Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 125 of 126
Found at i:25266143 original size:41 final size:41
Alignment explanation
Indices: 25265971--25266156 Score: 264
Period size: 42 Copynumber: 4.5 Consensus size: 41
25265961 AAAGTTTCGT
*
25265971 TGCCTCTGTTTAGAGGAGCAATTTTCTTTCTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTC-CAAAGTCGTGG
* * *
25266013 TGCCTTTGTTTAGAGGAGTAATTTACTTTTCAAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGG
*
25266055 TGCCTCTGCTTAGAGGAGCAATTTACTTTCTCAAAGTCGTGG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTC-CAAAGTCGTGG
* * *
25266097 TGCCTCTGTTTAGAAGAGCAATTTACTTTCCAAAGTTGTTG
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGG
*
25266138 AGCCTCTGTTTAGAGGAGC
1 TGCCTCTGTTTAGAGGAGC
25266157 TTTGAAAAAA
Statistics
Matches: 128, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
41 30 0.23
42 94 0.73
43 4 0.03
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.37
Consensus pattern (41 bp):
TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGG
Found at i:25266167 original size:1 final size:1
Alignment explanation
Indices: 25266161--25266244 Score: 78
Period size: 1 Copynumber: 84.0 Consensus size: 1
25266151 AGGAGCTTTG
* * * * * * * *
25266161 AAAAAAAACAAAACAAAACAAAAAATAAAAAACAAAAAAAACAAAAAAAAAACAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
25266226 ACAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAA
25266245 TTACCTCTAT
Statistics
Matches: 63, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:25266185 original size:7 final size:7
Alignment explanation
Indices: 25266175--25266244 Score: 101
Period size: 7 Copynumber: 10.3 Consensus size: 7
25266165 AAAACAAAAC
25266175 AAAACAA
1 AAAACAA
*
25266182 AAAATAA
1 AAAACAA
25266189 AAAACAA
1 AAAACAA
25266196 AAAA-AA
1 AAAACAA
25266202 CAAAA-AA
1 -AAAACAA
25266209 AAAACAA
1 AAAACAA
25266216 AAAACAA
1 AAAACAA
25266223 AAAACAA
1 AAAACAA
25266230 AAAACAA
1 AAAACAA
25266237 AAAA-AA
1 AAAACAA
25266243 AA
1 AA
25266245 TTACCTCTAT
Statistics
Matches: 59, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
6 10 0.17
7 49 0.83
ACGTcount: A:0.89, C:0.10, G:0.00, T:0.01
Consensus pattern (7 bp):
AAAACAA
Found at i:25266192 original size:14 final size:13
Alignment explanation
Indices: 25266161--25266244 Score: 100
Period size: 14 Copynumber: 6.3 Consensus size: 13
25266151 AGGAGCTTTG
*
25266161 AAAAAA-AACAAA
1 AAAAAACAAAAAA
*
25266173 ACAAAACAAAAAA
1 AAAAAACAAAAAA
25266186 TAAAAAACAAAAAA
1 -AAAAAACAAAAAA
25266200 AACAAAA-AAAAAA
1 AA-AAAACAAAAAA
25266213 CAAAAAACAAAAAA
1 -AAAAAACAAAAAA
25266227 CAAAAAACAAAAAA
1 -AAAAAACAAAAAA
25266241 AAAA
1 AAAA
25266245 TTACCTCTAT
Statistics
Matches: 64, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
12 5 0.08
13 21 0.33
14 38 0.59
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.01
Consensus pattern (13 bp):
AAAAAACAAAAAA
Found at i:25266213 original size:34 final size:34
Alignment explanation
Indices: 25266161--25266244 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
25266151 AGGAGCTTTG
* *
25266161 AAAAAAAAC-AAAACAAAACAAAAAATAAAAAACA-
1 AAAAAAAACAAAAAAAAAACAAAAAA-CAAAAA-AC
25266195 AAA-AAAACAAAAAAAAAACAAAAAACAAAAAAC
1 AAAAAAAACAAAAAAAAAACAAAAAACAAAAAAC
25266228 --AAAAAACAAAAAAAAAA
1 AAAAAAAACAAAAAAAAAA
25266245 TTACCTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
31 1 0.02
32 16 0.36
33 10 0.22
34 18 0.40
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.01
Consensus pattern (34 bp):
AAAAAAAACAAAAAAAAAACAAAAAACAAAAAAC
Found at i:25266220 original size:41 final size:42
Alignment explanation
Indices: 25266161--25266242 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 42
25266151 AGGAGCTTTG
*
25266161 AAAAAAAACAAAACAAAACAAAAAATAAAAAACAAAAAAAAC
1 AAAAAAAACAAAACAAAACAAAAAACAAAAAACAAAAAAAAC
25266203 AAAAAAAA-AACAA-AAAACAAAAAACAAAAAACAAAAAAAA
1 AAAAAAAACAA-AACAAAACAAAAAACAAAAAACAAAAAAAA
25266243 AATTACCTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
41 28 0.74
42 10 0.26
ACGTcount: A:0.88, C:0.11, G:0.00, T:0.01
Consensus pattern (42 bp):
AAAAAAAACAAAACAAAACAAAAAACAAAAAACAAAAAAAAC
Found at i:25266398 original size:105 final size:106
Alignment explanation
Indices: 25266214--25266422 Score: 289
Period size: 105 Copynumber: 2.0 Consensus size: 106
25266204 AAAAAAAAAC
* *
25266214 AAAAAACAAAAAACAAAAAACAAAAAAAAAATTACCTCTATTTAAGGGAGCTTTGTTTATGTTTC
1 AAAAAAAAAAAAACAAAAAACAAAAAAAAAATTACCTCTATTTAA-GGAACTTTGTTTATGTTTC
* *
25266279 TCAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTTGATCATTT
65 TCAAAGTCATTGAGCCTCTGCTTAGAGGAGATTTGATCATTT
* *
25266321 AAAAAAAAAAAAAGCAAGAAAAC-AAAAAAAAGTTGCCTCTATTT-A-GAACTTTGTTTATGTTT
1 AAAAAAAAAAAAA-CAA-AAAACAAAAAAAAAATTACCTCTATTTAAGGAACTTTGTTTATGTTT
* * *
25266383 TTCAAAGTCATTGAGCCTTTGCTTAGAGGATATTTGATCA
64 CTCAAAGTCATTGAGCCTCTGCTTAGAGGAGATTTGATCA
25266423 AAATAAATAA
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
105 51 0.56
107 13 0.14
108 22 0.24
109 5 0.05
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (106 bp):
AAAAAAAAAAAAACAAAAAACAAAAAAAAAATTACCTCTATTTAAGGAACTTTGTTTATGTTTCT
CAAAGTCATTGAGCCTCTGCTTAGAGGAGATTTGATCATTT
Found at i:25266643 original size:20 final size:19
Alignment explanation
Indices: 25266591--25266649 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
25266581 ATTTTTATTC
25266591 ATTTTTATTTTA-ATTTTT
1 ATTTTTATTTTATATTTTT
*
25266609 TTTATTTCATATTTATCATTTTT
1 ATT-TTT-AT-TTTAT-ATTTTT
25266632 ATTTTTATTTTATGATTT
1 ATTTTTATTTTAT-ATTT
25266650 ATTTTCTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 2 0.06
19 3 0.09
20 11 0.33
21 6 0.18
22 3 0.09
23 8 0.24
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (19 bp):
ATTTTTATTTTATATTTTT
Found at i:25274428 original size:2 final size:2
Alignment explanation
Indices: 25274421--25274448 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25274411 TTTGTATAGA
25274421 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
25274449 GATTCTGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25292445 original size:59 final size:59
Alignment explanation
Indices: 25292378--25293015 Score: 702
Period size: 59 Copynumber: 10.7 Consensus size: 59
25292368 TCTTGTGCAG
* *
25292378 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGAAACTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGAAACTTTATTTTCAA
* * * *
25292437 GGAAAATTGATACTTTCAAC-TTTTCCTCAAAAAT-TGATTTTTTTAAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCCT-AAAAATAT--TTTTTTTGAAACTTTATTTTCAA
*
25292497 GAAAAATTGATACTTTCAACTTTTTCC-AAAAATA--GTTTTTGAAAACTTTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTG-AAAC-TTTATTTTCAA
*
25292555 GGAAAATTGATACTTTCAACTTTTT-CTCAAAAATA--TTTTTTGAAAACTTTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTTTG-AAAC-TTTATTTTCAA
* *
25292614 GAAAAATTGATACTTTCAACTTTTT-CTCAAAAAT-TGATTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCCT-AAAAATAT--TTTTTTTGAAACTTTATTTTCAA
* * *
25292674 GAAAAATTGATACTTTCAAC-TTTTCCTAAAAAATAGTTTTTTTGAAATTTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTTTGAAACTTTATTTTCAA
* * *
25292733 GAAAAATTGATACTTTCAACTTTTCCCAAAAAATA-TTTTTTGGAAACTTTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGAAAC-TTTATTTTCAA
* *
25292792 GAAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTTGAAATTTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCCT-AAAAATATTTTTTTTGAAACTTTATTTTCAA
* *
25292851 GGAAAATTGATACTTTCAACTTTTTTC-AAAAA-ATGTTTTTTTGAAACTTTGATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATAT-TTTTTTTGAAACTTT-ATTTTCAA
* * *
25292910 -AGAAAATTGATACTTTCAACTTTTAACTTTTCCCAAAAA-ATCTTTTTTTGAAAATTTATTTTT
1 GA-AAAATTGATACTTTCAAC---T---TTTTCCTAAAAATAT-TTTTTTTGAAACTTTATTTTC
25292973 AA
58 AA
* *
25292975 GGAAAATTGATACTTTCAACTTTTTCC-CAAAAT-TTTTTTTT
1 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTT
25293016 ATTTTTATTT
Statistics
Matches: 507, Mismatches: 40, Indels: 66
0.83 0.07 0.11
Matches are distributed among these distances:
56 5 0.01
57 13 0.03
58 81 0.16
59 244 0.48
60 95 0.19
61 9 0.02
62 9 0.02
65 30 0.06
66 21 0.04
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (59 bp):
GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGAAACTTTATTTTCAA
Found at i:25292485 original size:17 final size:17
Alignment explanation
Indices: 25292465--25292507 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
25292455 ACTTTTCCTC
*
25292465 AAAAATTGATTTTTT-T
1 AAAAATTGATTTTTTAG
* *
25292481 AAAAATTTATTTTTAAG
1 AAAAATTGATTTTTTAG
25292498 AAAAATTGAT
1 AAAAATTGAT
25292508 ACTTTCAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (17 bp):
