96242946 ATATAAATAG
96242956 AAATA-AAATATAAT
1 AAATAGAAATATAAT
96242970 AAATAGAAATATAAT
1 AAATAGAAATATAAT
96242985 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
96243001 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.18
15 11 0.39
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:96243020 original size:15 final size:14
Alignment explanation
Indices: 96242948--96243033 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 14
96242938 ATATTAGTAT
*
96242948 ATAAATAGAAATA-
1 ATAAATAAAAATAG
96242961 A-AATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
96242976 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
96242990 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
96243005 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
96243020 ATAAATAATAATAG
1 ATAAATAAAAATAG
96243034 TATTAGAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
12 2 0.03
13 4 0.07
14 22 0.37
15 30 0.50
16 2 0.03
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:96250393 original size:31 final size:31
Alignment explanation
Indices: 96250351--96250416 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
96250341 TTATAATTTG
* *
96250351 GTCAATAAACTATTCGAAAGTTTTTGTTTAA
1 GTCAATAAACTATTCAAAAGTTTTTATTTAA
*
96250382 GTCACTAAACTATTCAAAAGTTTTTATTTAA
1 GTCAATAAACTATTCAAAAGTTTTTATTTAA
96250413 GTCA
1 GTCA
96250417 TTGTGTTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (31 bp):
GTCAATAAACTATTCAAAAGTTTTTATTTAA
Found at i:96250847 original size:2 final size:2
Alignment explanation
Indices: 96250840--96250871 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
96250830 TTGTATATGA
96250840 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96250872 TTAGATAGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96250934 original size:2 final size:2
Alignment explanation
Indices: 96250927--96250958 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
96250917 TAATCTCGTA
96250927 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96250959 AAAGTAGACC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96252092 original size:29 final size:29
Alignment explanation
Indices: 96252050--96252107 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
96252040 GTGGCTCGAG
96252050 TGCTAAAAGCTAAATATTTTGCAAACAAA
1 TGCTAAAAGCTAAATATTTTGCAAACAAA
96252079 TGCTAAAAGCTAAATATTTTGCAAACAAA
1 TGCTAAAAGCTAAATATTTTGCAAACAAA
96252108 GATTTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (29 bp):
TGCTAAAAGCTAAATATTTTGCAAACAAA
Found at i:96263172 original size:29 final size:29
Alignment explanation
Indices: 96263130--96263190 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
96263120 GAAAGAGATT
*
96263130 TTAATTAATCAACCTAAAGTTAGTTGTTC
1 TTAATTAATCAACCTAAAGTCAGTTGTTC
*
96263159 TTAATTAATCAACCTAGAGTCAGTTGTTC
1 TTAATTAATCAACCTAAAGTCAGTTGTTC
96263188 TTA
1 TTA
96263191 CACTTGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (29 bp):
TTAATTAATCAACCTAAAGTCAGTTGTTC
Found at i:96266656 original size:2 final size:2
Alignment explanation
Indices: 96266645--96266688 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
96266635 TTAATTCATT
96266645 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96266686 TA T
1 TA T
96266689 GATGAGATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:96277826 original size:14 final size:13
Alignment explanation
Indices: 96277795--96277828 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
96277785 TATGTAAAAT
*
96277795 TTAAAAAAATTAA
1 TTAAAAAAATAAA
96277808 TTAAAAAAATAAA
1 TTAAAAAAATAAA
96277821 TCTAAAAA
1 T-TAAAAA
96277829 TATATAGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
TTAAAAAAATAAA
Found at i:96287346 original size:12 final size:12
Alignment explanation
Indices: 96287329--96287396 Score: 65
