Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 102 of 131
Found at i:18210340 original size:7 final size:7
Alignment explanation
Indices: 18210328--18210364 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
18210318 TTTCTTTCTC
18210328 TTTATCT
1 TTTATCT
18210335 TTTATCT
1 TTTATCT
18210342 TTTATCT
1 TTTATCT
18210349 TTTAT-T
1 TTTATCT
*
18210355 TTTTTCT
1 TTTATCT
18210362 TTT
1 TTT
18210365 CCCTTTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTATCT
Found at i:18210370 original size:20 final size:21
Alignment explanation
Indices: 18210328--18210380 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
18210318 TTTCTTTCTC
*
18210328 TTTATCTTTTATCTTTTATCT
1 TTTATCTTTTATCTTTTACCT
* *
18210349 TTTAT-TTTTTTCTTTTCCCT
1 TTTATCTTTTATCTTTTACCT
18210369 TTTCATCATTTT
1 TTT-ATC-TTTT
18210381 TCAAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 15 0.58
21 7 0.27
23 4 0.15
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTATCTTTTATCTTTTACCT
Found at i:18212754 original size:51 final size:51
Alignment explanation
Indices: 18212643--18212750 Score: 130
Period size: 50 Copynumber: 2.1 Consensus size: 51
18212633 AACTTTCAAA
* * *
18212643 ACTTTTCAAATTGAGATTTTCTTAAAAGCCACCTATCATGTCTACAGGAGC
1 ACTTTTTAAATTGAGATATTCTTAAAAGCCACCTATCATGTCTACAAGAGC
* * * *
18212694 ACTTTTTAAATTGAGATATT-TT-AAAGTCACTTGTCTATGTCTATAAGAGC
1 ACTTTTTAAATTGAGATATTCTTAAAAGCCACCTATC-ATGTCTACAAGAGC
18212744 ACTTTTT
1 ACTTTTT
18212751 TAAAGTCACC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
49 10 0.20
50 21 0.43
51 18 0.37
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.40
Consensus pattern (51 bp):
ACTTTTTAAATTGAGATATTCTTAAAAGCCACCTATCATGTCTACAAGAGC
Found at i:18212769 original size:36 final size:36
Alignment explanation
Indices: 18212712--18212782 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
18212702 AATTGAGATA
**
18212712 TTTTAAAGTCACTTGTCTATGTCTATAAGAGCACTT
1 TTTTAAAGTCACTACTCTATGTCTATAAGAGCACTT
* *
18212748 TTTTAAAGTCACCTACT-TATGTTTATAGGAGCACT
1 TTTTAAAGTCA-CTACTCTATGTCTATAAGAGCACT
18212783 CTTCAAATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 27 0.90
37 3 0.10
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTTAAAGTCACTACTCTATGTCTATAAGAGCACTT
Found at i:18213038 original size:52 final size:52
Alignment explanation
Indices: 18212746--18213353 Score: 448
Period size: 52 Copynumber: 11.7 Consensus size: 52
18212736 ATAAGAGCAC
* * * * * * *
18212746 TTTTTTAAAGTCACCTACTTATGTTTATAGGAGCACTCTTCAAATTGAGGATT
1 TTTTTTAAAGTCACTTGCCTATGTCTATAGAAGCACTTTTCAAATT-AAGATT
* * * * * * * *
18212799 TTTTTTTAAGTCACCTACTTATGTCTATAGGAGCACTCTTAAAATTGAGGATTTT
1 TTTTTTAAAGTCACTTGCCTATGTCTATAGAAGCACTTTTCAAATT-AAGA--TT
* * * * *
18212854 TTTTTTTAAGTCACCTACCTATGTTTATAGGAGCACTTTTCAAATTAAGA-T
1 TTTTTTAAAGTCACTTGCCTATGTCTATAGAAGCACTTTTCAAATTAAGATT
* * * *
18212905 ATTTTTAAAGTCAGC-TGCCTATGTCTATAGAAGCCCTTTTCAATTTTGAGATT
1 TTTTTTAAAGTCA-CTTGCCTATGTCTATAGAAGCACTTTTCAA-ATTAAGATT
** * **
18212958 TTTTTTAAAGTCACTAACTTATAACTATAGAAGCACTTTTCAAATTAAGATT
1 TTTTTTAAAGTCACTTGCCTATGTCTATAGAAGCACTTTTCAAATTAAGATT
* * *
18213010 ATTTTTAAAGTCACTTGCCTATGTCTATA-AGAGCACTTTTCAATTTGAGATT
1 TTTTTTAAAGTCACTTGCCTATGTCTATAGA-AGCACTTTTCAAATTAAGATT
* * * * * * *
18213062 TTTTTAAAAGTTAGTTGCCTATGTTTATAAAAGCACTTTTCAATTTCAGATT
1 TTTTTTAAAGTCACTTGCCTATGTCTATAGAAGCACTTTTCAAATTAAGATT
* ** * *
18213114 TTTTTTAAAGTCACTAGCCTATAACTATAGAAGCACTTTTCCAATTGAGATT
1 TTTTTTAAAGTCACTTGCCTATGTCTATAGAAGCACTTTTCAAATTAAGATT
18213166 ATTTTTT-AAGTCACTTGCCTATGTCTATA-AGAGCACTTTTCAAATTTAA-A--
1 -TTTTTTAAAGTCACTTGCCTATGTCTATAGA-AGCACTTTTCAAA-TTAAGATT
* * * *
18213216 TTTTTTCATGTCACTAGCCTATGTC-AT--AAGCACATTTTTCAAATTGAGATT
1 TTTTTTAAAGTCACTTGCCTATGTCTATAGAAGCAC--TTTTCAAATTAAGATT
* * *** * * * * **
18213267 TTTTTAAAAGCCACCAACCTATATTTATAGGAGCATTTTTCCTATTAAGATT
1 TTTTTTAAAGTCACTTGCCTATGTCTATAGAAGCACTTTTCAAATTAAGATT
* * *
18213319 TTTTTTATAAGTTC-CATGCCTATATCAATAGAAGC
1 TTTTTTA-AAG-TCACTTGCCTATGTCTATAGAAGC
18213354 TATTTCAAAA
Statistics
Matches: 454, Mismatches: 79, Indels: 44
0.79 0.14 0.08
Matches are distributed among these distances:
47 5 0.01
48 4 0.01
49 17 0.04
50 16 0.04
51 55 0.12
52 194 0.43
53 111 0.24
54 8 0.02
55 44 0.10
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (52 bp):
TTTTTTAAAGTCACTTGCCTATGTCTATAGAAGCACTTTTCAAATTAAGATT
Found at i:18213113 original size:156 final size:154
Alignment explanation
Indices: 18212746--18213325 Score: 580
Period size: 156 Copynumber: 3.7 Consensus size: 154
18212736 ATAAGAGCAC
* * * * * * *
18212746 TTTTTTAAAGTCACCTACTTATGTTTATAGGAGCACTCTTCAAATTGAGGATTTTTTTTTAAGTC
1 TTTTTTAAAGTCAGCTGCCTATGTTTATAGAAGCACTTTTCAATTTGA-GATTTTTTTTAAAGTC
** * * * * * * *
18212811 ACCT-ACTTATGTCTATAGGAGCACTCTTAAAATTGAGGATTTTTTTTTTTAAGTCACCTACCTA
65 A-CTAACTTATAACTATAGAAGCACTTTTCAAATT-AAGA--TTATTTTTTAAGTCACTTGCCTA
* * *
18212875 TGTTTATAGGAGCACTTTTCAAATTAAGAT
126 TGTCTATAAGAGCACTTTTC-AATTTAGAT
* * *
18212905 ATTTTTAAAGTCAGCTGCCTATGTCTATAGAAGCCCTTTTCAATTTTGAGATTTTTTTTAAAGTC
1 TTTTTTAAAGTCAGCTGCCTATGTTTATAGAAGCACTTTTCAA-TTTGAGATTTTTTTTAAAGTC
*
18212970 ACTAACTTATAACTATAGAAGCACTTTTCAAATTAAGATTATTTTTAAAGTCACTTGCCTATGTC
65 ACTAACTTATAACTATAGAAGCACTTTTCAAATTAAGATTATTTTTTAAGTCACTTGCCTATGTC
18213035 TATAAGAGCACTTTTCAATTTGAGAT
130 TATAAGAGCACTTTTCAATTT-AGAT
* * * *
18213061 TTTTTTAAAAGTTAGTTGCCTATGTTTATAAAAGCACTTTTCAATTTCAGATTTTTTTTAAAGTC
1 TTTTTT-AAAGTCAGCTGCCTATGTTTATAGAAGCACTTTTCAATTTGAGATTTTTTTTAAAGTC
* * * *
18213126 ACTAGCCTATAACTATAGAAGCACTTTTCCAATTGAGATTATTTTTTAAGTCACTTGCCTATGTC
65 ACTAACTTATAACTATAGAAGCACTTTTCAAATTAAGATTATTTTTTAAGTCACTTGCCTATGTC
*
18213191 TATAAGAGCACTTTTCAAATTTA-AA
130 TATAAGAGCACTTTTC-AATTTAGAT
* * * * *
18213216 TTTTTTCATGTCA-CTAGCCTATG-TCAT--AAGCACATTTTTCAAATTGAGATTTTTTTAAAAG
1 TTTTTTAAAGTCAGCT-GCCTATGTTTATAGAAGCAC--TTTTCAATTTGAGATTTTTTTTAAAG
* * * ** * * **
18213277 CCACCAACCTATATTTATAGGAGCATTTTTCCTATTAAGATT-TTTTTTA
63 TCACTAACTTATAACTATAGAAGCACTTTTCAAATTAAGATTATTTTTTA
18213326 TAAGTTCCAT
Statistics
Matches: 360, Mismatches: 53, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
151 6 0.02
152 7 0.02
153 60 0.17
154 11 0.03
155 11 0.03
156 143 0.40
157 37 0.10
158 5 0.01
159 76 0.21
160 4 0.01
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (154 bp):