AAAAATTGATTTTTTAG
Found at i:25292587 original size:27 final size:27
Alignment explanation
Indices: 25292557--25292651 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 27
25292547 ATTTTCAAGG
25292557 AAAATTGATACTTTCAACTTTTTCTCA
1 AAAATTGATACTTTCAACTTTTTCTCA
** * *
25292584 AAAA-T-ATTTTTTGAAAACTTTTATTTTCAAGA
1 AAAATTGATACTTT--CAAC-TTT-TTCTC---A
25292616 AAAATTGATACTTTCAACTTTTTCTCA
1 AAAATTGATACTTTCAACTTTTTCTCA
25292643 AAAATTGAT
1 AAAATTGAT
25292652 TTTTTTGAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 18
0.66 0.10 0.23
Matches are distributed among these distances:
25 5 0.10
26 1 0.02
27 17 0.33
28 3 0.06
29 4 0.08
30 4 0.08
31 3 0.06
32 8 0.16
33 1 0.02
34 5 0.10
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTTCTCA
Found at i:25292587 original size:118 final size:116
Alignment explanation
Indices: 25292378--25293015 Score: 834
Period size: 118 Copynumber: 5.4 Consensus size: 116
25292368 TCTTGTGCAG
* *
25292378 GAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGAAAC-TTTAATTTCGAGGAAA
1 GAAAAATTGATACTTTCAACTTTTTCC-AAAAATA-TTTTTTTGAAACTTTTATTTTCAAGGAAA
* *
25292442 ATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTAAAAATTTATTTTTAA
64 ATTGATACTTTCAACTTTTCCTCAAAAA-T-ATTTTTTTGAAATTTTATTTTTAA
*
25292497 GAAAAATTGATACTTTCAACTTTTTCCAAAAATA-GTTTTTGAAAACTTTTATTTTCAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTTCCAAAAATATTTTTTTG-AAACTTTTATTTTCAAGGAAAA
* *
25292561 TTGATACTTTCAACTTTTTCTCAAAAATA-TTTTTTGAAAACTTTTATTTTCAA
65 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTG-AAA-TTTTATTTTTAA
* * *
25292614 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATTGATTTTTTTGAAA-ATTTATTTTTAAGAAA
1 GAAAAATTGATACTTTCAACTTTTTC-CAAAAA-T-ATTTTTTTGAAACTTTTATTTTCAAGGAA
*
25292678 AATTGATACTTTCAACTTTTCCTAAAAAATAGTTTTTTTGAAATTTTATTTTTAA
63 AATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAATTTTATTTTTAA
* * *
25292733 GAAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTGGAAACTTTTATTTTCAAGAAAAA
1 GAAAAATTGATACTTTCAACTTTTTCC-AAAAATATTTTTTTGAAACTTTTATTTTCAAGGAAAA
25292798 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTTATTTTTAA
65 TTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAATTTTATTTTTAA
* * * * *
25292851 GGAAAATTGATACTTTCAACTTTTTTCAAAAAATGTTTTTTTGAAACTTTGATTTTCAAAGAAAA
1 GAAAAATTGATACTTTCAAC-TTTTTCCAAAAATATTTTTTTGAAACTTTTATTTTCAAGGAAAA
* * *
25292916 TTGATACTTTCAACTTTTAACTTTTCCCAAAAAATCTTTTTTTGAAAATTTATTTTTAA
65 TTGATACTTTCAACTTTT--C----CTC-AAAAATATTTTTTTGAAATTTTATTTTTAA
* * *
25292975 GGAAAATTGATACTTTCAACTTTTTCCCAAAATTTTTTTTT
1 GAAAAATTGATACTTTCAACTTTTTCCAAAAATATTTTTTT
25293016 ATTTTTATTT
Statistics
Matches: 465, Mismatches: 34, Indels: 36
0.87 0.06 0.07
Matches are distributed among these distances:
115 6 0.01
116 10 0.02
117 52 0.11
118 192 0.41
119 116 0.25
120 8 0.02
121 13 0.03
123 18 0.04
124 44 0.09
125 6 0.01
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (116 bp):
GAAAAATTGATACTTTCAACTTTTTCCAAAAATATTTTTTTGAAACTTTTATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTTATTTTTAA
Found at i:25292622 original size:177 final size:177
Alignment explanation
Indices: 25292380--25293006 Score: 844
Period size: 177 Copynumber: 3.5 Consensus size: 177
25292370 TTGTGCAGGA
* * * * *
25292380 AAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTG-AAACTTTAATTTCGAGGAAAAT
1 AAAATTGATACTTTCAACTTTTTCCCAAAAA-ATATTTTTTGAAAACTTTATTTTCAAGAAAAAT
*
25292444 TGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTAAAAATTTATTTTTAAGAAAAATTGATA
65 TGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTGAAAATTTATTTTTAAGAAAAATTGATA
25292509 CTTTCAACTTTTTCCAAAAATAG-TTTTTGAAAACTTTTATTTTCAAGG
130 CTTTCAACTTTTTCCAAAAATAGTTTTTTG-AAACTTTTATTTTCAAGG
*
25292557 AAAATTGATACTTTCAACTTTTTCTC-AAAAATATTTTTTGAAAACTTTTATTTTCAAGAAAAAT
1 AAAATTGATACTTTCAACTTTTTCCCAAAAAATATTTTTTGAAAAC-TTTATTTTCAAGAAAAAT
*
25292621 TGATACTTTCAACTTTTTCTCAAAAATTGATTTTTTTGAAAATTTATTTTTAAGAAAAATTGATA
65 TGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTGAAAATTTATTTTTAAGAAAAATTGATA
* *
25292686 CTTTCAAC-TTTTCCTAAAAAATAGTTTTTTTGAAA-TTTTATTTTTAAGA
130 CTTTCAACTTTTTCC--AAAAATAG-TTTTTTGAAACTTTTATTTTCAAGG
*
25292735 AAAATTGATACTTTCAAC-TTTTCCCAAAAAATATTTTTTGGAAACTTTTATTTTCAAGAAAAAT
1 AAAATTGATACTTTCAACTTTTTCCCAAAAAATATTTTTTGAAAAC-TTTATTTTCAAGAAAAAT
* *
25292799 TGATACTTTCAACTTTTCCTCAAAAA-T-ATTTTTTTTGAAATTTTATTTTTAAGGAAAATTGAT
65 TGATACTTTCAACTTTTCCTCAAAAATTGA-TTTTTTTGAAAATTTATTTTTAAGAAAAATTGAT
* * *
25292862 ACTTTCAACTTTTTTCAAAAA-ATGTTTTTTTGAAACTTTGATTTTCAAAG
129 ACTTTCAACTTTTTCCAAAAATA-G-TTTTTTGAAACTTTTATTTTCAAGG
* *
25292912 AAAATTGATACTTTCAACTTTTAACTTTTCCCAAAAAATCTTTTTTTGAAAA-TTTATTTTTAAG
1 AAAATTGATACTTTCAAC---T---TTTTCCCAAAAAAT-ATTTTTTGAAAACTTTATTTTCAAG
*
25292976 GAAAATTGATACTTTCAACTTTTTCC-CAAAA
59 AAAAATTGATACTTTCAAC-TTTTCCTCAAAA
25293007 TTTTTTTTTA
Statistics
Matches: 406, Mismatches: 24, Indels: 34
0.88 0.05 0.07
Matches are distributed among these distances:
175 10 0.02
176 32 0.08
177 186 0.46
178 105 0.26
179 3 0.01
180 6 0.01
183 34 0.08
184 20 0.05
185 10 0.02
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (177 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAAATATTTTTTGAAAACTTTATTTTCAAGAAAAATT
GATACTTTCAACTTTTCCTCAAAAATTGATTTTTTTGAAAATTTATTTTTAAGAAAAATTGATAC
TTTCAACTTTTTCCAAAAATAGTTTTTTGAAACTTTTATTTTCAAGG
Found at i:25292662 original size:17 final size:17
Alignment explanation
Indices: 25292642--25292684 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
25292632 ACTTTTTCTC
**
25292642 AAAAATTGATTTTTTTG
1 AAAAATTGATTTTTAAG
*
25292659 -AAAATTTATTTTTAAG
1 AAAAATTGATTTTTAAG
25292675 AAAAATTGAT
1 AAAAATTGAT
25292685 ACTTTCAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (17 bp):
AAAAATTGATTTTTAAG
Found at i:25292883 original size:27 final size:29
Alignment explanation
Indices: 25292844--25292933 Score: 71
Period size: 28 Copynumber: 3.1 Consensus size: 29
25292834 TGAAATTTTA
*
25292844 TTTTT-AAGGAAAATTGATACTTTCAACT
1 TTTTTCAAAGAAAATTGATACTTTCAACT
* ** *
25292872 TTTTTC-AA-AAAA-TGTTTTTTTGAAACTT
1 TTTTTCAAAGAAAATTGATACTTT-CAAC-T
25292900 TGATTTTCAAAGAAAATTGATACTTTCAACT
1 T--TTTTCAAAGAAAATTGATACTTTCAACT
25292931 TTT
1 TTT
25292934 AACTTTTCCC
Statistics
Matches: 45, Mismatches: 9, Indels: 15
0.65 0.13 0.22
Matches are distributed among these distances:
26 6 0.13
27 7 0.16
28 8 0.18
29 2 0.04
30 5 0.11
31 4 0.09
32 7 0.16
33 6 0.13
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (29 bp):
TTTTTCAAAGAAAATTGATACTTTCAACT
Found at i:25292983 original size:65 final size:66
Alignment explanation
Indices: 25292862--25292998 Score: 204
Period size: 66 Copynumber: 2.1 Consensus size: 66
25292852 GAAAATTGAT
* ** * *
25292862 ACTTTCAACTTTTTTCAAAAAATGTTTTTTTGAAACTTTGATTTTCAAAGAAAATTGATACTTTC
1 ACTTTTAACTTTTCCCAAAAAATCTTTTTTTGAAAATTTGATTTTCAAAGAAAATTGATACTTTC
25292927 A
66 A
* *
25292928 ACTTTTAACTTTTCCCAAAAAATCTTTTTTTGAAAATTT-ATTTTTAAGGAAAATTGATACTTTC
1 ACTTTTAACTTTTCCCAAAAAATCTTTTTTTGAAAATTTGATTTTCAAAGAAAATTGATACTTTC
25292992 A
66 A
25292993 ACTTTT
1 ACTTTT
25292999 TCCCAAAATT
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
65 30 0.47
66 34 0.53
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (66 bp):
ACTTTTAACTTTTCCCAAAAAATCTTTTTTTGAAAATTTGATTTTCAAAGAAAATTGATACTTTC
A
Found at i:25293048 original size:5 final size:5
Alignment explanation
Indices: 25293040--25293108 Score: 59
Period size: 5 Copynumber: 12.8 Consensus size: 5
25293030 AAAATAGAAT
* *
25293040 AATAA AATAA AATAAA AATAAA AAGAA AAGTAA AACAA AATTAAA AATAA
1 AATAA AATAA AAT-AA AAT-AA AATAA AA-TAA AATAA AA-T-AA AATAA
25293090 AATAA AGATAA AA-AA AATA
1 AATAA A-ATAA AATAA AATA
25293109 TTAAATAAAC
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
4 4 0.07
5 26 0.48
6 20 0.37
7 4 0.07
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (5 bp):
AATAA
Found at i:25293059 original size:6 final size:6
Alignment explanation
Indices: 25293030--25293103 Score: 57
Period size: 6 Copynumber: 12.7 Consensus size: 6
25293020 TTATTTAAAG
* * *
25293030 AAAATA GAATAAT- AAAAT- AAAATA AAAATA AAAAGA AAAGT- AAAACA
1 AAAATA -AA-AATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
25293077 AAATTA AAAAT- AAAATA AAGATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
25293104 AAATATTAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
5 16 0.30
6 32 0.60
7 2 0.04
8 3 0.06
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:25293059 original size:11 final size:11
Alignment explanation
Indices: 25293040--25293139 Score: 64
Period size: 11 Copynumber: 9.0 Consensus size: 11