Period size: 12 Copynumber: 5.8 Consensus size: 12
96287319 CCAATCTTTC
96287329 TTTTTATTTTTA
1 TTTTTATTTTTA
96287341 TTTTTATTTATT-
1 TTTTTATTT-TTA
*
96287353 TTTTT-CTTTTA
1 TTTTTATTTTTA
96287364 TTATTTATTTTT-
1 TT-TTTATTTTTA
96287376 TTCTTT-TTTTTA
1 TT-TTTATTTTTA
96287388 -TTTTATTTT
1 TTTTTATTTT
96287397 AGTTAAATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
10 5 0.11
11 14 0.30
12 22 0.47
13 6 0.13
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:96287369 original size:20 final size:21
Alignment explanation
Indices: 96287344--96287396 Score: 81
Period size: 20 Copynumber: 2.5 Consensus size: 21
96287334 ATTTTTATTT
96287344 TTATTTATTTTTTTC-TTTTA
1 TTATTTATTTTTTTCTTTTTA
*
96287364 TTATTTATTTTTTTCTTTTTT
1 TTATTTATTTTTTTCTTTTTA
96287385 TTATTTTATTTT
1 TTA-TTTATTTT
96287397 AGTTAAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 15 0.50
21 7 0.23
22 8 0.27
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (21 bp):
TTATTTATTTTTTTCTTTTTA
Found at i:96287374 original size:29 final size:29
Alignment explanation
Indices: 96287325--96287396 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 29
96287315 CAACCCAATC
96287325 TTTCTTTTTATTTTTATTTTTATTT-ATTTT
1 TTTC-TTTTATTTTTATTTTT-TTTCATTTT
*
96287355 TTTCTTTTATTATTTA-TTTTTTTCTTTTT
1 TTTCTTTTATT-TTTATTTTTTTTCATTTT
*
96287384 TTTATTTTATTTT
1 TTTCTTTTATTTT
96287397 AGTTAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 5 0.13
29 25 0.66
30 8 0.21
ACGTcount: A:0.12, C:0.04, G:0.00, T:0.83
Consensus pattern (29 bp):
TTTCTTTTATTTTTATTTTTTTTCATTTT
Found at i:96288728 original size:18 final size:18
Alignment explanation
Indices: 96288695--96288756 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
96288685 CTAAGTAAAT
*
96288695 AAATAATAATAAAATCAAA
1 AAATAA-AAAAAAATCAAA
96288714 AAATAAAAAAAAATCAAA
1 AAATAAAAAAAAATCAAA
* *
96288732 AAAGGAAAAAAAGAA-GAAA
1 AAA-TAAAAAAA-AATCAAA
96288751 AAATAA
1 AAATAA
96288757 GTACTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 16 0.43
19 19 0.51
20 2 0.05
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.11
Consensus pattern (18 bp):
AAATAAAAAAAAATCAAA
Found at i:96291627 original size:9 final size:9
Alignment explanation
Indices: 96291611--96291644 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
96291601 ATATTTTTTC
96291611 TTATTTTAT
1 TTATTTTAT
96291620 TT-TGTTTAT
1 TTAT-TTTAT
96291629 TTATTTTAT
1 TTATTTTAT
96291638 TTATTTT
1 TTATTTT
96291645 TTTGTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (9 bp):
TTATTTTAT
Found at i:96291631 original size:13 final size:13
Alignment explanation
Indices: 96291615--96291659 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
96291605 TTTTTCTTAT
96291615 TTTATTTTGTTTA
1 TTTATTTTGTTTA
*
96291628 TTTATTTTATTTA
1 TTTATTTTGTTTA
96291641 TTT-TTTTG-TTA
1 TTTATTTTGTTTA
*
96291652 TTAATTTT
1 TTTATTTT
96291660 AAAAATTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 5 0.18
12 8 0.29
13 15 0.54
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (13 bp):
TTTATTTTGTTTA
Found at i:96291646 original size:24 final size:23
Alignment explanation
Indices: 96291602--96291660 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 23
96291592 TTAAGTTTTA
*
96291602 TATTTTTTCTTATTTTA-TTTTGTT
1 TATTTATT-TTATTTTATTTTTG-T
*
96291626 TATTTATTTTATTTATTTTTTTGT
1 TATTTATTTTATTT-TATTTTTGT
*
96291650 TATTAATTTTA
1 TATTTATTTTA
96291661 AAAATTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 6 0.20
24 19 0.63
25 5 0.17
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (23 bp):
TATTTATTTTATTTTATTTTTGT
Found at i:96291686 original size:21 final size:23
Alignment explanation
Indices: 96291662--96291704 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
96291652 TTAATTTTAA
*
96291662 AAAT-TTTGA-AATGTATATTTG
1 AAATGTTTGATAATATATATTTG
*