TTTTTTAAAGTCAGCTGCCTATGTTTATAGAAGCACTTTTCAATTTGAGATTTTTTTTAAAGTCA
CTAACTTATAACTATAGAAGCACTTTTCAAATTAAGATTATTTTTTAAGTCACTTGCCTATGTCT
ATAAGAGCACTTTTCAATTTAGAT
Found at i:18218569 original size:23 final size:23
Alignment explanation
Indices: 18218539--18218586 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
18218529 AAGATGTATT
*
18218539 AGGCTATAATATTGGTAACAAAG
1 AGGCTATAATACTGGTAACAAAG
18218562 AGGCTATAATACTGGTAACAAAG
1 AGGCTATAATACTGGTAACAAAG
18218585 AG
1 AG
18218587 ACTCATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (23 bp):
AGGCTATAATACTGGTAACAAAG
Found at i:18222226 original size:21 final size:21
Alignment explanation
Indices: 18222197--18222236 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18222187 AAAGGGAAAA
18222197 CATTGAGACTAAATCGATCCT
1 CATTGAGACTAAATCGATCCT
* *
18222218 CATTTAGACTTAATCGATC
1 CATTGAGACTAAATCGATC
18222237 AGTCTATGGC
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:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (21 bp):
CATTGAGACTAAATCGATCCT
Found at i:18227950 original size:7 final size:7
Alignment explanation
Indices: 18227938--18227968 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
18227928 TCTCCAAACC
18227938 ACTCCCG
1 ACTCCCG
18227945 ACTCCCG
1 ACTCCCG
18227952 ACTCCCG
1 ACTCCCG
18227959 ACTCCCG
1 ACTCCCG
18227966 ACT
1 ACT
18227969 TTTTCCTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.55, G:0.13, T:0.16
Consensus pattern (7 bp):
ACTCCCG
Found at i:18232626 original size:2 final size:2
Alignment explanation
Indices: 18232621--18232645 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18232611 TCTCTCTCTC
18232621 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 T
18232646 CTTTCCTTTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18234615 original size:15 final size:15
Alignment explanation
Indices: 18234595--18234629 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
18234585 GCTTGATAAA
*
18234595 CTGAAAAATTGAGTG
1 CTGAAAAATTAAGTG
18234610 CTGAAAAATTAAGTG
1 CTGAAAAATTAAGTG
18234625 CTGAA
1 CTGAA
18234630 TTTTTGTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.26
Consensus pattern (15 bp):
CTGAAAAATTAAGTG
Found at i:18240872 original size:17 final size:17
Alignment explanation
Indices: 18240850--18240883 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18240840 AAAATATCAA
*
18240850 TATTTACATTTTTATTG
1 TATTTACATTTATATTG
18240867 TATTTACATTTATATTG
1 TATTTACATTTATATTG
18240884 AATAGTTTAT
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:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (17 bp):
TATTTACATTTATATTG
Found at i:18242161 original size:21 final size:21
Alignment explanation
Indices: 18242137--18242187 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
18242127 TTATTGAATA
18242137 CTACAAAATTTTTTCAAAATG
1 CTACAAAATTTTTTCAAAATG
18242158 CTACAAAATTTTTTCAAAATG
1 CTACAAAATTTTTTCAAAATG
18242179 CTACAAAAT
1 CTACAAAAT
18242188 CACCATTGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.35
Consensus pattern (21 bp):
CTACAAAATTTTTTCAAAATG
Found at i:18242505 original size:40 final size:44
Alignment explanation
Indices: 18242424--18242506 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 44
18242414 ATAGCTCAAT
* * *
18242424 TTAATTAAAATTATTATAAAATTTTAATAATTGATATAAAAATA
1 TTAATTAAAATAATGATAAAATTTTAATAATTGATAAAAAAATA
*
18242468 TTAATTAAAA-AATGAT-AAATTTT-A-AATTTATAAAAAAAT
1 TTAATTAAAATAATGATAAAATTTTAATAATTGATAAAAAAAT
18242507 TATACTTGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
40 13 0.37
41 1 0.03
42 7 0.20
43 4 0.11
44 10 0.29
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (44 bp):
TTAATTAAAATAATGATAAAATTTTAATAATTGATAAAAAAATA
Found at i:18243824 original size:1 final size:1
Alignment explanation
Indices: 18243818--18243848 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
18243808 TGGCAAGTTC
18243818 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18243849 CTGTACTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:18266714 original size:3 final size:3
Alignment explanation
Indices: 18266706--18266752 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
18266696 CTCGTAGGTT
18266706 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18266753 TGGCTATATT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18272337 original size:2 final size:2
Alignment explanation
Indices: 18272330--18272356 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18272320 TGCATGTGGT
18272330 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
18272357 TTTAGACCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:18278804 original size:198 final size:198
Alignment explanation
Indices: 18278466--18278863 Score: 796
Period size: 198 Copynumber: 2.0 Consensus size: 198
18278456 GAGCAAATGT
18278466 CTCCTCATAGTCTACCCCATAGGATTGAGTGAACCCCTTTGCAACAAGTCTAGCTTTGAATCTGT
1 CTCCTCATAGTCTACCCCATAGGATTGAGTGAACCCCTTTGCAACAAGTCTAGCTTTGAATCTGT
18278531 TTATACTTCCATCTACATTGTGCTTTATTGTGAAGATCCACTTACATCCAACCGGGTTTTTCCCT
66 TTATACTTCCATCTACATTGTGCTTTATTGTGAAGATCCACTTACATCCAACCGGGTTTTTCCCT
18278596 TTGGGCAAATTTGAAATTTCCTATGTCCCATTTTTCTCTAATGCCTTGATTTCTTCAAGAGCTGC
131 TTGGGCAAATTTGAAATTTCCTATGTCCCATTTTTCTCTAATGCCTTGATTTCTTCAAGAGCTGC
18278661 TGC
196 TGC
18278664 CTCCTCATAGTCTACCCCATAGGATTGAGTGAACCCCTTTGCAACAAGTCTAGCTTTGAATCTGT
1 CTCCTCATAGTCTACCCCATAGGATTGAGTGAACCCCTTTGCAACAAGTCTAGCTTTGAATCTGT
18278729 TTATACTTCCATCTACATTGTGCTTTATTGTGAAGATCCACTTACATCCAACCGGGTTTTTCCCT
66 TTATACTTCCATCTACATTGTGCTTTATTGTGAAGATCCACTTACATCCAACCGGGTTTTTCCCT
18278794 TTGGGCAAATTTGAAATTTCCTATGTCCCATTTTTCTCTAATGCCTTGATTTCTTCAAGAGCTGC
131 TTGGGCAAATTTGAAATTTCCTATGTCCCATTTTTCTCTAATGCCTTGATTTCTTCAAGAGCTGC
18278859 TGC
196 TGC
18278862 CT
1 CT
18278864 TCCAATTTGG
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
198 200 1.00
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.37
Consensus pattern (198 bp):
CTCCTCATAGTCTACCCCATAGGATTGAGTGAACCCCTTTGCAACAAGTCTAGCTTTGAATCTGT
TTATACTTCCATCTACATTGTGCTTTATTGTGAAGATCCACTTACATCCAACCGGGTTTTTCCCT
TTGGGCAAATTTGAAATTTCCTATGTCCCATTTTTCTCTAATGCCTTGATTTCTTCAAGAGCTGC
TGC
Found at i:18279314 original size:27 final size:27
Alignment explanation
Indices: 18279276--18279338 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
18279266 AGGTTGGGTA
*