25293030 AAAATAGAAT
25293040 AATAAAAT-AA
1 AATAAAATAAA
25293050 AATAAAAATAAA
1 AAT-AAAATAAA
*
25293062 AAGAAAAGTAAA
1 AATAAAA-TAAA
*
25293074 ACA-AAATTAAA
1 A-ATAAAATAAA
25293085 AATAAAATAAA
1 AATAAAATAAA
*
25293096 GATAAAA-AAA
1 AATAAAATAAA
*
25293106 ATATTAAATAAA
1 A-ATAAAATAAA
** *
25293118 CCTAATATAATA
1 AATAAAATAA-A
25293130 AAT-AAATAAA
1 AATAAAATAAA
25293140 TAAATAAATT
Statistics
Matches: 69, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
10 8 0.12
11 43 0.62
12 17 0.25
13 1 0.01
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:25293063 original size:17 final size:17
Alignment explanation
Indices: 25293043--25293103 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
25293033 ATAGAATAAT
25293043 AAAAT-AAAATAAAAATA
1 AAAATAAAAAT-AAAATA
* * *
25293060 AAAAGAAAAGTAAAACA
1 AAAATAAAAATAAAATA
*
25293077 AAATTAAAAATAAAATA
1 AAAATAAAAATAAAATA
*
25293094 AAGATAAAAA
1 AAAATAAAAA
25293104 AAATATTAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
17 30 0.88
18 4 0.12
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.15
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:25293640 original size:31 final size:31
Alignment explanation
Indices: 25293582--25293640 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
25293572 ATTGGGCAGC
* * *
25293582 TCGTCGAAAAATTTAAATTTGGCCGAAATCG
1 TCGTCGAAAAATTCAAACTTCGCCGAAATCG
* *
25293613 TCGTCGAAAAATTCAACCTTCGTCGAAA
1 TCGTCGAAAAATTCAAACTTCGCCGAAA
25293641 AAATCACCGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (31 bp):
TCGTCGAAAAATTCAAACTTCGCCGAAATCG
Found at i:25294062 original size:43 final size:45
Alignment explanation
Indices: 25293973--25294096 Score: 111
Period size: 42 Copynumber: 2.9 Consensus size: 45
25293963 AATTTTCAAC
*
25293973 CAGATAAATCAAAAAAA-TAA-A-AAAAATCAAACGAAAATAAAT
1 CAGATAAATCAAAAAAATTAACAGAAAAATCAAAAGAAAATAAAT
* * **
25294015 CAGATAAATCAAAAAAATTAACAGATAAATTAAAATTAAAT-AA-
1 CAGATAAATCAAAAAAATTAACAGAAAAATCAAAAGAAAATAAAT
* *
25294058 CAGAT-AATACATAAATATTAACAGGAAAAA--AAAAGAAAA
1 CAGATAAAT-CAAAAAAATTAACA-GAAAAATCAAAAGAAAA
25294097 AATAATAATA
Statistics
Matches: 67, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
42 27 0.40
43 20 0.30
44 8 0.12
45 12 0.18
ACGTcount: A:0.68, C:0.08, G:0.06, T:0.18
Consensus pattern (45 bp):
CAGATAAATCAAAAAAATTAACAGAAAAATCAAAAGAAAATAAAT
Found at i:25294103 original size:3 final size:3
Alignment explanation
Indices: 25294097--25294218 Score: 60
Period size: 3 Copynumber: 40.7 Consensus size: 3
25294087 AAAAAGAAAA
* *
25294097 AAT AAT AAT AAT AAT AAA AAT ATAT ACAT ATT AAT AGAT ACAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT A-AT A-AT -AAT
* * * *
25294144 ACCT AA- GAT AA- AAT AAT AAT AAT AAT AAT AAT AA- AAG AA- AAG
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
25294186 AA- AAT -AT ATAT AA- AAT AGT AAT AAT AAA AAT AA
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA
25294219 AAATGTAAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
2 13 0.14
3 61 0.66
4 18 0.19
5 1 0.01
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:25294226 original size:20 final size:21
Alignment explanation
Indices: 25294197--25294241 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
25294187 AAATATATAT
*
25294197 AAAATAGTAATAATA-AAAATA
1 AAAATAGTAA-AATACAAAACA
25294218 AAAAT-GTAAAATACAAAACA
1 AAAATAGTAAAATACAAAACA
25294238 AAAA
1 AAAA
25294242 AAAAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 4 0.18
20 13 0.59
21 5 0.23
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.18
Consensus pattern (21 bp):
AAAATAGTAAAATACAAAACA
Found at i:25294235 original size:7 final size:6
Alignment explanation
Indices: 25294153--25294265 Score: 50
Period size: 6 Copynumber: 17.7 Consensus size: 6
25294143 TACCTAAGAT
* * * * * *
25294153 AAAATA ATAATA ATAATA ATAATAA AAGAAAA GAAAATA TATATA AAATAGTA
1 AAAATA AAAATA AAAATA AAAAT-A AA-AATA -AAAATA AAAATA AAA-A-TA
* * *
25294206 ATAATA AAAATA AAAATGT AAAATA CAAAACA AAAA-A AAAATA AATAA-A
1 AAAATA AAAATA AAAAT-A AAAATA -AAAATA AAAATA AAAATA AA-AATA
25294255 TAAAATA AAAA
1 -AAAATA AAAA
25294266 GAAATATATA
Statistics
Matches: 83, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
5 5 0.06
6 47 0.57
7 23 0.28
8 8 0.10
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:25301488 original size:22 final size:21
Alignment explanation
Indices: 25301460--25301506 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
25301450 AATTTTTATT
25301460 TTATT-AAATTTATAAATAATAA
1 TTATTAAAATTT-TAAATAAT-A
*
25301482 TTATTAAAATTTTAAATTATA
1 TTATTAAAATTTTAAATAATA
25301503 TTAT
1 TTAT
25301507 ATTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 12 0.52
23 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTATTAAAATTTTAAATAATA
Found at i:25307220 original size:21 final size:21
Alignment explanation
Indices: 25307205--25307283 Score: 133
Period size: 21 Copynumber: 3.8 Consensus size: 21
25307195 TGATGCTGGG
25307205 AGGATGTCATTTGATGCAGCA
1 AGGATGTCATTTGATGCAGCA
25307226 AGGATGTCATTTGATGCAGCA
1 AGGATGTCATTTGATGCAGCA
*
25307247 AGGATGTCGTTTGATGCAGCA
1 AGGATGTCATTTGATGCAGCA
25307268 AGGATGTCGA-TTGATG
1 AGGATGTC-ATTTGATG
25307284 ATCCAAGATA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.27, C:0.13, G:0.32, T:0.29
Consensus pattern (21 bp):
AGGATGTCATTTGATGCAGCA
Found at i:25314599 original size:31 final size:31
Alignment explanation
Indices: 25314564--25314623 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
25314554 TAGTTCATAA
* *
25314564 ATCAATATCAAAACAT-ATCATCAAATCATGG
1 ATCAATATAAAAAAATAATCAT-AAATCATGG
*
25314595 ATCAATTTAAAAAAATAATCATAAATCAT
1 ATCAATATAAAAAAATAATCATAAATCAT
25314624 CATTATCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 20 0.80
32 5 0.20
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.28
Consensus pattern (31 bp):
ATCAATATAAAAAAATAATCATAAATCATGG
Found at i:25317830 original size:28 final size:28
Alignment explanation
Indices: 25317799--25317877 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
25317789 ACAAAATCAT
* *
25317799 CACTTATAAGATTTTAAACAATCTTTTG
1 CACTTGTAAGATTTCAAACAATCTTTTG
*
25317827 CACTTGTAAGATTTCAAACATTCTTTTG
1 CACTTGTAAGATTTCAAACAATCTTTTG
25317855 CACTTGTAAGATTTCAAACAATC
1 CACTTGTAAGATTTCAAACAATC
25317878 ATTCTTAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (28 bp):
CACTTGTAAGATTTCAAACAATCTTTTG
Found at i:25319541 original size:183 final size:184
Alignment explanation
Indices: 25319233--25319607 Score: 617
Period size: 183 Copynumber: 2.0 Consensus size: 184
25319223 GTAAATTTCA
* * *
25319233 AAGTAATACGAAGCACTCTTTCTTAATCTTTCTAAAATTCATCAATAAACTGATATAGTCTAGCA
1 AAGTAATACAAAGCACTCTTTCTTAATCTTTCTAAAATTCATCAATAAACTGACATAGTCTAACA
* *
25319298 AGTAAAATCTATATCTTTAATCTAACTAATAATACATTTTTATATATCCAAATACAAACCATATA
66 AGTAAAATCTATATCTTTAATCTAACTAATAATACATATTTATATAACCAAATACAAACCATATA
**
25319363 AAAATACAAAATTATTTCATAAGATCTCATTG-CCAACATTGTCTCTAATGACT
131 AAAATACAAAACCATTTCATAAGATCTCATTGACCAACATTGTCTCTAATGACT
* * *
25319416 AAGTAATACAAAGCATTTTTTCTTAATCTTTCTAAAATTCGTCAATAAACTGACATAGTCTAACA
1 AAGTAATACAAAGCACTCTTTCTTAATCTTTCTAAAATTCATCAATAAACTGACATAGTCTAACA
* *
25319481 AGTAAAATTTATATTTTTAATCTAACTAATAATACATATTTATATAACCAAATACAAACCATATA
66 AGTAAAATCTATATCTTTAATCTAACTAATAATACATATTTATATAACCAAATACAAACCATATA
*
25319546 AAAATACAAAACCATTTCATAAGATCTTATTGACCAACATTGTCTCTAATGACT
131 AAAATACAAAACCATTTCATAAGATCTCATTGACCAACATTGTCTCTAATGACT
*
25319600 AGGTAATA
1 AAGTAATA
25319608 TTTTTCATTT
Statistics
Matches: 177, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
183 149 0.84
184 28 0.16
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.35
Consensus pattern (184 bp):
AAGTAATACAAAGCACTCTTTCTTAATCTTTCTAAAATTCATCAATAAACTGACATAGTCTAACA
AGTAAAATCTATATCTTTAATCTAACTAATAATACATATTTATATAACCAAATACAAACCATATA
AAAATACAAAACCATTTCATAAGATCTCATTGACCAACATTGTCTCTAATGACT
Found at i:25322328 original size:15 final size:15
Alignment explanation
Indices: 25322308--25322341 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
25322298 TATTTATTTT
25322308 CCAAGAGTTGCAATA
1 CCAAGAGTTGCAATA
25322323 CCAAGAGTTGCAATA
1 CCAAGAGTTGCAATA
25322338 CCAA
1 CCAA
25322342 TTCACTTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (15 bp):
CCAAGAGTTGCAATA
Found at i:25328426 original size:24 final size:24
Alignment explanation
Indices: 25328381--25328426 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
25328371 AAAAAATTTT
**
25328381 AAAATAAAATTATCTTTGTTTATC
1 AAAATAAAATTAAATTTGTTTATC
25328405 AAAATAAAAATTAAATTT-TTTA
1 AAAAT-AAAATTAAATTTGTTTA
25328427 AAATTTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (24 bp):