96291683 AAATGTTTTATAATATATATTT
1 AAATGTTTGATAATATATATTT
96291705 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 4 0.22
23 10 0.56
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (23 bp):
AAATGTTTGATAATATATATTTG
Found at i:96291738 original size:23 final size:24
Alignment explanation
Indices: 96291688--96291731 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
96291678 ATTTGAAATG
96291688 TTTTATAATATATATTTTTTAAAA
1 TTTTATAATATATATTTTTTAAAA
96291712 TTTTA-AATAT-TATTTTTTAA
1 TTTTATAATATATATTTTTTAA
96291732 TTATTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
23 5 0.25
24 5 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTTATAATATATATTTTTTAAAA
Found at i:96291739 original size:24 final size:24
Alignment explanation
Indices: 96291688--96291771 Score: 68
Period size: 23 Copynumber: 3.5 Consensus size: 24
96291678 ATTTGAAATG
*
96291688 TTTTATAATATATATTTTTTAA--AA
1 TTTTA-AATAT-TATTTTTTAATTAT
96291712 TTTTAAATATTATTTTTTAATTATT
1 TTTTAAATATTATTTTTTAATTA-T
* * *
96291737 TTTTAAATTTTGA-ATATT-ATTAT
1 TTTTAAATATT-ATTTTTTAATTAT
96291760 TTTTAAATATTA
1 TTTTAAATATTA
96291772 AATATATATT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
22 11 0.22
23 16 0.31
24 10 0.20
25 13 0.25
26 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (24 bp):
TTTTAAATATTATTTTTTAATTAT
Found at i:96291745 original size:32 final size:34
Alignment explanation
Indices: 96291700--96291762 Score: 103
Period size: 32 Copynumber: 1.9 Consensus size: 34
96291690 TTATAATATA
96291700 TATTTTTTAAAATTTTAAATATTATT-TTTTAAT
1 TATTTTTTAAAATTTTAAATATTATTATTTTAAT
*
96291733 TATTTTTT-AAATTTTGAATATTATTATTTT
1 TATTTTTTAAAATTTTAAATATTATTATTTT
96291763 TAAATATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (34 bp):
TATTTTTTAAAATTTTAAATATTATTATTTTAAT
Found at i:96291757 original size:21 final size:21
Alignment explanation
Indices: 96291731--96291800 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 21
96291721 TTATTTTTTA
* *
96291731 ATTATTTTTTAAATTTTGAAT
1 ATTATTTTTTAAATATTAAAT
96291752 ATTATTATTTTTAAATATTAAAT
1 ATTA-T-TTTTTAAATATTAAAT
* *
96291775 ATATATTTTTAATAATATAAAAT
1 AT-TATTTTTTA-AATATTAAAT
96291798 ATT
1 ATT
96291801 TAAATATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
21 4 0.10
22 7 0.17
23 28 0.68
24 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (21 bp):
ATTATTTTTTAAATATTAAAT
Found at i:96291766 original size:23 final size:22
Alignment explanation
Indices: 96291731--96291786 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
96291721 TTATTTTTTA
* *
96291731 ATTATTTTTTAAATTTTGAATATT
1 ATTA-TTTTTAAATATTAAATA-T
96291755 ATTATTTTTAAATATTAAATAT
1 ATTATTTTTAAATATTAAATAT
96291777 A-TATTTTTAA
1 ATTATTTTTAA
96291787 TAATATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 9 0.30
22 2 0.07
23 15 0.50
24 4 0.13
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTATTTTTAAATATTAAATAT
Found at i:96292333 original size:21 final size:22
Alignment explanation
Indices: 96292308--96292436 Score: 74
Period size: 21 Copynumber: 6.0 Consensus size: 22
96292298 TAAATGTTTA
*
96292308 AATATTATTAAAAAT-ATATTT
1 AATATTATAAAAAATAATATTT
96292329 AATATT-TAAAAAATAATATTT
1 AATATTATAAAAAATAATATTT
* **
96292350 AAAATTA-AAAAAATCAA-AAAT
1 AATATTATAAAAAAT-AATATTT
* * * *
96292371 -ATATTTTTAAAATTTATAAGACTT
1 AATA-TTATAAAA--AATAATATTT
96292395 AAT-TTA-AAAAAATAATATTT
1 AATATTATAAAAAATAATATTT
* *
96292415 AAGATTTTAAAAAATATATATT
1 AATATTATAAAAAATA-ATATT
96292437 ATAAAACTCA
Statistics
Matches: 81, Mismatches: 15, Indels: 22
0.69 0.13 0.19
Matches are distributed among these distances:
20 18 0.22
21 30 0.37
22 18 0.22
23 9 0.11
24 4 0.05
25 2 0.02
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AATATTATAAAAAATAATATTT
Found at i:96292524 original size:24 final size:24
Alignment explanation