18279276 GGTTGAGAATCTAGTTTTGAAGGGGCT
1 GGTTGGGAATCTAGTTTTGAAGGGGCT
* *
18279303 GGTTGGGAATCTGGTTTTGAAGGGGTT
1 GGTTGGGAATCTAGTTTTGAAGGGGCT
*
18279330 GATTGGGAA
1 GGTTGGGAA
18279339 ATTGGCAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.21, C:0.05, G:0.41, T:0.33
Consensus pattern (27 bp):
GGTTGGGAATCTAGTTTTGAAGGGGCT
Found at i:18282251 original size:31 final size:31
Alignment explanation
Indices: 18282184--18282251 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 31
18282174 TACTTTGAGT
* *
18282184 CAATTG-ATCCCTTAAATATTTATTTTCACC
1 CAATTGAATCCCTTAAACATCTATTTTCACC
18282214 CAATTGAAT-CCTTAAACATCTATTTTCACTC
1 CAATTGAATCCCTTAAACATCTATTTTCAC-C
18282245 CAATTGA
1 CAATTGA
18282252 GGTTTTGACT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 24 0.71
31 10 0.29
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (31 bp):
CAATTGAATCCCTTAAACATCTATTTTCACC
Found at i:18295198 original size:98 final size:98
Alignment explanation
Indices: 18295028--18295216 Score: 324
Period size: 98 Copynumber: 1.9 Consensus size: 98
18295018 GGTTTGATAG
* *
18295028 CCAGCACCTGCAATTCCCTTCCCATATTCCCTAGGCTTTGGTCTCCTTTTGTACCAAATAAGAAG
1 CCAGCACCTGCAATTCCCTTCCCATATTCCCTAGGCTTCGGTCTCCCTTTGTACCAAATAAGAAG
18295093 TCAAATTTTGGGATTACATTAGTAAATCAAACC
66 TCAAATTTTGGGATTACATTAGTAAATCAAACC
* *
18295126 CCAGCACTTTCAATTCCCTTCCCATATTCCCTAGGCTTCGGTCTCCCTTTGTACCAAATAAGAAG
1 CCAGCACCTGCAATTCCCTTCCCATATTCCCTAGGCTTCGGTCTCCCTTTGTACCAAATAAGAAG
**
18295191 TTGAATTTTGGGATTACATTAGTAAA
66 TCAAATTTTGGGATTACATTAGTAAA
18295217 CTTGTACAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 85 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (98 bp):
CCAGCACCTGCAATTCCCTTCCCATATTCCCTAGGCTTCGGTCTCCCTTTGTACCAAATAAGAAG
TCAAATTTTGGGATTACATTAGTAAATCAAACC
Found at i:18296942 original size:21 final size:21
Alignment explanation
Indices: 18296916--18296971 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 21
18296906 AATGTTCATT
18296916 TACAATTTCATTTA-AATTTCC
1 TACAATTTCATTTACAATTT-C
18296937 TACAATGTTC-TTTACAATTTC
1 TACAAT-TTCATTTACAATTTC
*
18296958 TAGCAATGTCATTT
1 TA-CAATTTCATTT
18296972 TTTAACAGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.46
Consensus pattern (21 bp):
TACAATTTCATTTACAATTTC
Found at i:18296964 original size:22 final size:22
Alignment explanation
Indices: 18296916--18296971 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
18296906 AATGTTCATT
18296916 TACAAT-TTCATTTAAATTTCC
1 TACAATGTTCATTTAAATTTCC
18296937 TACAATGTTC-TTTACAATTT-C
1 TACAATGTTCATTTA-AATTTCC
18296958 TAGCAATG-TCATTT
1 TA-CAATGTTCATTT
18296972 TTTAACAGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.46
Consensus pattern (22 bp):
TACAATGTTCATTTAAATTTCC
Found at i:18298509 original size:27 final size:26
Alignment explanation
Indices: 18298479--18298532 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
18298469 ATATATTATC
*
18298479 TTTTAGTATTGATAAAAAATGTC-TTTA
1 TTTTAATATT-ATAAAAAAT-TCATTTA
*
18298506 TTTTAATATTTTAAAAAATTCATTTA
1 TTTTAATATTATAAAAAATTCATTTA
18298532 T
1 T
18298533 AAAACACCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.08
26 13 0.54
27 9 0.38
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.52
Consensus pattern (26 bp):
TTTTAATATTATAAAAAATTCATTTA
Found at i:18304824 original size:19 final size:19
Alignment explanation
Indices: 18304797--18304854 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
18304787 TTAAAAAAAA
*
18304797 TATTATCACATAATACAAT
1 TATTCTCACATAATACAAT
*
18304816 TATTCTCACATTAATAGAAT
1 TATTCTCACA-TAATACAAT
*
18304836 T-TTCTAACAT-ATACAAT
1 TATTCTCACATAATACAAT
18304853 TA
1 TA
18304855 ACATAAAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 7 0.21
18 1 0.03
19 16 0.48
20 9 0.27
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.40
Consensus pattern (19 bp):
TATTCTCACATAATACAAT
Found at i:18308495 original size:62 final size:60
Alignment explanation
Indices: 18308410--18308527 Score: 141
Period size: 61 Copynumber: 1.9 Consensus size: 60
18308400 TGGGTAAGAT
*
18308410 TTTATTTAAAAAATTTTTATTTATTCAAAAATAAATAAAAC-CATCTAATATTTTGGTGCTA
1 TTTATTTAAAAAATTTTTATTTATTCAAAAAT-AATAAAACTC-TCCAATATTTTGGTGCTA
* ***
18308471 TTTATTT-CAAAATTTTTATTTTTATTTTTAAATAATAAAACTCTCCAATATTTTGGT
1 TTTATTTAAAAAATTTTTA--TTTATTCAAAAATAATAAAACTCTCCAATATTTTGGT
18308528 AAATTTTTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
60 10 0.20
61 28 0.57
62 11 0.22
ACGTcount: A:0.38, C:0.08, G:0.04, T:0.49
Consensus pattern (60 bp):
TTTATTTAAAAAATTTTTATTTATTCAAAAATAATAAAACTCTCCAATATTTTGGTGCTA
Found at i:18308855 original size:104 final size:109
Alignment explanation
Indices: 18308470--18308928 Score: 354
Period size: 109 Copynumber: 4.2 Consensus size: 109
18308460 TTTTGGTGCT
**** * * * *
18308470 ATTTATTTCAAAATTTTTA-TTTTT-ATTTTTAAA-TAATAAAACTCTCCAATATTTTGGTAAAT
1 ATTTATTTCAAAATTTTTATTTTTTCA-AAAAAAATTAATAAAACTCTCCAATAATTTAGCAAAA
* * *
18308532 TTTTATTCTAAAAAAACCTATCATAAAACCTCT-AATATTTTGATAGGA
65 TTTTATTCT-TAAAAA--TATTATAAAACCTTTCAATATTTTGATA-GA
* * * * ** ** * * ***
18308580 TTTTATTTCAAAA-ATTTATTTTTTTAAAAAACA-TAA-ATTACTCTATAATATTTTGGTTGAAT
1 ATTTATTTCAAAATTTTTATTTTTTCAAAAAAAATTAATAAAACTCTCCAATAATTTAGCAAAAT
* *
18308642 TTTATTCTAAAAAAATTATTATTAAAACC--TCAAATATTTTGGTAGGA
66 TTTATTCT-TAAAAA-TATTA-TAAAACCTTTC-AATATTTTGATA-GA
* * * * * *
18308689 TTTTATTTCAAAAATTTTATTTTTTCAAAAATAATTAATAAAACTCTCTAATACTTTGGCAAAAT
1 ATTTATTTCAAAATTTTTATTTTTTCAAAAAAAATTAATAAAACTCTCCAATAATTTAGCAAAAT
*
18308754 TTTATT-TTAAAAA-ATTATAAAATCTTTCAATATTTTGATAGA
66 TTTATTCTTAAAAATATTATAAAACCTTTCAATATTTTGATAGA
* *
18308796 ATTTA-TTCAAAATTTTTA-TTTTT-AAAAAAAATTAATGAAACTCTCCATTAATTTAGCAAAAT
1 ATTTATTTCAAAATTTTTATTTTTTCAAAAAAAATTAATAAAACTCTCCAATAATTTAGCAAAAT
* *
18308858 TTTATTCTTAAAAACTTATTATAAGACCTTTCAATATTTGGATAGA
66 TTTATTCTTAAAAA--TATTATAAAACCTTTCAATATTTTGATAGA
*
18308904 ATTTAATTTCAAAA-TTTAATTTTTT
1 ATTT-ATTTCAAAATTTTTATTTTTT
18308929 TTCATTTTTA
Statistics
Matches: 289, Mismatches: 43, Indels: 34
0.79 0.12 0.09
Matches are distributed among these distances:
104 39 0.13
105 12 0.04
106 12 0.04
107 13 0.04
108 49 0.17
109 79 0.27
110 55 0.19
111 5 0.02
112 25 0.09
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.46
Consensus pattern (109 bp):
ATTTATTTCAAAATTTTTATTTTTTCAAAAAAAATTAATAAAACTCTCCAATAATTTAGCAAAAT