AAAATAAAATTAAATTTGTTTATC
Found at i:25329676 original size:14 final size:14
Alignment explanation
Indices: 25329647--25329690 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
25329637 TTTTTACATC
25329647 ATTTTATGTATTTAAA
1 ATTTTAT-T-TTTAAA
25329663 ATTTTATTTTTAAA
1 ATTTTATTTTTAAA
*
25329677 ATATT-TTTTTAAA
1 ATTTTATTTTTAAA
25329690 A
1 A
25329691 AATAAATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 9 0.33
14 10 0.37
15 1 0.04
16 7 0.26
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (14 bp):
ATTTTATTTTTAAA
Found at i:25330143 original size:2 final size:2
Alignment explanation
Indices: 25330136--25330196 Score: 95
Period size: 2 Copynumber: 30.5 Consensus size: 2
25330126 CAGCTTTGAC
*
25330136 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT GT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* *
25330178 CT CC CT CT CT CC CT CT CT C
1 CT CT CT CT CT CT CT CT CT C
25330197 CCTCCTCATT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.52, G:0.02, T:0.46
Consensus pattern (2 bp):
CT
Found at i:25342155 original size:52 final size:53
Alignment explanation
Indices: 25342069--25342224 Score: 160
Period size: 52 Copynumber: 3.0 Consensus size: 53
25342059 TATAACCAAA
* * * * *
25342069 CAAACTTGCCCATTAAGAATCTCTCT-CTTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTTCTTAGAATTCTTCTACTGCAAGT
* * *
25342121 TAAACTTGCCTATTACGAATCCCTTTCCTT-TTAGAATTCTTCTATTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTTCTTAGAATTCTTCTACTGCAAGT
* **
25342173 CAAACTTACCTATTAAGAATCCTCTTT-C-TCTT-GAAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCCTTCTTAG-AATTCTTCTACTGCAAGT
25342225 ATTCTTGTCC
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
51 2 0.02
52 79 0.90
53 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (53 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTTCTTAGAATTCTTCTACTGCAAGT
Found at i:25342268 original size:11 final size:11
Alignment explanation
Indices: 25342250--25342291 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
25342240 GCAATATCTG
25342250 ACAAATCTCAA
1 ACAAATCTCAA
* *
25342261 ATAAATCTCTA
1 ACAAATCTCAA
*
25342272 ACAAATCCCAA
1 ACAAATCTCAA
25342283 ACAAATCTC
1 ACAAATCTC
25342292 TTATGGGATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:25342275 original size:22 final size:22
Alignment explanation
Indices: 25342250--25342292 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
25342240 GCAATATCTG
* *
25342250 ACAAATCTCAAATAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
25342272 ACAAATCCCAAACAAATCTCT
1 ACAAATCCCAAACAAATCTCT
25342293 TATGGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:25342610 original size:25 final size:24
Alignment explanation
Indices: 25342554--25342642 Score: 74
Period size: 25 Copynumber: 3.7 Consensus size: 24
25342544 TTAGCTATTC
* *
25342554 TCACATCTCGAACTTTCAGC-TCTT
1 TCACATCTCGAACCTTCA-CTTTTT
25342578 TCACATCTCGAACCTTCGACTTTTT
1 TCACATCTCGAACCTTC-ACTTTTT
* * * *
25342603 TCACATCTTGAATCGTCAACTCTTT
1 TCACATCTCGAACCTTC-ACTTTTT
*
25342628 TCACGT-TCGAACCTT
1 TCACATCTCGAACCTT
25342643 TAGCTCTGAT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
24 23 0.44
25 29 0.56
ACGTcount: A:0.21, C:0.31, G:0.09, T:0.38
Consensus pattern (24 bp):
TCACATCTCGAACCTTCACTTTTT
Found at i:25342682 original size:31 final size:30
Alignment explanation
Indices: 25342644--25342727 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 30
25342634 TCGAACCTTT
*
25342644 AGCTCTGATACCATTTGTTGGGGATCACCAC
1 AGCTCTGATACCATTTGTTGGGAAT-ACCAC
*
25342675 AGCTCTGATACCACTTGTTGGAGAATACCAC
1 AGCTCTGATACCATTTGTTGG-GAATACCAC
25342706 AGCTCTGATACCATTTGTTGGG
1 AGCTCTGATACCATTTGTTGGG
25342728 CTAAAAGCCT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
30 1 0.02
31 45 0.92
32 3 0.06
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (30 bp):
AGCTCTGATACCATTTGTTGGGAATACCAC
Found at i:25342919 original size:13 final size:13
Alignment explanation
Indices: 25342901--25342927 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25342891 CAACTTCACT
25342901 CAAACAATCAATA
1 CAAACAATCAATA
25342914 CAAACAATCAATA
1 CAAACAATCAATA
25342927 C
1 C
25342928 TCATAAGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.15
Consensus pattern (13 bp):
CAAACAATCAATA
Found at i:25343297 original size:52 final size:51
Alignment explanation
Indices: 25343226--25343349 Score: 140
Period size: 52 Copynumber: 2.4 Consensus size: 51
25343216 TATAACCAAA
* * * *
25343226 CAAACTTGCCCATTAAGAATCCCTCTCTTCTTATAATTCTTCTCCTATAAGT
1 CAAACTTGCCTATTAAGAATCCCTCTCTT-TTAGAATTCTTCTACTACAAGT
* * * * *
25343278 CAAACTTGTCTATTAAGAATTCCTTTTCTTTTAGAATTCTTCTATTGCAAGT
1 CAAACTTGCCTATTAAGAA-TCCCTCTCTTTTAGAATTCTTCTACTACAAGT
*
25343330 CAAACTTACCTATTAAGAAT
1 CAAACTTGCCTATTAAGAAT
25343350 TCTTTTTCTC
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
51 1 0.02
52 51 0.85
53 8 0.13
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCCTCTCTTTTAGAATTCTTCTACTACAAGT
Found at i:25343350 original size:52 final size:52
Alignment explanation
Indices: 25343274--25343381 Score: 162
Period size: 52 Copynumber: 2.1 Consensus size: 52
25343264 CTTCTCCTAT
** *
25343274 AAGTCAAACTTGTCTATTAAGAATTCCTTTTCTTTTAGAATTCTTCTATTGC
1 AAGTCAAACTTACCTATTAAGAATTCCTTTTCTCTTAGAATTCTTCTATTGC
* * *
25343326 AAGTCAAACTTACCTATTAAGAATTCTTTTTCTCTTGGAATTCTTCTTTTGC
1 AAGTCAAACTTACCTATTAAGAATTCCTTTTCTCTTAGAATTCTTCTATTGC
25343378 AAGT
1 AAGT
25343382 ATTCTTGTCC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.45
Consensus pattern (52 bp):
AAGTCAAACTTACCTATTAAGAATTCCTTTTCTCTTAGAATTCTTCTATTGC
Found at i:25344809 original size:13 final size:13
Alignment explanation
Indices: 25344791--25344817 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25344781 CATAATTTTT
25344791 ATATAAATATATA
1 ATATAAATATATA
25344804 ATATAAATATATA
1 ATATAAATATATA
25344817 A
1 A
25344818 ATTTTTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATAAATATATA
Found at i:25344809 original size:31 final size:31
Alignment explanation
Indices: 25344754--25344849 Score: 81
Period size: 31 Copynumber: 3.0 Consensus size: 31
25344744 AAAATTTTAT
* *
25344754 ATTTTTATATAGACATA-AATTATAATACATA
1 ATTTTTATATAAATATATAA-TATAATACATA
*
25344785 ATTTTTATATAAATATATAATATAAATATATAA
1 ATTTTTATATAAATATATAATAT-AATACAT-A
* *
25344818 ATTTTTA-AT-ATTTTATAAATATTAATACATA
1 ATTTTTATATAAATATAT-AATA-TAATACATA
25344849 A
1 A
25344850 ACTATCATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
31 25 0.46
32 20 0.37
33 9 0.17
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (31 bp):
ATTTTTATATAAATATATAATATAATACATA
Found at i:25344850 original size:32 final size:32
Alignment explanation
Indices: 25344754--25344850 Score: 92
Period size: 32 Copynumber: 3.0 Consensus size: 32
25344744 AAAATTTTAT
* *
25344754 ATTTTTATATAGACATAAAT-TATAATACAT-A
1 ATTTTTATATAAATATAAATAT-TAATACATAA
* *
25344785 ATTTTTATATAAATATATAATATAAATATATAA
1 ATTTTTATATAAATATA-AATATTAATACATAA
**
25344818 ATTTTTA-ATATTTTATAAATATTAATACATAA
1 ATTTTTATATA-AATATAAATATTAATACATAA
25344850 A
1 A
25344851 CTATCATATC
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
31 15 0.28
32 26 0.48
33 13 0.24
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (32 bp):
ATTTTTATATAAATATAAATATTAATACATAA
Found at i:25354012 original size:14 final size:14
Alignment explanation
Indices: 25353993--25354020 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25353983 ATTAAAGCTC
25353993 ATGACCTTTGATTA
1 ATGACCTTTGATTA
25354007 ATGACCTTTGATTA
1 ATGACCTTTGATTA
25354021 GACGAAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
ATGACCTTTGATTA
Found at i:25376692 original size:15 final size:16
Alignment explanation
Indices: 25376657--25376694 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
25376647 AATTTAATAA
*
25376657 AAATTTTATATTAAAT
1 AAATTTTATATAAAAT
25376673 AAATTTTAT-TAAAAT
1 AAATTTTATATAAAAT
*
25376688 TAATTTT
1 AAATTTT
25376695 TAAATTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATTTTATATAAAAT
Found at i:25381573 original size:2 final size:2
Alignment explanation
Indices: 25381566--25381597 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
25381556 CCAGCATCTA
25381566 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
25381598 TACAACATAT
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:25381716 original size:13 final size:13
Alignment explanation
Indices: 25381700--25381744 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
25381690 TTTTTTATCA
25381700 AATAAAATATTTT
1 AATAAAATATTTT
* *
25381713 AATAAATTATTTA
1 AATAAAATATTTT
*
25381726 AATTAAATATTTT