Indices: 96292488--96292548 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
96292478 AACAAAAAAT
*
96292488 AAATAA-AATAAATAAACAAATTA
1 AAATAAGAAAAAATAAACAAATTA
* * *
96292511 AAATAAGAAAAAATATATAACTTA
1 AAATAAGAAAAAATAAACAAATTA
*
96292535 AAAAAAGAGAAAAA
1 AAATAAGA-AAAAA
96292549 ATTAAAGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 6 0.19
24 20 0.65
25 5 0.16
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (24 bp):
AAATAAGAAAAAATAAACAAATTA
Found at i:96292553 original size:18 final size:18
Alignment explanation
Indices: 96292532--96292578 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
96292522 AATATATAAC
96292532 TTAAAAAAAGAGA-AAAAA
1 TTAAAAAAA-AGACAAAAA
*
96292550 TTAAAGAAAAAGACAAAAG
1 TTAAA-AAAAAGACAAAAA
96292569 TTAAAAAAAA
1 TTAAAAAAAA
96292579 AAGTAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (18 bp):
TTAAAAAAAAGACAAAAA
Found at i:96292588 original size:20 final size:18
Alignment explanation
Indices: 96292532--96292579 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
96292522 AATATATAAC
* *
96292532 TTAAAAAAAGAGAAAAAA
1 TTAAAAAAAAAGAAAAAG
*
96292550 TTAAAGAAAAAGACAAAAG
1 TTAAAAAAAAAGA-AAAAG
96292569 TTAAAAAAAAA
1 TTAAAAAAAAA
96292580 AGTAAAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.12
Consensus pattern (18 bp):
TTAAAAAAAAAGAAAAAG
Found at i:96293179 original size:18 final size:18
Alignment explanation
Indices: 96293156--96293191 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
96293146 ATACACCCCC
96293156 AACTAAATATTATAAAGT
1 AACTAAATATTATAAAGT
96293174 AACTAAATATTATAAAGT
1 AACTAAATATTATAAAGT
96293192 GTGTTGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (18 bp):
AACTAAATATTATAAAGT
Found at i:96294393 original size:55 final size:56
Alignment explanation
Indices: 96294323--96294430 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 56
96294313 CAAAAGTGCA
* * *
96294323 AAAAAAAAAAATTAAA-TTACACAATGTGTAAATGTTAAGAGTTAATTTTTTTTTT
1 AAAAAAAAAAATTAAATTTACACAATGTATAAATATTAAGAGTTAAATTTTTTTTT
* ** *
96294378 AAAAATAAAAATTAAATTTACATGATTTATAAATATTAAGAGTTAAATTTTTT
1 AAAAAAAAAAATTAAATTTACACAATGTATAAATATTAAGAGTTAAATTTTTT
96294431 ATTATTCCAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
55 15 0.33
56 30 0.67
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.41
Consensus pattern (56 bp):
AAAAAAAAAAATTAAATTTACACAATGTATAAATATTAAGAGTTAAATTTTTTTTT
Found at i:96297441 original size:13 final size:14
Alignment explanation
Indices: 96297423--96297451 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
96297413 AATTCCCATT
96297423 AAATAT-TTTTTAA
1 AAATATATTTTTAA
96297436 AAATATATTTTTAA
1 AAATATATTTTTAA
96297450 AA
1 AA
96297452 GTTGTCACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATATATTTTTAA
Found at i:96301628 original size:10 final size:10
Alignment explanation
Indices: 96301600--96301649 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
96301590 CTGGTCTCTC
96301600 TCAACAATAAT
1 TCAA-AATAAT
96301611 TGCAAAATAAT
1 T-CAAAATAAT
96301622 TCAAAATAATTT
1 TCAAAATAA--T
96301634 TC-AAA-AAT
1 TCAAAATAAT
96301642 TCAAAATA
1 TCAAAATA
96301650 CTTTTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
8 3 0.09
9 3 0.09
10 11 0.32
11 11 0.32
12 6 0.18
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (10 bp):
TCAAAATAAT
Found at i:96301629 original size:21 final size:20
Alignment explanation
Indices: 96301600--96301668 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
96301590 CTGGTCTCTC
96301600 TCAACAATAA-TTGCAAAATAAT
1 TCAA-AATAATTTGC-AAA-AAT
*
96301622 TCAAAATAATTTTCAAAAAT
1 TCAAAATAATTTGCAAAAAT
* **
96301642 TCAAAATACTTT-TTAAAAT
1 TCAAAATAATTTGCAAAAAT
96301661 TCAAAATA
1 TCAAAATA
96301669 GTTATAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 13 0.31
20 14 0.33
21 8 0.19