TTTATTCTTAAAAATATTATAAAACCTTTCAATATTTTGATAGA
Found at i:18320089 original size:14 final size:14
Alignment explanation
Indices: 18320071--18320112 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
18320061 TTATAGTTTA
18320071 GATTTTTTTAATTT
1 GATTTTTTTAATTT
*
18320085 TATTTTTTTAA-TT
1 GATTTTTTTAATTT
18320098 GATTTTTGTTAATTT
1 GATTTTT-TTAATTT
18320113 AAAAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 14 0.58
15 2 0.08
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (14 bp):
GATTTTTTTAATTT
Found at i:18321254 original size:13 final size:13
Alignment explanation
Indices: 18321236--18321260 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18321226 TTAAATTTTT
18321236 TATTTTATTATTG
1 TATTTTATTATTG
18321249 TATTTTATTATT
1 TATTTTATTATT
18321261 ATGAATTTGA
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:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TATTTTATTATTG
Found at i:18328548 original size:9 final size:9
Alignment explanation
Indices: 18328534--18328560 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
18328524 AATACAAATG
18328534 CAAATAATC
1 CAAATAATC
18328543 CAAATAATC
1 CAAATAATC
18328552 CAAATAATC
1 CAAATAATC
18328561 ATTGAAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (9 bp):
CAAATAATC
Found at i:18329938 original size:14 final size:15
Alignment explanation
Indices: 18329911--18329950 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 15
18329901 TTTGTTCTCA
18329911 TTTCTTTTCCTCTTTCT
1 TTTCTTTT--TCTTTCT
18329928 TTT-TTTTTCTTTCT
1 TTTCTTTTTCTTTCT
18329942 TTTCTTTTT
1 TTTCTTTTT
18329951 TCTTGCATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.45
15 5 0.23
16 4 0.18
17 3 0.14
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTCTTTTTCTTTCT
Found at i:18329950 original size:16 final size:15
Alignment explanation
Indices: 18329911--18329954 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
18329901 TTTGTTCTCA
*
18329911 TTTCTTTTCCTCTTTC
1 TTTCTTTT-TTCTTTC
18329927 TTT-TTTTTTCTTTC
1 TTTCTTTTTTCTTTC
18329941 TTTTCTTTTTTCTT
1 -TTTCTTTTTTCTT
18329955 GCATATTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 6 0.24
15 7 0.28
16 12 0.48
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTCTTTTTTCTTTC
Found at i:18330055 original size:27 final size:27
Alignment explanation
Indices: 18330014--18330083 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
18330004 TTACTTCAAA
18330014 CTTAACCCTTAACATAAGGCATTCTTT
1 CTTAACCCTTAACATAAGGCATTCTTT
*
18330041 CTTAACCCTTGACATAAGGCATTCTTT
1 CTTAACCCTTAACATAAGGCATTCTTT
18330068 CTTAACCCTTAACATA
1 CTTAACCCTTAACATA
18330084 GAATCCAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (27 bp):
CTTAACCCTTAACATAAGGCATTCTTT
Found at i:18332104 original size:18 final size:20
Alignment explanation
Indices: 18332067--18332109 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
18332057 AATTTAAATT
18332067 ACAAAAATTATCTAAACAAAA
1 ACAAAAATTATC-AAACAAAA
*
18332088 ACAAAAA-TATC-AACAAAT
1 ACAAAAATTATCAAACAAAA
18332106 ACAA
1 ACAA
18332110 TGTCAACCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 10 0.48
20 4 0.19
21 7 0.33
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.16
Consensus pattern (20 bp):
ACAAAAATTATCAAACAAAA
Found at i:18333129 original size:100 final size:100
Alignment explanation
Indices: 18332995--18333302 Score: 237
Period size: 100 Copynumber: 3.1 Consensus size: 100
18332985 AAATATTTAA
* * * *
18332995 TATTTATTTAAAAATCAATAAAATCTTTCAATAATTCGATAAG-TTATTATTTTGAGATTTAAAT
1 TATTTATTTAAAAATCAATAAAACCTTTCAATAATTCGATAAGATT-TAAATTTAAGATTTAAAT
*
18333059 C-TTCTAATAGCTTGGTAGGATTGAATTTTCAAAAATT
65 CATT-TAATAGCTTAGTAGGATT-AATTTTCAAAAATT
* * *
18333096 TATTT-TTTAAAAGATC-ATTAAACCTTATC-ATAATTTGATAAGATTTAAATTTAATATTTAAA
1 TATTTATTTAAAA-ATCAATAAAACCTT-TCAATAATTCGATAAGATTTAAATTTAAGATTTAAA
*
18333158 TCATTTAATAGTTTAGTAGGATTAA--TT-AAAAATTT
64 TCATTTAATAGCTTAGTAGGATTAATTTTCAAAAA-TT
* * ** * *
18333193 TAATTAATATCCTAAAAA--AATATTAAATC-TTCTAATTGTT-TAGTAAGATTT-AATTGTAAT
1 T-ATT--TAT-TTAAAAATCAATA--AAACCTTTC-AATAATTCGA-TAAGATTTAAATT-TAAG
* *
18333253 ATTTAAATCATTTAATAGGTTAGTAGGATTAAATTTCAAAAATT
57 ATTTAAATCATTTAATAGCTTAGTAGGATTAATTTTCAAAAATT
18333297 TATTTA
1 TATTTA
18333303 AACCCATGAA
Statistics
Matches: 171, Mismatches: 16, Indels: 40
0.75 0.07 0.18
Matches are distributed among these distances:
96 5 0.03
97 5 0.03
98 3 0.02
99 2 0.01
100 63 0.37
101 24 0.14
102 56 0.33
103 3 0.02
104 5 0.03
105 5 0.03
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.44
Consensus pattern (100 bp):
TATTTATTTAAAAATCAATAAAACCTTTCAATAATTCGATAAGATTTAAATTTAAGATTTAAATC
ATTTAATAGCTTAGTAGGATTAATTTTCAAAAATT
Found at i:18333276 original size:40 final size:39
Alignment explanation
Indices: 18333211--18333287 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
18333201 ATCCTAAAAA
* * *
18333211 AATATTAAATCTTCTAATTGTTTAGTAAGATTTAATTGT
1 AATATTAAATCTTCTAATAGGTTAGTAAGATTAAATTGT
*
18333250 AATATTTAAATCATT-TAATAGGTTAGTAGGATTAAATT
1 AATA-TTAAATC-TTCTAATAGGTTAGTAAGATTAAATT
18333288 TCAAAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 4 0.12
40 26 0.81
41 2 0.06
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (39 bp):
AATATTAAATCTTCTAATAGGTTAGTAAGATTAAATTGT
Found at i:18337486 original size:9 final size:9
Alignment explanation
Indices: 18337472--18337498 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
18337462 ATTACAAATG
18337472 CAAATAATC
1 CAAATAATC
18337481 CAAATAATC
1 CAAATAATC
18337490 CAAATAATC
1 CAAATAATC
18337499 ATTGAAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (9 bp):
CAAATAATC
Found at i:18341000 original size:18 final size:20
Alignment explanation
Indices: 18340963--18341005 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
18340953 AATTTAAATT
18340963 ACAAAAATTATCTAAACAAAA
1 ACAAAAATTATC-AAACAAAA
*
18340984 ACAAAAA-TATC-AACAAAT
1 ACAAAAATTATCAAACAAAA
18341002 ACAA
1 ACAA
18341006 GGTCAACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 10 0.48
20 4 0.19
21 7 0.33
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.16
Consensus pattern (20 bp):
ACAAAAATTATCAAACAAAA
Found at i:18342052 original size:13 final size:13
Alignment explanation
Indices: 18342034--18342058 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18342024 ATTAATTTGA