1 AATAAAATATTTT
25381739 AGATAA
1 A-ATAA
25381745 TTATTTAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
13 22 0.88
14 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
AATAAAATATTTT
Found at i:25381735 original size:26 final size:26
Alignment explanation
Indices: 25381699--25381760 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 26
25381689 TTTTTTTATC
*
25381699 AAATAAAATATTTTA-ATAAATTATTT
1 AAATTAAATATTTTAGAT-AATTATTT
25381725 AAATTAAATATTTTAGATAATTATTT
1 AAATTAAATATTTTAGATAATTATTT
25381751 AAATTGAAAT
1 AAATT-AAAT
25381761 TAATATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 27 0.82
27 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (26 bp):
AAATTAAATATTTTAGATAATTATTT
Found at i:25382900 original size:19 final size:20
Alignment explanation
Indices: 25382873--25382912 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
25382863 ATAAATAAAT
* *
25382873 TGAAGAAAATATTTTT-TAA
1 TGAAAAAAAGATTTTTATAA
25382892 TGAAAAAAAGATTTTTATAA
1 TGAAAAAAAGATTTTTATAA
25382912 T
1 T
25382913 TCTTGAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (20 bp):
TGAAAAAAAGATTTTTATAA
Found at i:25387947 original size:16 final size:16
Alignment explanation
Indices: 25387896--25387950 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
25387886 CTTTTCATTT
25387896 AGAATTTGAATG-AAA
1 AGAATTTGAATGAAAA
* *
25387911 AGAAATTTAAAAAGAAAAA
1 AG-AATTT-GAATG-AAAA
25387930 AGAATTTGAATGAAAA
1 AGAATTTGAATGAAAA
25387946 AGAAT
1 AGAAT
25387951 AATTTGGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
15 2 0.06
16 14 0.44
17 6 0.19
18 5 0.16
19 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.16, T:0.22
Consensus pattern (16 bp):
AGAATTTGAATGAAAA
Found at i:25402326 original size:36 final size:36
Alignment explanation
Indices: 25402256--25402337 Score: 112
Period size: 35 Copynumber: 2.3 Consensus size: 36
25402246 AATTTTTATC
* *
25402256 TTAAATTAAATTTAAATTTAAAAAATAAATTTTG-A
1 TTAAATTTAATTGAAATTTAAAAAATAAATTTTGAA
*
25402291 TTAAATTTAATTGAAATTATAAATAATAAATTTTGAA
1 TTAAATTTAATTGAAATT-TAAAAAATAAATTTTGAA
*
25402328 TTGAATTTAA
1 TTAAATTTAA
25402338 ATTTTTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 16 0.39
36 15 0.37
37 10 0.24
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (36 bp):
TTAAATTTAATTGAAATTTAAAAAATAAATTTTGAA
Found at i:25402338 original size:25 final size:25
Alignment explanation
Indices: 25402292--25402339 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
25402282 AAATTTTGAT
25402292 TAAATTTAATTGAAATTATAAATAA
1 TAAATTTAATTGAAATTATAAATAA
25402317 TAAATTTTGAATTG-AATT-TAAAT
1 TAAA-TTT-AATTGAAATTATAAAT
25402340 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 9 0.43
26 7 0.33
27 5 0.24
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (25 bp):
TAAATTTAATTGAAATTATAAATAA
Found at i:25405885 original size:121 final size:119
Alignment explanation
Indices: 25405663--25405885 Score: 358
Period size: 121 Copynumber: 1.8 Consensus size: 119
25405653 TAATCCAGTA
*
25405663 GGCTGGGCAGTTACCAGCTTTGCCGTGTTACCGGATAAAGCAAAAGGTCTTAGCCTTTCTCTGGT
1 GGCTGGGCAGTTACCAGCTTTGCCGTGTTACCGGATAAAACAAAAGGTCTTAGCCTTTCTCTGGT
* *
25405728 AAATGACCAGTTTATGGCTTGATGCGATCTGTTGTTGGCCCATCTTCGCCATGCCC
66 AAATGACCAGCTTATGGCTCGATGCGATC--TTGTTGGCCCATCTTCGCCATGCCC
*
25405784 GGCTGGGCAGTTACCGGCTTTGCCGTGTTACCGGATAAAACAAAAGGTCTTAGCCTTTCTCTGGT
1 GGCTGGGCAGTTACCAGCTTTGCCGTGTTACCGGATAAAACAAAAGGTCTTAGCCTTTCTCTGGT
25405849 AAATGTAGACCAGCTTATGGCTCGATGCGATC-TGTTG
66 AAA--T-GACCAGCTTATGGCTCGATGCGATCTTGTTG
25405886 TTGGCACTTA
Statistics
Matches: 95, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
121 71 0.75
123 1 0.01
124 23 0.24
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.30
Consensus pattern (119 bp):
GGCTGGGCAGTTACCAGCTTTGCCGTGTTACCGGATAAAACAAAAGGTCTTAGCCTTTCTCTGGT
AAATGACCAGCTTATGGCTCGATGCGATCTTGTTGGCCCATCTTCGCCATGCCC
Found at i:25407200 original size:30 final size:29
Alignment explanation
Indices: 25407166--25407229 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
25407156 TAGCGGGATT
*
25407166 TGATTTCATAACTGAAGAAGTAATGGGAGC
1 TGATTTCAT-ACCGAAGAAGTAATGGGAGC
** *
25407196 TGATTTTGGTACCGAAGAAGTGATGGGAGC
1 TGA-TTTCATACCGAAGAAGTAATGGGAGC
25407226 TGAT
1 TGAT
25407230 CTTGGTACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 1 0.03
30 24 0.83
31 4 0.14
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (29 bp):
TGATTTCATACCGAAGAAGTAATGGGAGC
Found at i:25407235 original size:30 final size:30
Alignment explanation
Indices: 25407179--25407245 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
25407169 TTTCATAACT
*
25407179 GAAGAAGTAATGGGAGCTGATTTTGGTACC
1 GAAGAAGTAATGGGAGCTGATCTTGGTACC
* *
25407209 GAAGAAGTGATGGGAGCTGATCTTGGTACT
1 GAAGAAGTAATGGGAGCTGATCTTGGTACC
25407239 GAAGAAG
1 GAAGAAG
25407246 ATCGACCAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.36, T:0.24
Consensus pattern (30 bp):
GAAGAAGTAATGGGAGCTGATCTTGGTACC
Found at i:25409775 original size:3 final size:3
Alignment explanation
Indices: 25409767--25409799 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
25409757 TATTTTTTAA
*
25409767 ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
25409800 TTGGAGTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:25410449 original size:21 final size:22
Alignment explanation
Indices: 25410423--25410465 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25410413 AACATATCAC
* *
25410423 TTATAATT-TTTTATTATAATA
1 TTATAATTATTTAATCATAATA
25410444 TTATAATTATTTAATCATAATA
1 TTATAATTATTTAATCATAATA
25410466 AAAATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATAATTATTTAATCATAATA
Found at i:25410466 original size:17 final size:16
Alignment explanation
Indices: 25410433--25410483 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
25410423 TTATAATTTT
*
25410433 TTATTATAATATTATAA
1 TTATT-TAATATAATAA
25410450 TTATTTAATCATAATAA
1 TTATTTAAT-ATAATAA
**
25410467 AAATTT-ATATAATAA
1 TTATTTAATATAATAA
25410482 TT
1 TT
25410484 TATCACTTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 7 0.25
16 6 0.21
17 15 0.54
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATTTAATATAATAA
Found at i:25415795 original size:58 final size:58
Alignment explanation
Indices: 25415687--25415796 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 58
25415677 AATTTTATAT
** *
25415687 GATATACTTATCATCTAAGTTAATGCTCCACTTTATAAACATGTATTTAAATTTATCC
1 GATATACTTATCATCTAAGTTAATGCTCCACTTTATAAACATAAACTTAAATTTATCC
* * *
25415745 GATATACTTATCA-CTTAAGTTAATGCTCCGCTTTTTAAATATAAACTTAAAT
1 GATATACTTATCATC-TAAGTTAATGCTCCACTTTATAAACATAAACTTAAAT
25415797 AATAGTTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 1 0.02
58 44 0.98
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.41
Consensus pattern (58 bp):
GATATACTTATCATCTAAGTTAATGCTCCACTTTATAAACATAAACTTAAATTTATCC
Found at i:25415900 original size:2 final size:2
Alignment explanation
Indices: 25415893--25415938 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
25415883 TTGGAATCTA
* *
25415893 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25415935 AT AT
1 AT AT
25415939 CAAAATACGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25417773 original size:2 final size:2
Alignment explanation
Indices: 25417766--25417805 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
25417756 CTTATTTCAC
25417766 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
25417806 ATATATATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:25417810 original size:2 final size:2
Alignment explanation
Indices: 25417805--25417839 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
25417795 TCTCTCTCTC
25417805 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25417840 CTGTCTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25417957 original size:2 final size:2
Alignment explanation
Indices: 25417950--25417990 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
25417940 TCATATCCCC
25417950 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25417991 CTGTCTCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25418092 original size:153 final size:151
Alignment explanation
Indices: 25417805--25418105 Score: 584
Period size: 151 Copynumber: 2.0 Consensus size: 151
25417795 TCTCTCTCTC
25417805 TATATATATATATATATATATATATATATATATATCTGTCTCAAAGTATTACCGCTCAGTCTTCA
1 TATATATATATATATATATATATATATATATATATCTGTCTCAAAGTATTACCGCTCAGTCTTCA
25417870 TCTTATTGGCCTAGTGGTTAAGAAGATTTAGGAAGACATAGGGTGGGAATTCGAGCCCCACCATC
66 TCTTATTGGCCTAGTGGTTAAGAAGATTTAGGAAGACATAGGGTGGGAATTCGAGCCCCACCATC
25417935 CCATCTCATATCCCCTATATA
131 CCATCTCATATCCCCTATATA