22 7 0.17
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (20 bp):
TCAAAATAATTTGCAAAAAT
Found at i:96301661 original size:19 final size:19
Alignment explanation
Indices: 96301619--96301687 Score: 84
Period size: 19 Copynumber: 3.5 Consensus size: 19
96301609 ATTGCAAAAT
96301619 AATTCAAAATAATTTTCAAA
1 AATTCAAAATAATTTT-AAA
* *
96301639 AATTCAAAATACTTTTTAA
1 AATTCAAAATAATTTTAAA
* *
96301658 AATTCAAAATAGTTATAAA
1 AATTCAAAATAATTTTAAA
96301677 AATTCCAAAAT
1 AATT-CAAAAT
96301688 TTTTATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
19 22 0.51
20 21 0.49
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.35
Consensus pattern (19 bp):
AATTCAAAATAATTTTAAA
Found at i:96301693 original size:20 final size:19
Alignment explanation
Indices: 96301636--96301693 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
96301626 AATAATTTTC
96301636 AAAAATTCAAAATACTTTT-T
1 AAAAATTCAAAAT--TTTTAT
**
96301656 -AAAATTCAAAATAGTTAT
1 AAAAATTCAAAATTTTTAT
96301674 AAAAATTCCAAAATTTTTAT
1 AAAAATT-CAAAATTTTTAT
96301694 TTTTTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 2 0.06
18 1 0.03
19 18 0.58
20 10 0.32
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATTTTTAT
Found at i:96302096 original size:24 final size:24
Alignment explanation
Indices: 96302033--96302088 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
96302023 GGACTTGTCA
96302033 ACTCGATTAACTCGAAATTCTTTC
1 ACTCGATTAACTCGAAATTCTTTC
96302057 ACTCGATTAACTCGAAATTCTTTC
1 ACTCGATTAACTCGAAATTCTTTC
96302081 ACTCGATT
1 ACTCGATT
96302089 CGATCGAACG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.38
Consensus pattern (24 bp):
ACTCGATTAACTCGAAATTCTTTC
Found at i:96302483 original size:98 final size:98
Alignment explanation
Indices: 96302314--96302508 Score: 275
Period size: 98 Copynumber: 2.0 Consensus size: 98
96302304 AAGTTTGGGG
* * * * *
96302314 CTGATAATACTCTAGAATGACATATTTTTATGTATTAATTATATATTTATTTTGAGTATGATCCT
1 CTGATAATACTCTAAAATCACATATTTTTATATATTAATCATATATTTATTTTGAGTATGAGCCT
*
96302379 ACTAATTTGAGCTTTTTATGGCTTTTTATCTTA
66 ACTAATTTGAGCTATTTATGGCTTTTTATCTTA
* * * *
96302412 CTGATAATACTCTAAAATCACGTGTTTTTATATATTAATCATGTGTTTATTTTGAGCT-TGAGCC
1 CTGATAATACTCTAAAATCACATATTTTTATATATTAATCATATATTTATTTTGAG-TATGAGCC
*
96302476 TACTAATTTGAGCTATTTATGTCTTTTTATCTT
65 TACTAATTTGAGCTATTTATGGCTTTTTATCTT
96302509 TTAGGGACTA
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
98 84 0.99
99 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.49
Consensus pattern (98 bp):
CTGATAATACTCTAAAATCACATATTTTTATATATTAATCATATATTTATTTTGAGTATGAGCCT
ACTAATTTGAGCTATTTATGGCTTTTTATCTTA
Found at i:96309187 original size:12 final size:13
Alignment explanation
Indices: 96309160--96309233 Score: 61
Period size: 12 Copynumber: 5.9 Consensus size: 13
96309150 AATCTTTCTT
96309160 TTTATTTTTATTTA
1 TTTA-TTTTATTTA
96309174 TTTATTTT-TTTA
1 TTTATTTTATTTA
*
96309186 TTTATTTTCTTT-
1 TTTATTTTATTTA
96309198 TATTA-TTTA-TTA
1 T-TTATTTTATTTA
*
96309210 TTTTCTTTTA-TT-
1 -TTTATTTTATTTA
96309222 TTTATTTTATTT
1 TTTATTTTATTT
96309234 TAGTTAAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
11 10 0.20
12 20 0.39
13 17 0.33
14 4 0.08
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:96309198 original size:17 final size:16
Alignment explanation
Indices: 96309158--96309235 Score: 77
Period size: 16 Copynumber: 4.8 Consensus size: 16
96309148 CCAATCTTTC
*
96309158 TTTTTATTTTTATTTA
1 TTTTTTTTTTTATTTA
*
96309174 TTTATTTTTTTATTTA
1 TTTTTTTTTTTATTTA
*
96309190 TTTTCTTTTATTATTTA
1 TTTT-TTTTTTTATTTA
*
96309207 TTATTTTCTTTTATTT-
1 TT-TTTTTTTTTATTTA
*
96309223 TTATTTTATTTTA
1 TT-TTTTTTTTTA
96309236 GTTAAATATT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
16 29 0.55
17 22 0.42
18 2 0.04
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTTTTTATTTA
Done.