18342034 TAAGATTTAAATT
1 TAAGATTTAAATT
18342047 TAAGATTTAAAT
1 TAAGATTTAAAT
18342059 CATTTAATAG
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
TAAGATTTAAATT
Found at i:18343684 original size:24 final size:24
Alignment explanation
Indices: 18343666--18343713 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
18343656 AGGTTAGGCT
*
18343666 TTAGATTTAGTGTTTGGTTTAGGG
1 TTAGATTTAGGGTTTGGTTTAGGG
18343690 TTAGATTTAGGGTTTAGAGTTTAG
1 TTAGATTTAGGGTTT-G-GTTTAG
18343714 CTTTTGGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.67
25 1 0.05
26 6 0.29
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (24 bp):
TTAGATTTAGGGTTTGGTTTAGGG
Found at i:18343698 original size:12 final size:12
Alignment explanation
Indices: 18343666--18343713 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
18343656 AGGTTAGGCT
*
18343666 TTAGATTTAGTG
1 TTAGATTTAGGG
* *
18343678 TTTGGTTTAGGG
1 TTAGATTTAGGG
18343690 TTAGATTTAGGG
1 TTAGATTTAGGG
18343702 TTTAGAGTTTAG
1 -TTAGA-TTTAG
18343714 CTTTTGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 19 0.66
13 5 0.17
14 5 0.17
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (12 bp):
TTAGATTTAGGG
Found at i:18343776 original size:16 final size:16
Alignment explanation
Indices: 18343723--18343780 Score: 71
Period size: 17 Copynumber: 3.5 Consensus size: 16
18343713 GCTTTTGGAG
*
18343723 TTAGGGTTTTAAATGGT
1 TTAGGG-TTTAAGTGGT
* *
18343740 TTAGGGTTTCAGCTAGT
1 TTAGGGTTTAAG-TGGT
18343757 TTAGGGTTTAAGTGGT
1 TTAGGGTTTAAGTGGT
18343773 TTAGGGTT
1 TTAGGGTT
18343781 AACATTTAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
16 15 0.43
17 20 0.57
ACGTcount: A:0.19, C:0.03, G:0.33, T:0.45
Consensus pattern (16 bp):
TTAGGGTTTAAGTGGT
Found at i:18343797 original size:55 final size:55
Alignment explanation
Indices: 18343730--18343852 Score: 142
Period size: 55 Copynumber: 2.2 Consensus size: 55
18343720 GAGTTAGGGT
* * *
18343730 TTTAAATGGTTTA-GGGTTTCAGC-TAGTTTAGGGTTTAAGTGGTTTAGGGTTAACA
1 TTTAAGTGGTTTATGAGTTTCAGCAT-G-TTAGAGTTTAAGTGGTTTAGGGTTAACA
* * * **
18343785 TTTAAGTGGTTTATGATTTTGAGCATGTTAGAGTTTAGGTGGTTTAGGGTTAAGG
1 TTTAAGTGGTTTATGAGTTTCAGCATGTTAGAGTTTAAGTGGTTTAGGGTTAACA
18343840 TTTAAGTGGTTTA
1 TTTAAGTGGTTTA
18343853 AGATTTTAGT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
55 49 0.84
56 8 0.14
57 1 0.02
ACGTcount: A:0.23, C:0.03, G:0.30, T:0.44
Consensus pattern (55 bp):
TTTAAGTGGTTTATGAGTTTCAGCATGTTAGAGTTTAAGTGGTTTAGGGTTAACA
Found at i:18346266 original size:21 final size:22
Alignment explanation
Indices: 18346235--18346278 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
18346225 AATTTTGGAT
18346235 AAAAAATTTGAGGTGTTAATTG
1 AAAAAATTTGAGGTGTTAATTG
18346257 AAAAAA-TTGAGGTGTTAATTG
1 AAAAAATTTGAGGTGTTAATTG
18346278 A
1 A
18346279 CAACCTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.34
Consensus pattern (22 bp):
AAAAAATTTGAGGTGTTAATTG
Found at i:18346525 original size:19 final size:19
Alignment explanation
Indices: 18346503--18346549 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
18346493 AACTTATTCA
18346503 AAAATCTTTAAACATTTTG
1 AAAATCTTTAAACATTTTG
**
18346522 AAAAGTC-TTAAAGGTTTTG
1 AAAA-TCTTTAAACATTTTG
*
18346541 GAAATCTTT
1 AAAATCTTT
18346550 TTCCAAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 2 0.09
19 19 0.83
20 2 0.09
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (19 bp):
AAAATCTTTAAACATTTTG
Found at i:18353877 original size:23 final size:23
Alignment explanation
Indices: 18353845--18353900 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
18353835 ATAAAATATT
18353845 GAAAAGATAAAT-AATAAAAAAAAA
1 GAAAA-ATAAATAAAT-AAAAAAAA
*
18353869 GAAAAATAAATAAATAAACAAAA
1 GAAAAATAAATAAATAAAAAAAA
*
18353892 CAAAAATAA
1 GAAAAATAA
18353901 GAATAAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 21 0.72
24 8 0.28
ACGTcount: A:0.79, C:0.04, G:0.05, T:0.12
Consensus pattern (23 bp):
GAAAAATAAATAAATAAAAAAAA
Found at i:18354806 original size:20 final size:21
Alignment explanation
Indices: 18354768--18354808 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
18354758 TATTTTTTAT
* *
18354768 TTTAATATAATTTTTAATATA
1 TTTAATATAAATTTAAATATA
18354789 TTTAA-ATAAATTTAAATATA
1 TTTAATATAAATTTAAATATA
18354809 AAATGATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAATATAAATTTAAATATA
Found at i:18354837 original size:10 final size:10
Alignment explanation
Indices: 18354824--18354869 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
18354814 ATTATTTAAT
18354824 TTTATAAAAA
1 TTTATAAAAA
*
18354834 TTTA-AAATA
1 TTTATAAAAA
18354843 TTTATAAAAA
1 TTTATAAAAA
*
18354853 TTAATAAAAA
1 TTTATAAAAA
*
18354863 TATATAA
1 TTTATAA
18354870 TTTAATTTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
TTTATAAAAA
Found at i:18355476 original size:20 final size:21
Alignment explanation
Indices: 18355448--18355487 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
18355438 TTTTTGAAAA
*
18355448 AAAATTAAAATTTTAAAAATT
1 AAAATTAAAATTCTAAAAATT
18355469 AAAA-TAAAATTCTAAAAAT
1 AAAATTAAAATTCTAAAAAT
18355488 CTCCAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATTAAAATTCTAAAAATT
Found at i:18355622 original size:18 final size:18
Alignment explanation
Indices: 18355569--18355631 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
18355559 GAAAAATATG
*
18355569 AAAAATTTTAAAAAATTAA
1 AAAAATTTT-AAAAACTAA
*
18355588 GACAAAATTATAAAAACTAA
1 -A-AAAATTTTAAAAACTAA
*
18355608 AAAAATTTTAAAAACTGA
1 AAAAATTTTAAAAACTAA
18355626 AAAAAT
1 AAAAAT
18355632 AAAAAAAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 21 0.55
19 1 0.03
20 9 0.24
21 7 0.18
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAAATTTTAAAAACTAA
Found at i:18355716 original size:25 final size:24
Alignment explanation
Indices: 18355682--18355728 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
18355672 AAAATCTATG
*
18355682 AAAATTTTTAAAAATTTCAAAAAAA
1 AAAAATTTT-AAAATTTCAAAAAAA
*
18355707 AAAAATTTTAAAATTTTAAAAA
1 AAAAATTTTAAAATTTCAAAAA
18355729 TCCAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
AAAAATTTTAAAATTTCAAAAAAA
Found at i:18355823 original size:21 final size:22
Alignment explanation
Indices: 18355799--18355839 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18355789 TCCTTAAAAA
18355799 TTTT-AAAAAACTAAAAAAAGT
1 TTTTGAAAAAACTAAAAAAAGT