25417956 TATATATATATATATATATATATATATATATATATCTGTCTCAAAGTATTACCGCTCAGTCTTCA
1 TATATATATATATATATATATATATATATATATATCTGTCTCAAAGTATTACCGCTCAGTCTTCA
25418021 TCTTATTGGCCTAGTGGTTAAGAAGATTTAGGAAGACATATAGGGTGGGAATTCGAGCCCCACCA
66 TCTTATTGGCCTAGTGGTTAAGAAGATTTAGGAAGAC--ATAGGGTGGGAATTCGAGCCCCACCA
25418086 TCCCATCTCATATCCCCTAT
129 TCCCATCTCATATCCCCTAT
25418106 CCAATGGACC
Statistics
Matches: 148, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
151 102 0.69
153 46 0.31
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.35
Consensus pattern (151 bp):
TATATATATATATATATATATATATATATATATATCTGTCTCAAAGTATTACCGCTCAGTCTTCA
TCTTATTGGCCTAGTGGTTAAGAAGATTTAGGAAGACATAGGGTGGGAATTCGAGCCCCACCATC
CCATCTCATATCCCCTATATA
Found at i:25419210 original size:29 final size:27
Alignment explanation
Indices: 25419171--25419246 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 27
25419161 TAAATTATAA
*
25419171 TAAAATATTTAATATAATATATAAATTT
1 TAAAATTTTTAATATAATATATAAA-TT
* *
25419199 TAAAAATTTTTAATAAAATATCTAAATT
1 T-AAAATTTTTAATATAATATATAAATT
25419227 T-AAATTTATTAAT-TAATATA
1 TAAAATTT-TTAATATAATATA
25419247 ATCTTCACTA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
26 11 0.27
27 5 0.12
28 4 0.10
29 21 0.51
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (27 bp):
TAAAATTTTTAATATAATATATAAATT
Found at i:25421644 original size:13 final size:13
Alignment explanation
Indices: 25421626--25421666 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
25421616 GATAATTTTA
25421626 AATATAAAATAAT
1 AATATAAAATAAT
* *
25421639 AATATAATATAAA
1 AATATAAAATAAT
25421652 AATATGAAAATAAT
1 AATAT-AAAATAAT
25421666 A
1 A
25421667 TAATTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
AATATAAAATAAT
Found at i:25421686 original size:11 final size:11
Alignment explanation
Indices: 25421672--25421710 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
25421662 TAATATAATT
25421672 TAAAATTTTAA
1 TAAAATTTTAA
25421683 TAAAATTTATAA
1 TAAAATTT-TAA
*
25421695 -ATAATTTTAA
1 TAAAATTTTAA
25421705 TAAAAT
1 TAAAAT
25421711 AAAAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 3 0.12
11 18 0.75
12 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAAAATTTTAA
Found at i:25421718 original size:22 final size:22
Alignment explanation
Indices: 25421675--25421726 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
25421665 TATAATTTAA
** *
25421675 AATTTTAATAAAATTTATAAAT
1 AATTTTAATAAAATAAAAAAAT
25421697 AATTTTAATAAAATAAAAAAAT
1 AATTTTAATAAAATAAAAAAAT
25421719 ATATTTTA
1 A-ATTTTA
25421727 TATTTTTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTTTAATAAAATAAAAAAAT
Found at i:25424522 original size:12 final size:12
Alignment explanation
Indices: 25424507--25424546 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
25424497 GGTGAGGTGA
25424507 ATGATGAAGAGG
1 ATGATGAAGAGG
* * *
25424519 ATGAGGAAGTGA
1 ATGATGAAGAGG
25424531 ATGATGAAGAGG
1 ATGATGAAGAGG
25424543 ATGA
1 ATGA
25424547 GGCAAGTGCT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.40, T:0.17
Consensus pattern (12 bp):
ATGATGAAGAGG
Found at i:25424531 original size:24 final size:25
Alignment explanation
Indices: 25424503--25424554 Score: 97
Period size: 24 Copynumber: 2.1 Consensus size: 25
25424493 TAATGGTGAG
25424503 GTGAATGATGAAGAGGATGAGG-AA
1 GTGAATGATGAAGAGGATGAGGCAA
25424527 GTGAATGATGAAGAGGATGAGGCAA
1 GTGAATGATGAAGAGGATGAGGCAA
25424552 GTG
1 GTG
25424555 CTGAGCTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.38, C:0.02, G:0.42, T:0.17
Consensus pattern (25 bp):
GTGAATGATGAAGAGGATGAGGCAA
Found at i:25428692 original size:16 final size:17
Alignment explanation
Indices: 25428671--25428702 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
25428661 AAAAATTGAA
25428671 AATTATAAT-TATAATT
1 AATTATAATATATAATT
25428687 AATTATAATATATAAT
1 AATTATAATATATAAT
25428703 AAAAAATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTATAATATATAATT
Found at i:25436046 original size:2 final size:2
Alignment explanation
Indices: 25436041--25436073 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25436031 ACTTACAATC
25436041 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25436074 ATGAATGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25441558 original size:28 final size:28
Alignment explanation
Indices: 25441527--25441596 Score: 131
Period size: 28 Copynumber: 2.5 Consensus size: 28
25441517 AAATACAATA
25441527 TTCCCGTCAAATAATTGTTAAAAATAAG
1 TTCCCGTCAAATAATTGTTAAAAATAAG
25441555 TTCCCGTCAAATAATTGTTAAAAATAAG
1 TTCCCGTCAAATAATTGTTAAAAATAAG
*
25441583 TTCCCATCAAATAA
1 TTCCCGTCAAATAA
25441597 CAACATATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (28 bp):
TTCCCGTCAAATAATTGTTAAAAATAAG
Found at i:25445729 original size:110 final size:113
Alignment explanation
Indices: 25445609--25445823 Score: 278
Period size: 110 Copynumber: 1.9 Consensus size: 113
25445599 ATTTTAATTT
** * *
25445609 GTTAGATCTAATGTCATTACATCTGATAAAAAAATTCTTTTATTCTTT-ATT-TTTT-TC-A-TT
1 GTTAGATCTAATGTCATTACATCCAATAAAAAAATTCTTTAATT-TTTAATTATTTTCACGAGTT
* * * *
25445669 ATTTTTTTTCGTGATTGTATTATTCCCTTCAATTGTTATAGATAGTAGAA
65 -TTTTTTTTCATGATTATATTACTCCCTTCAATTGCTATAGATAGTAGAA
* * *
25445719 GTTAGGTCTAATGTCATTACATCCAATTAAGAAATTCTTTAATTTTTAATTATTTTCACGAGTTT
1 GTTAGATCTAATGTCATTACATCCAATAAAAAAATTCTTTAATTTTTAATTATTTTCACGAGTTT
25445784 TTTTTTTCATGATTATATTACTCCCTTCAATTGCTATAGA
66 TTTTTTTCATGATTATATTACTCCCTTCAATTGCTATAGA
25445824 GAGTGGAGAT
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
109 3 0.03
110 41 0.46
111 4 0.04
112 1 0.01
113 38 0.43
114 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (113 bp):
GTTAGATCTAATGTCATTACATCCAATAAAAAAATTCTTTAATTTTTAATTATTTTCACGAGTTT
TTTTTTTCATGATTATATTACTCCCTTCAATTGCTATAGATAGTAGAA
Found at i:25447032 original size:16 final size:15
Alignment explanation
Indices: 25446994--25447036 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
25446984 GTTGAAAATC
25446994 AAGTAAAAAAAAGAA
1 AAGTAAAAAAAAGAA
*
25447009 AAGTAAAAAAAAGCA
1 AAGTAAAAAAAAGAA
*
25447024 AAG-AGAAAAAAGA
1 AAGTAAAAAAAAGA
25447037 GAAGGGAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (15 bp):
AAGTAAAAAAAAGAA
Found at i:25447376 original size:10 final size:10
Alignment explanation
Indices: 25447358--25447402 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
25447348 TTTATATTTT
25447358 TTATTATTGA
1 TTATTATTGA
25447368 TTATTATTGA
1 TTATTATTGA
25447378 TTACTT-TTGTA
1 TTA-TTATTG-A
25447389 TTATTA-TGA
1 TTATTATTGA
25447398 TTATT
1 TTATT
25447403 GCTTCAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 6 0.19
10 20 0.62
11 6 0.19
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.62
Consensus pattern (10 bp):
TTATTATTGA
Found at i:25447605 original size:27 final size:27
Alignment explanation
Indices: 25447560--25447619 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
25447550 TTTTAATTAG
*
25447560 ATTTTA-AGTTAGATAACAATAAAAAA
1 ATTTTAGAGTAAGATAACAATAAAAAA
*
25447586 ATTTTAGAGTAAGTTAACAATAAAAAA
1 ATTTTAGAGTAAGATAACAATAAAAAA
*
25447613 AGTTTAG
1 ATTTTAG
25447620 GAGCAGGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.32
Consensus pattern (27 bp):
ATTTTAGAGTAAGATAACAATAAAAAA
Found at i:25447674 original size:14 final size:14
Alignment explanation
Indices: 25447657--25447701 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
25447647 TTATAAAAAA
25447657 TTATTTTTAATTAT
1 TTATTTTTAATTAT
25447671 TTA--TTTAATT-T
1 TTATTTTTAATTAT
25447682 TATATTTTTAA-TAT
1 T-TATTTTTAATTAT
25447696 TTATTT
1 TTATTT
25447702 AAATTTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
11 2 0.07
12 9 0.33
13 6 0.22
14 10 0.37
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTATTTTTAATTAT
Found at i:25447696 original size:25 final size:26
Alignment explanation
Indices: 25447658--25447712 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 26
25447648 TATAAAAAAT
*
25447658 TATTTTTAATTATTTATTTAATTTTA
1 TATTTTTAATTATTTATTTAAATTTA
25447684 TATTTTTAA-TATTTATTTAAATTTA
1 TATTTTTAATTATTTATTTAAATTTA
25447709 TATT
1 TATT
25447713 AAAAATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 19 0.68
26 9 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
TATTTTTAATTATTTATTTAAATTTA
Found at i:25447719 original size:25 final size:25
Alignment explanation
Indices: 25447668--25447719 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
25447658 TATTTTTAAT
* ***
25447668 TATTTATTTAATTTTATATTTTTAA
1 TATTTATTTAAATTTATATTAAAAA
25447693 TATTTATTTAAATTTATATTAAAAA
1 TATTTATTTAAATTTATATTAAAAA
25447718 TA
1 TA
25447720 ATATTTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTTATTTAAATTTATATTAAAAA
Found at i:25453944 original size:20 final size:21
Alignment explanation
Indices: 25453906--25453944 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
25453896 TTTAATGTTT
* *
25453906 TAGTTCAATTTTTTTGTGTAA
1 TAGTTCAATTTTCTAGTGTAA
25453927 TAGTT-AATTTTCTAGTGT
1 TAGTTCAATTTTCTAGTGT
25453945 TGTTTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.56
Consensus pattern (21 bp):
TAGTTCAATTTTCTAGTGTAA
Found at i:25455170 original size:24 final size:24
Alignment explanation
Indices: 25455142--25455190 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
25455132 TAAACACTGC
*
25455142 ATATACGTGTTTGTATTTGAGATG
1 ATATACATGTTTGTATTTGAGATG
*
25455166 ATATACATGTTTTTATTTGAGATG
1 ATATACATGTTTGTATTTGAGATG
25455190 A
1 A
25455191 ATTATAGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.47
Consensus pattern (24 bp):
ATATACATGTTTGTATTTGAGATG
Found at i:25475479 original size:36 final size:36
Alignment explanation
Indices: 25475432--25475504 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
25475422 TATAAACAAT
*
25475432 TAACTAATCTTTGGTCTTCATCAACTGATTCATATA
1 TAACTAATCTTTGATCTTCATCAACTGATTCATATA
25475468 TAACTAATCTTTGATCTTCATCAACTGATTCATATA
1 TAACTAATCTTTGATCTTCATCAACTGATTCATATA
25475504 T
1 T
25475505 CTTTAATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (36 bp):
TAACTAATCTTTGATCTTCATCAACTGATTCATATA
Found at i:25475947 original size:2 final size:2
Alignment explanation
Indices: 25475904--25475931 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25475894 AGTTATTTCC
25475904 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
25475932 CTATGTAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25483460 original size:19 final size:19
Alignment explanation
Indices: 25483415--25483460 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
25483405 AATATATTTT
*
25483415 ATTAATTAAATTAATAAAA
1 ATTAATTAAAATAATAAAA
25483434 A-TATATTAAAAT-ATAAAA
1 ATTA-ATTAAAATAATAAAA
25483452 ATTAGATTA
1 ATTA-ATTA
25483461 GATTCATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
ATTAATTAAAATAATAAAA
Found at i:25483571 original size:11 final size:11
Alignment explanation
Indices: 25483555--25483595 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
25483545 TCAATAATAA
25483555 TTAAATTAAAT
1 TTAAATTAAAT
**
25483566 TTAAATTTTAT
1 TTAAATTAAAT
*
25483577 TTAAATCAAAT
1 TTAAATTAAAT
25483588 TTAAATTA
1 TTAAATTA
25483596 TTTACTAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:25486187 original size:3 final size:3
Alignment explanation
Indices: 25486179--25486230 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
25486169 TTGATGGAAC
25486179 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25486227 ATA A
1 ATA A
25486231 AATTTACTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25486622 original size:17 final size:17
Alignment explanation
Indices: 25486602--25486635 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25486592 TCCAATGGGG
*
25486602 AAAAAAATAAAAAGAAA
1 AAAAAAAAAAAAAGAAA
25486619 AAAAAAAAAAAAAGAAA
1 AAAAAAAAAAAAAGAAA
25486636 TGGAAAGGTC
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:0.91, C:0.00, G:0.06, T:0.03
Consensus pattern (17 bp):
AAAAAAAAAAAAAGAAA
Found at i:25488257 original size:17 final size:16
Alignment explanation
Indices: 25488235--25488266 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
25488225 AAACTAAATA
25488235 AAAAAATAAATGAAAAG
1 AAAAAATAAAT-AAAAG
25488252 AAAAAATAAATAAAA
1 AAAAAATAAATAAAA
25488267 TCTTTGTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAAAATAAATAAAAG
Found at i:25488511 original size:2 final size:2
Alignment explanation
Indices: 25488464--25488496 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
25488454 GATAGGGACG
25488464 GA GA GA GA GA GA GA GA GA GA GA GA GA G- GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
25488497 CTGTTGGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:25490828 original size:316 final size:316
Alignment explanation
Indices: 25490255--25490887 Score: 1036
Period size: 316 Copynumber: 2.0 Consensus size: 316
25490245 GATACTGTCG
* *
25490255 AAAATGGTCTATTCTTGCTAATGCCTCTCAACTTCTTCAAAGTGTCGTATCTTTCACTTGCATAC
1 AAAATGGTCCATTCTTGCTAATGCCTCCCAACTTCTTCAAAGTGTCGTATCTTTCACTTGCATAC
* * *
25490320 ATAGTCCAATCTCTTCATAAATATCCCTGGTATGCAGGTTTAGTGCTATCAATTACACATTCGTG
66 ATAGTCCAATCTCTTCATAAATATCCCTGGTATGCAGGTCTACTGCTATCAATTACACATTCATG
* * * *
25490385 ATCGCAGTTGTGGGAGCTTCAATCCCACAAGTTTAAAATGTAAACGTGTTAGCAGCTATTTTTTT
131 AACGCAGTTGTGGGAGCTTCAATCCCACAAGTTTAAAATGTAAACGTGTTAGCAGCTATCTGTAT
25490450 TTTTTTTACAACAACAATTTGGGTTTTTGGTTTCCACTAATCCTAAAGTTGTTTGAAGACATTAT
196 TTTTTTTACAACAACAATTTGGGTTTTTGGTTTCCACTAATCCTAAAGTTGTTTGAAGACATTAT
* *
25490515 TCTTTTCTTGCTTTACAATACTAGGACCGAATGACCCAGAGTGATGGTGTCAAAAC
261 TATTTTCCTGCTTTACAATACTAGGACCGAATGACCCAGAGTGATGGTGTCAAAAC
* * *
25490571 AAAATGGTCCATTCTTGCTATTGCCTCCCAACTTCTTGAAAGTGTCGTATCTTTCGCTTGCATAC
1 AAAATGGTCCATTCTTGCTAATGCCTCCCAACTTCTTCAAAGTGTCGTATCTTTCACTTGCATAC
*
25490636 ATAGTCCAATCTCTTCATAAATATCCCTGGTATGCATGTCTACTGCTACTC-ATTACACATTCAT
66 ATAGTCCAATCTCTTCATAAATATCCCTGGTATGCAGGTCTACTGCTA-TCAATTACACATTCAT
* *
25490700 GAACGCATTTGTGGGAGCTTCAATCCCACAAGTTTAAAATGTTAAATGTGTTAGCAGCTA-CTGT
130 GAACGCAGTTGTGGGAGCTTCAATCCCACAAGTTTAAAATG-TAAACGTGTTAGCAGCTATCTGT
* * * * *
25490764 ATTTTTTTTATAATAAGAATTTGGGTTTTTGGTTTCCATTGATCCTAAAGTTGTTTGAAGACATT
194 ATTTTTTTTACAACAACAATTTGGGTTTTTGGTTTCCACTAATCCTAAAGTTGTTTGAAGACATT
25490829 ATTATTTTCCTGCTTTACAATACTAGGACCGAATGACCCAGAGTGATGGTGTCAAAAC
259 ATTATTTTCCTGCTTTACAATACTAGGACCGAATGACCCAGAGTGATGGTGTCAAAAC
25490887 A
1 A
25490888 TGTGTTTGAC
Statistics
Matches: 293, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
316 274 0.94
317 19 0.06
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (316 bp):
AAAATGGTCCATTCTTGCTAATGCCTCCCAACTTCTTCAAAGTGTCGTATCTTTCACTTGCATAC
ATAGTCCAATCTCTTCATAAATATCCCTGGTATGCAGGTCTACTGCTATCAATTACACATTCATG
AACGCAGTTGTGGGAGCTTCAATCCCACAAGTTTAAAATGTAAACGTGTTAGCAGCTATCTGTAT
TTTTTTTACAACAACAATTTGGGTTTTTGGTTTCCACTAATCCTAAAGTTGTTTGAAGACATTAT
TATTTTCCTGCTTTACAATACTAGGACCGAATGACCCAGAGTGATGGTGTCAAAAC
Found at i:25493904 original size:21 final size:21
Alignment explanation
Indices: 25493879--25493922 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
25493869 TTTTATAGAT
25493879 ATAAAAAAACATA-ATATGGAG
1 ATAAAAAAA-ATATATATGGAG
*
25493900 ATAAAAGAAATATATATGGAG
1 ATAAAAAAAATATATATGGAG
25493921 AT
1 AT
25493923 TTAAATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.59, C:0.02, G:0.16, T:0.23
Consensus pattern (21 bp):
ATAAAAAAAATATATATGGAG
Found at i:25498942 original size:22 final size:21
Alignment explanation
Indices: 25498917--25498976 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 21
25498907 ATCTATTAAG
25498917 TAAATAAATAAATAAATTTATT
1 TAAATAAATAAA-AAATTTATT
*
25498939 TAAATATATTAAAAAATTTATT
1 TAAATA-AATAAAAAATTTATT
*
25498961 AAAATAATATAAAAAA
1 TAAATAA-ATAAAAAA
25498977 AATTAAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 1 0.03
22 27 0.82
23 5 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAATAAATAAAAAATTTATT
Found at i:25498974 original size:21 final size:22
Alignment explanation
Indices: 25498925--25498977 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
25498915 AGTAAATAAA
*
25498925 TAAATAAATTTATTTAAATATAT
1 TAAA-AAATTTATTAAAATATAT
25498948 TAAAAAATTTATTAAAATAATAT
1 TAAAAAATTTATTAAAAT-ATAT
*
25498971 AAAAAAA
1 TAAAAAA
25498978 ATTAAAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAAAAATTTATTAAAATATAT
Found at i:25499510 original size:2 final size:2
Alignment explanation
Indices: 25499498--25499530 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
25499488 CACATGGAAT
25499498 TA TA CTA 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
25499531 GACTGTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:25521014 original size:4 final size:4
Alignment explanation
Indices: 25521005--25521056 Score: 59
Period size: 4 Copynumber: 13.0 Consensus size: 4
25520995 CAGCATAAAC
* * * * *
25521005 ATAT ATAT ATAT ATAT ATAT ATGT ATGT ATGT ATGT ATGT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
25521053 ATAT
1 ATAT
25521057 GTACACACAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (4 bp):
ATAT
Found at i:25536757 original size:18 final size:19
Alignment explanation
Indices: 25536736--25536782 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
25536726 TGTTATTTTT
25536736 ATATAAAATATTATATGA-
1 ATATAAAATATTATATGAC
* *
25536754 ATATAATATTTTATATGAC
1 ATATAAAATATTATATGAC
25536773 ATAATAAAAT
1 AT-ATAAAAT
25536783 GAATTATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 16 0.67