**
18355820 TTTTGAAAATTCTAAAAAAA
1 TTTTGAAAAAACTAAAAAAA
18355840 TTCAAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (22 bp):
TTTTGAAAAAACTAAAAAAAGT
Found at i:18356192 original size:26 final size:27
Alignment explanation
Indices: 18356156--18356206 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
18356146 TTTTTATTAA
*
18356156 AATTTTTAATTTTTT-GAGAATTTTAT
1 AATTTTCAATTTTTTGGAGAATTTTAT
*
18356182 AATTTTCAATTTTTTGGAGATTTTT
1 AATTTTCAATTTTTTGGAGAATTTT
18356207 TGGATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (27 bp):
AATTTTCAATTTTTTGGAGAATTTTAT
Found at i:18356385 original size:35 final size:33
Alignment explanation
Indices: 18356336--18356423 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 33
18356326 GTTTACTTTT
** * *
18356336 TTTTTTTTTCATTTTTAGTTTTTCTTGTTCTTGAA
1 TTTTTTTTGGATTTTTAATTTTTCTT-TT-TTCAA
18356371 TTTTTTTTGGATTTTTTTAATTTTTCTTTTTTCAA
1 TTTTTTTTGGA--TTTTTAATTTTTCTTTTTTCAA
18356406 -TTTTTTTGGAATTTTTAA
1 TTTTTTTTGG-ATTTTTAA
18356424 ATAATTTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
33 7 0.15
34 9 0.20
35 14 0.30
36 2 0.04
37 14 0.30
ACGTcount: A:0.15, C:0.06, G:0.08, T:0.72
Consensus pattern (33 bp):
TTTTTTTTGGATTTTTAATTTTTCTTTTTTCAA
Found at i:18356429 original size:37 final size:37
Alignment explanation
Indices: 18356354--18356432 Score: 92
Period size: 37 Copynumber: 2.1 Consensus size: 37
18356344 TCATTTTTAG
* *
18356354 TTTTTCTTGTTCTTGAATTTTTTTTGGATTTTTTTAA
1 TTTTTCTTGTTCTTCAATTTTTTTTGGATTTTTATAA
18356391 TTTTTCTT-TT-TTCAA-TTTTTTTGGAATTTTTAAATAA
1 TTTTTCTTGTTCTTCAATTTTTTTTGG-ATTTTT--ATAA
18356428 TTTTT
1 TTTTT
18356433 GGATTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
34 9 0.24
35 10 0.27
36 2 0.05
37 16 0.43
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.70
Consensus pattern (37 bp):
TTTTTCTTGTTCTTCAATTTTTTTTGGATTTTTATAA
Found at i:18356574 original size:21 final size:20
Alignment explanation
Indices: 18356542--18356589 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
18356532 TTTTATAATT
18356542 TTTTAGAATTTTCTTTTAAAAA
1 TTTTA-AATTTTCTTTT-AAAA
*
18356564 TTTTAAATTTT-TTTTAAAT
1 TTTTAAATTTTCTTTTAAAA
18356583 TTTTAAA
1 TTTTAAA
18356590 AATTTTCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 10 0.40
20 4 0.16
21 6 0.24
22 5 0.20
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTAAATTTTCTTTTAAAA
Found at i:18356580 original size:20 final size:22
Alignment explanation
Indices: 18356542--18356598 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
18356532 TTTTATAATT
18356542 TTTTAGAATTTTCTTTTAAAAA
1 TTTTAGAATTTTCTTTTAAAAA
*
18356564 TTTTA-AATTTT-TTTT-AAAT
1 TTTTAGAATTTTCTTTTAAAAA
*
18356583 TTTTAAAAATTTTCTT
1 TTTT-AGAATTTTCTT
18356599 CTATTACCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 7 0.23
20 5 0.16
21 12 0.39
22 7 0.23
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTTAGAATTTTCTTTTAAAAA
Found at i:18360437 original size:20 final size:20
Alignment explanation
Indices: 18360412--18360449 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18360402 TACAAACTGC
*
18360412 AAAAAAGAAAAAACCAACTA
1 AAAAAAAAAAAAACCAACTA
*
18360432 AAAAAAAAAAAAATCAAC
1 AAAAAAAAAAAAACCAAC
18360450 AACCCCATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.13, G:0.03, T:0.05
Consensus pattern (20 bp):
AAAAAAAAAAAAACCAACTA
Found at i:18362986 original size:25 final size:24
Alignment explanation
Indices: 18362958--18363008 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
18362948 CGTATTTGAT
18362958 ATATAAAACGATAAAAATTATTAAA
1 ATATAAAACGATAAAAATTA-TAAA
* *
18362983 ATATAACACGATACAAATTATAAA
1 ATATAAAACGATAAAAATTATAAA
18363007 AT
1 AT
18363009 GTATTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (24 bp):
ATATAAAACGATAAAAATTATAAA
Found at i:18363177 original size:37 final size:37
Alignment explanation
Indices: 18363131--18363203 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
18363121 AATAATACGG
* * *
18363131 ATATATATGAACATATATGACTAACACACATATATAT
1 ATATATATGAACAGACATGACTAACACAAATATATAT
* *
18363168 ATATATATGAATAGACATGACTAACATAAATATATA
1 ATATATATGAACAGACATGACTAACACAAATATATA
18363204 CAAGAACATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.32
Consensus pattern (37 bp):
ATATATATGAACAGACATGACTAACACAAATATATAT
Found at i:18367066 original size:144 final size:144
Alignment explanation
Indices: 18366822--18367093 Score: 359
Period size: 144 Copynumber: 1.9 Consensus size: 144
18366812 TTAGCCTTCC
* * *
18366822 CAAGCTCAGATTTTTATGAAACTTTTCAGATATTAATTTCATAATATTTCATGATTTTTGGTGTA
1 CAAGCTCAGATTTTCATGAAAATTTTCAGATATTAATTTCATAATATTTCATGATTTTTGGTGCA
* *
18366887 TTTAAAATCATAACAGTACCCAAAAAATGTAAAATTATCAAAATAAACCTATAAGGGTATTTTTG
66 TTTAAAATCATAACAGTACCCAAAAAATGTAAAATTACCAAAATAAACCTATAAGGATATTTTTG
18366952 TAATTTGACTTTTT
131 TAATTTGACTTTTT
* * *
18366966 CAAGCTC-GAATTTTCATGAAAATTTTTAGATTTTAGTTTCATAATATTTCAT-ATTTTTGGTGC
1 CAAGCTCAG-ATTTTCATGAAAATTTTCAGATATTAATTTCATAATATTTCATGATTTTTGGTGC
* ** * * * * * *
18367029 ATTTGAAATCATAGTAGTATCTCAAGAAGTGTGAAATTACCAAAATACACTTATAAGGATATTTT
65 ATTTAAAATCATAACAGTA-CCCAAAAAATGTAAAATTACCAAAATAAACCTATAAGGATATTTT
18367094 CCTAAATTTT
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
143 27 0.25
144 82 0.75
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (144 bp):
CAAGCTCAGATTTTCATGAAAATTTTCAGATATTAATTTCATAATATTTCATGATTTTTGGTGCA
TTTAAAATCATAACAGTACCCAAAAAATGTAAAATTACCAAAATAAACCTATAAGGATATTTTTG
TAATTTGACTTTTT
Found at i:18367721 original size:14 final size:14
Alignment explanation
Indices: 18367702--18367734 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18367692 AAAAGGTTAG
18367702 AAGAAAGAAGAAAA-
1 AAGAAA-AAGAAAAT
18367716 AAGAAAAAGAAAAT
1 AAGAAAAAGAAAAT
18367730 AAGAA
1 AAGAA
18367735 GAGTCTGCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (14 bp):
AAGAAAAAGAAAAT
Found at i:18383751 original size:21 final size:21
Alignment explanation
Indices: 18383727--18383768 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
18383717 TTGATCTTGG
18383727 AAATTTAACGAAGGTTTCCCA
1 AAATTTAACGAAGGTTTCCCA
*
18383748 AAATTTGACGAAGGTTTCCCA
1 AAATTTAACGAAGGTTTCCCA
18383769 TATAGCTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (21 bp):
AAATTTAACGAAGGTTTCCCA
Found at i:18384681 original size:17 final size:17
Alignment explanation
Indices: 18384652--18384684 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18384642 TTCAATCATT
18384652 AATATTTTATAAAAATA
1 AATATTTTATAAAAATA
18384669 AATATCTTT-TAAAAAT
1 AATAT-TTTATAAAAAT
18384685 CAATTTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
AATATTTTATAAAAATA
Found at i:18384776 original size:19 final size:19
Alignment explanation
Indices: 18384729--18384776 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
18384719 ATTTTAATAT
18384729 ATTTATTATTAAAATTTAAA
1 ATTTATTA-TAAAATTTAAA
*
18384749 ATTTTTTATAAAA-TTAAA
1 ATTTATTATAAAATTTAAA
*
18384767 GTTGTATTAT
1 ATT-TATTAT
18384777 TTTTAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 7 0.29
19 10 0.42
20 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (19 bp):
ATTTATTATAAAATTTAAA
Found at i:18384817 original size:21 final size:18
Alignment explanation
Indices: 18384781--18384832 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 18
18384771 TATTATTTTT
*
18384781 AATATTAAAAAATTTTAAA
1 AATATAAAAAAATTTT-AA
18384800 AATCATAAAAATAATTTTAA
1 AAT-ATAAAAA-AATTTTAA
18384820 AATATAAAAAAAT
1 AATATAAAAAAAT
18384833 AAAACTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 3 0.10
19 10 0.33
20 11 0.37
21 6 0.20
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AATATAAAAAAATTTTAA
Found at i:18384833 original size:21 final size:21
Alignment explanation
Indices: 18384787--18384834 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
18384777 TTTTAATATT
*
18384787 AAAA-AATTTTAAAAATCATA
1 AAAATAATTTTAAAAATCAAA
18384807 AAAATAATTTTAAAATAT-AAA
1 AAAATAATTTTAAAA-ATCAAA
18384828 AAAATAA
1 AAAATAA
18384835 AACTTTTAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 4 0.16
21 19 0.76
22 2 0.08
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATAATTTTAAAAATCAAA
Found at i:18386424 original size:14 final size:14
Alignment explanation
Indices: 18386382--18386425 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
18386372 GTAATTTTTT
18386382 ATAAATATATATTA
1 ATAAATATATATTA
* * *
18386396 ATATATATTTTTTA
1 ATAAATATATATTA
*
18386410 ATAAAAATATATTA
1 ATAAATATATATTA
18386424 AT
1 AT
18386426 TTTAATTAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAAATATATATTA
Found at i:18386952 original size:39 final size:39
Alignment explanation
Indices: 18386909--18386983 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
18386899 GGTAGTATCC
* *
18386909 GTGGGCATGTTGGGCATTTGCCGTATTGGTATAGTCTCT
1 GTGGGCATGTCGGGCATTTGACGTATTGGTATAGTCTCT
**
18386948 GTGGGTGTGTCGGGCATTTGACGTATTGGTATAGTC
1 GTGGGCATGTCGGGCATTTGACGTATTGGTATAGTC
18386984 CATTTCCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.13, C:0.13, G:0.36, T:0.37
Consensus pattern (39 bp):
GTGGGCATGTCGGGCATTTGACGTATTGGTATAGTCTCT
Found at i:18389249 original size:21 final size:21
Alignment explanation
Indices: 18389207--18389260 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
18389197 GATGAGAAAA
*
18389207 ATGAGGTTAGTGGAGACAGTG
1 ATGAGGTTAGTGGACACAGTG
* **
18389228 ATGAGGTTAGTGTACATTGTG
1 ATGAGGTTAGTGGACACAGTG
*
18389249 ATGAGGATAGTG
1 ATGAGGTTAGTG
18389261 ATGGGGATGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.04, G:0.39, T:0.30
Consensus pattern (21 bp):
ATGAGGTTAGTGGACACAGTG
Found at i:18399589 original size:18 final size:19
Alignment explanation
Indices: 18399563--18399602 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
18399553 GAATAACAGC
*
18399563 AAACAAAAAAGCTTAA-AA
1 AAACAAAAAAGCATAATAA
*
18399581 AAACTAAAAAGCATAATAA
1 AAACAAAAAAGCATAATAA
18399600 AAA
1 AAA
18399603 AATTAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.72, C:0.10, G:0.05, T:0.12
Consensus pattern (19 bp):
AAACAAAAAAGCATAATAA
Found at i:18404907 original size:22 final size:22
Alignment explanation
Indices: 18404857--18404908 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
18404847 AAAATACTAC
* *
18404857 AAATATAACTATATTTTAATCA
1 AAATATGACAATATTTTAATCA
*
18404879 AAATATGACAATATTTTAGTCA
1 AAATATGACAATATTTTAATCA
18404901 AAATATGA
1 AAATATGA
18404909 TTAGGCTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.37
Consensus pattern (22 bp):
AAATATGACAATATTTTAATCA
Found at i:18411046 original size:58 final size:58
Alignment explanation
Indices: 18410976--18411092 Score: 198
Period size: 58 Copynumber: 2.0 Consensus size: 58
18410966 ATATTTGAAG
*
18410976 TCATATCATTTTTTGGTGGTAATATTCGAGGTTTAAAAAATCTTAAAAATTAAATGTT
1 TCATATCATTTTTTGATGGTAATATTCGAGGTTTAAAAAATCTTAAAAATTAAATGTT
* * *
18411034 TCATATCATTTTTTTATGGTAATATTTGAGGTTTAAAAAATCTTAAAAATTGAATGTT
1 TCATATCATTTTTTGATGGTAATATTCGAGGTTTAAAAAATCTTAAAAATTAAATGTT
18411092 T
1 T
18411093 TATTTTTTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.45
Consensus pattern (58 bp):
TCATATCATTTTTTGATGGTAATATTCGAGGTTTAAAAAATCTTAAAAATTAAATGTT
Found at i:18411598 original size:46 final size:46
Alignment explanation
Indices: 18411483--18411629 Score: 181
Period size: 46 Copynumber: 3.2 Consensus size: 46
18411473 TATTTTAAAA
*
18411483 TTTC-AAAGTTGTGAAACCTTTAATGAAATAAGCTTTTAGATTTAT
1 TTTCAAAAGTTGTGAAACCTTTAATGAAATGAGCTTTTAGATTTAT
* * * *
18411528 TTT-TAAAGTTGTGAAACCTCTAATGAGATGAGCTATTAGATTTAT
1 TTTCAAAAGTTGTGAAACCTTTAATGAAATGAGCTTTTAGATTTAT
* * * * * *
18411573 TTTCAAAAGTTGTGAAGCTTTTAATGATAGGAGTTTTTAAATTTAT
1 TTTCAAAAGTTGTGAAACCTTTAATGAAATGAGCTTTTAGATTTAT
18411619 TTTCAAAAGTT
1 TTTCAAAAGTT
18411630 ATAAACCCCT
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
45 43 0.49
46 44 0.51
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (46 bp):
TTTCAAAAGTTGTGAAACCTTTAATGAAATGAGCTTTTAGATTTAT
Found at i:18411691 original size:13 final size:13
Alignment explanation
Indices: 18411668--18411717 Score: 64
Period size: 13 Copynumber: 3.7 Consensus size: 13
18411658 AGAATTCAAA
18411668 AAAATTCAAAAAAT
1 AAAA-TCAAAAAAT
18411682 AAAATCAAAAAAT
1 AAAATCAAAAAAT
*
18411695 AAAATAAAATAAAT
1 AAAATCAAA-AAAT
*
18411709 AAAAACAAA
1 AAAATCAAA
18411718 GTTAAAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
13 17 0.53
14 15 0.47
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATCAAAAAAT
Found at i:18412025 original size:15 final size:15
Alignment explanation
Indices: 18411997--18412026 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18411987 CACAAATTAG
*
18411997 GCTTGGTTTAATTTA
1 GCTTGGCTTAATTTA