19 2 0.08
20 6 0.25
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (19 bp):
ATATAAAATATTATATGAC
Found at i:25537742 original size:2 final size:2
Alignment explanation
Indices: 25537737--25537771 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
25537727 TCTGTACTTG
25537737 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25537772 GCATACAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25539332 original size:35 final size:36
Alignment explanation
Indices: 25539286--25539353 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 36
25539276 TTTCCTGTAT
25539286 GCTGGCCGTATGAGTAGAGG-ACACCTGTTACTATA
1 GCTGGCCGTATGAGTAGAGGAACACCTGTTACTATA
* * * *
25539321 GCTGGCTGTATGGGTAGGGGAACGCCTGTTACT
1 GCTGGCCGTATGAGTAGAGGAACACCTGTTACT
25539354 TTTGCCGTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 17 0.61
36 11 0.39
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (36 bp):
GCTGGCCGTATGAGTAGAGGAACACCTGTTACTATA
Found at i:25541461 original size:25 final size:24
Alignment explanation
Indices: 25541412--25541463 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
25541402 TTAATAAAAA
*
25541412 TAAATTTAATTCTTACATTTGATTT
1 TAAATTTAATTATTACA-TTGATTT
*
25541437 TAAATTTAATTATATAC-TTGAATT
1 TAAATTTAATTAT-TACATTGATTT
25541461 TAA
1 TAA
25541464 TTATGAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.38
25 12 0.50
26 3 0.12
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (24 bp):
TAAATTTAATTATTACATTGATTT
Found at i:25541574 original size:21 final size:21
Alignment explanation
Indices: 25541537--25541590 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
25541527 TATTAAAATT
* *
25541537 TAAA-ATTTTAATTAAAT-TA
1 TAAATATTTAAATCAAATATA
*
25541556 TAAATTATTTAAATCAAATATT
1 TAAA-TATTTAAATCAAATATA
25541578 TAAATATTTAAAT
1 TAAATATTTAAAT
25541591 TTAATTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.14
21 20 0.69
22 5 0.17
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAATATTTAAATCAAATATA
Found at i:25541655 original size:32 final size:32
Alignment explanation
Indices: 25541577--25541656 Score: 85
Period size: 32 Copynumber: 2.5 Consensus size: 32
25541567 AATCAAATAT
* *
25541577 TTAAAT-ATTTAAATTTAATTTATTTAATAAA
1 TTAAATAAATTAAATTTAATTTATATAATAAA
* *
25541608 TTAAATTACTTAAATTTAATTTA-ATAAT-AA
1 TTAAATAAATTAAATTTAATTTATATAATAAA
25541638 TTAAATCAAATTCAAATTT
1 TTAAAT-AAATT-AAATTT
25541657 TATCACTCGA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 8 0.19
31 13 0.31
32 21 0.50
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (32 bp):
TTAAATAAATTAAATTTAATTTATATAATAAA
Found at i:25549913 original size:18 final size:18
Alignment explanation
Indices: 25549890--25549925 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
25549880 AAAATGCAGA
*
25549890 CAGATTCCATGGAGAGAC
1 CAGATTCCACGGAGAGAC
25549908 CAGATTCCACGGAGAGAC
1 CAGATTCCACGGAGAGAC
25549926 AGTTACCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.25, G:0.28, T:0.14
Consensus pattern (18 bp):
CAGATTCCACGGAGAGAC
Found at i:25550926 original size:19 final size:19
Alignment explanation
Indices: 25550898--25550943 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
25550888 CATGAAAACA
*
25550898 TATATATATATAT-ATATAT
1 TATATTTATAT-TGATATAT
25550917 TATATTTATATTGATATAT
1 TATATTTATATTGATATAT
25550936 TATATTTA
1 TATATTTA
25550944 ACTGTAAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TATATTTATATTGATATAT
Found at i:25559579 original size:14 final size:14
Alignment explanation
Indices: 25559560--25559590 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
25559550 CTCAGTTGGC
25559560 TGACTATCCTTGTA
1 TGACTATCCTTGTA
25559574 TGACTATCCTTGTA
1 TGACTATCCTTGTA
25559588 TGA
1 TGA
25559591 TTGCATTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (14 bp):
TGACTATCCTTGTA
Found at i:25561475 original size:32 final size:32
Alignment explanation
Indices: 25561437--25561502 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
25561427 TAGATCTGGT
* *
25561437 AATTTATATATTTATGTCATATAATATATTAA
1 AATTTATATATTTATATAATATAATATATTAA
**
25561469 AATTTATATATTTATATAATATTTTATATTAA
1 AATTTATATATTTATATAATATAATATATTAA
25561501 AA
1 AA
25561503 AATTATATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (32 bp):
AATTTATATATTTATATAATATAATATATTAA
Found at i:25565404 original size:32 final size:31
Alignment explanation
Indices: 25565354--25565417 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 31
25565344 TACATATGAT
*
25565354 AATTTATATATTTATATTATATAAAATATTAA
1 AATTTATATATATATATTA-ATAAAATATTAA
* *
25565386 AATTTATATATA-ATTATTACTAAAATTTTAA
1 AATTTATATATATA-TATTAATAAAATATTAA
25565417 A
1 A
25565418 TCATATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (31 bp):
AATTTATATATATATATTAATAAAATATTAA
Found at i:25572581 original size:19 final size:22
Alignment explanation
Indices: 25572526--25572583 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
25572516 TAAAAATATA
* *
25572526 AAATATATTTTTTATT-TTATT
1 AAATATATTTATAATTATTATT
25572547 AAATATATTTATAATTATTATT
1 AAATATATTTATAATTATTATT
25572569 AAA-AT-TTTA-AATTAT
1 AAATATATTTATAATTAT
25572584 ATCATTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.18
20 4 0.12
21 16 0.47
22 8 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AAATATATTTATAATTATTATT
Found at i:25572596 original size:11 final size:11
Alignment explanation
Indices: 25572580--25572617 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
25572570 AAATTTTAAA
25572580 TTATATCATTT
1 TTATATCATTT
25572591 TTATATC-TTT
1 TTATATCATTT
*
25572601 TTATATCATAT
1 TTATATCATTT
25572612 TTATAT
1 TTATAT
25572618 TATATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (11 bp):
TTATATCATTT
Found at i:25572622 original size:11 final size:11
Alignment explanation
Indices: 25572580--25572624 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
25572570 AAATTTTAAA
*
25572580 TTATATCATTT
1 TTATATCATAT
*
25572591 TTATATC-TTT
1 TTATATCATAT
25572601 TTATATCATAT
1 TTATATCATAT
*
25572612 TTATATTATAT
1 TTATATCATAT
25572623 TT
1 TT
25572625 TAAATTACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
10 10 0.32
11 21 0.68
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (11 bp):
TTATATCATAT
Found at i:25586799 original size:14 final size:14
Alignment explanation
Indices: 25586782--25586808 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25586772 TATCATATAT
25586782 ATATATATATATGC
1 ATATATATATATGC
25586796 ATATATATATATG
1 ATATATATATATG
25586809 TATCGAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (14 bp):
ATATATATATATGC
Found at i:25588929 original size:15 final size:16
Alignment explanation
Indices: 25588911--25588940 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25588901 GGTAGCATAA
25588911 AAGGACC-CAGCAAAT
1 AAGGACCGCAGCAAAT
25588926 AAGGACCGCAGCAAA
1 AAGGACCGCAGCAAA
25588941 GGCATAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.27, G:0.23, T:0.03
Consensus pattern (16 bp):
AAGGACCGCAGCAAAT
Found at i:25602805 original size:2 final size:2
Alignment explanation
Indices: 25602800--25602825 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25602790 ACGGTGTGTA
25602800 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
25602826 GGACCAATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25607305 original size:2 final size:2
Alignment explanation
Indices: 25607292--25607321 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
25607282 TGGGCCCTAA
*
25607292 AT AT AT AA 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
25607322 TTAGGGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:25610414 original size:20 final size:20
Alignment explanation
Indices: 25610391--25610430 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
25610381 ATAAGAAATG
*
25610391 ATTTAAAAATATATTTATAT
1 ATTTAAAAATATATATATAT
*
25610411 ATTTATAAATATATATATAT
1 ATTTAAAAATATATATATAT
25610431 GTGTCAGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTTAAAAATATATATATAT
Found at i:25610871 original size:2 final size:2
Alignment explanation
Indices: 25610864--25610888 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25610854 CTATTTCAGA
25610864 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
25610889 ATAGACATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25611187 original size:3 final size:3
Alignment explanation
Indices: 25611179--25611225 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
25611169 CTCTCACTTG
25611179 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25611226 CTACTATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Done.