18412012 GCTTGGCTTAATTTA
1 GCTTGGCTTAATTTA
18412027 AGATTAGGTT
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:0.20, C:0.10, G:0.20, T:0.50
Consensus pattern (15 bp):
GCTTGGCTTAATTTA
Found at i:18418216 original size:13 final size:14
Alignment explanation
Indices: 18418188--18418227 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
18418178 CTTTAGTTTA
*
18418188 AAAAAATAAAGTAT
1 AAAAAATAAAGAAT
18418202 AAAAAATAAA-AAT
1 AAAAAATAAAGAAT
18418215 AAAAAATAAAGAA
1 AAAAAATAAAGAA
18418228 ACTTAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (14 bp):
AAAAAATAAAGAAT
Found at i:18422966 original size:25 final size:25
Alignment explanation
Indices: 18422938--18422987 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
18422928 ATAATAACTA
*
18422938 TCAAATGGTAAAATTTT-TAGAAATT
1 TCAAATAGTAAAATTTTATA-AAATT
18422963 TCAAATAGTAAAATTTTATAAAATT
1 TCAAATAGTAAAATTTTATAAAATT
18422988 CCTAGGTGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (25 bp):
TCAAATAGTAAAATTTTATAAAATT
Found at i:18423169 original size:26 final size:26
Alignment explanation
Indices: 18423140--18423196 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
18423130 AAGGATGAGA
18423140 TTCTTAGAAAT-TTTAAATGATAAATT
1 TTCTTAGAAATCTTTAAATGA-AAATT
* **
18423166 TTCTAAGAAATCTTTAGGTGAAAATT
1 TTCTTAGAAATCTTTAAATGAAAATT
18423192 TTCTT
1 TTCTT
18423197 TAAATTTGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.46
Consensus pattern (26 bp):
TTCTTAGAAATCTTTAAATGAAAATT
Found at i:18423299 original size:17 final size:17
Alignment explanation
Indices: 18423277--18423309 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18423267 TTCTGAAAAC
*
18423277 AAAAAAGAAACAAGAAG
1 AAAAAAGAAAAAAGAAG
18423294 AAAAAAGAAAAAAGAA
1 AAAAAAGAAAAAAGAA
18423310 TTTCTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAAAGAAG
Found at i:18427033 original size:11 final size:11
Alignment explanation
Indices: 18427009--18427063 Score: 51
Period size: 11 Copynumber: 4.8 Consensus size: 11
18426999 AAAAGGTCTT
18427009 AAAGATAAAA-A
1 AAAGA-AAAAGA
18427020 AAAGAAAAAGA
1 AAAGAAAAAGA
*
18427031 AAAGCAAAATGA
1 AAAG-AAAAAGA
18427043 AGGAA-AAAAAGA
1 A--AAGAAAAAGA
18427055 AAAGAAAAA
1 AAAGAAAAA
18427064 TGCCACACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 6 0.16
11 15 0.41
12 14 0.38
14 2 0.05
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:18427465 original size:33 final size:33
Alignment explanation
Indices: 18427419--18427538 Score: 113
Period size: 33 Copynumber: 3.6 Consensus size: 33
18427409 AATGGATGGA
*
18427419 AAAAAGAGGAAAAAAGAAAGAAGAAAAAAAGTG
1 AAAAAGAGAAAAAAAGAAAGAAGAAAAAAAGTG
* *
18427452 AAAAAGTGAAAAAAAAAAAG-AGAAAAAAA-TGG
1 AAAAAGAGAAAAAAAGAAAGAAGAAAAAAAGT-G
* *
18427484 AAAAAAAAGAAAAATGAA-AAAGAAAAAAAAAAGATG
1 -AAAAAGAGAAAAA--AAGAAAGAAGAAAAAAAG-TG
*
18427520 AAAAAGAG-AGAAAAGAAAG
1 AAAAAGAGAAAAAAAGAAAG
18427539 GCTCAAATTG
Statistics
Matches: 71, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
31 1 0.01
32 12 0.17
33 32 0.45
34 7 0.10
35 17 0.24
36 1 0.01
37 1 0.01
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (33 bp):
AAAAAGAGAAAAAAAGAAAGAAGAAAAAAAGTG
Found at i:18427471 original size:14 final size:14
Alignment explanation
Indices: 18427418--18427480 Score: 56
Period size: 14 Copynumber: 4.1 Consensus size: 14
18427408 TAATGGATGG
18427418 AAAAAAGAGGAAAAA
1 AAAAAAGA-GAAAAA
18427433 AGAAAGAAGA-AAAAA
1 A-AAA-AAGAGAAAAA
*
18427448 AGTGAAAAAGTGAAAAA
1 A---AAAAAGAGAAAAA
18427465 AAAAAAGAGAAAAA
1 AAAAAAGAGAAAAA
18427479 AA
1 AA
18427481 TGGAAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
14 14 0.34
15 7 0.17
16 6 0.15
17 14 0.34
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (14 bp):
AAAAAAGAGAAAAA
Found at i:18427486 original size:24 final size:23
Alignment explanation
Indices: 18427418--18427524 Score: 73
Period size: 24 Copynumber: 4.6 Consensus size: 23
18427408 TAATGGATGG
*
18427418 AAAAAAGAGGAAAAAA-GAAAGAAGA
1 AAAAAAGA-GAAAAAATGGAA-AA-A
* *
18427443 AAAAAAGTGAAAAAGT-GAAAAA
1 AAAAAAGAGAAAAAATGGAAAAA
18427465 AAAAAAGAGAAAAAAATGGAAAAA
1 AAAAAAGAG-AAAAAATGGAAAAA
*
18427489 AAAGAAAAATG-AAAAA--G-AAAA
1 AAA-AAAGA-GAAAAAATGGAAAAA
18427510 AAAAAAGATGAAAAA
1 AAAAAAGA-GAAAAA
18427525 GAGAGAAAAG
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
20 6 0.09
21 11 0.16
22 10 0.14
23 8 0.12
24 22 0.32
25 11 0.16
26 1 0.01
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.05
Consensus pattern (23 bp):
AAAAAAGAGAAAAAATGGAAAAA
Found at i:18427531 original size:24 final size:24
Alignment explanation
Indices: 18427418--18427533 Score: 86
Period size: 22 Copynumber: 5.0 Consensus size: 24
18427408 TAATGGATGG
* * *
18427418 AAAAAAGAGGAAAAAAGAAAGAAGA
1 AAAAAAGATG-AAAAAGAGAGAAAA
*
18427443 AAAAAAG-TGAAAAAGTGA-AAAA
1 AAAAAAGATGAAAAAGAGAGAAAA
*
18427465 AAAAAAGA-GAAAAAAATG-GAAAAA
1 AAAAAAGATGAAAAAGA-GAG-AAAA
*
18427489 AAAGAAAAATG--AAA-A-AGAAAA
1 AAA-AAAGATGAAAAAGAGAGAAAA
18427510 AAAAAAGATGAAAAAGAGAGAAAA
1 AAAAAAGATGAAAAAGAGAGAAAA
18427534 GAAAGGCTCA
Statistics
Matches: 72, Mismatches: 8, Indels: 23
0.70 0.08 0.22
Matches are distributed among these distances:
20 6 0.08
21 7 0.10
22 20 0.28
23 10 0.14
24 17 0.24
25 11 0.15
26 1 0.01
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (24 bp):
AAAAAAGATGAAAAAGAGAGAAAA
Found at i:18427533 original size:20 final size:19
Alignment explanation
Indices: 18427464--18427533 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
18427454 AAAGTGAAAA
*
18427464 AAAAAAAGAGAAAAAAATGG
1 AAAAAGAGAGAAAAAAAT-G
*
18427484 AAAAA-A-A-AGAAAAATG
1 AAAAAGAGAGAAAAAAATG
* *
18427500 AAAAAGAAAAAAAAAAGATG
1 AAAAAGAGAGAAAAAA-ATG
18427520 AAAAAGAGAGAAAA
1 AAAAAGAGAGAAAA
18427534 GAAAGGCTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
16 6 0.14
17 8 0.19
18 2 0.05
19 6 0.14
20 20 0.48
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (19 bp):
AAAAAGAGAGAAAAAAATG
Found at i:18427533 original size:46 final size:46
Alignment explanation
Indices: 18427418--18427538 Score: 126
Period size: 46 Copynumber: 2.6 Consensus size: 46
18427408 TAATGGATGG
*
18427418 AAAAAAGAGGAAAAAAGA-AAGAAGAAA-AAAAGTGAAAAAGTGAAAAA
1 AAAAAAGA-GAAAAAAGAGAA-AAGAAAGAAAAATGAAAAAG-GAAAAA
*
18427465 AAAAAAGAGAAAAAA-ATGGAAAAAAAAGAAAAATGAAAAA-G-AAAA
1 AAAAAAGAGAAAAAAGA--GAAAAGAAAGAAAAATGAAAAAGGAAAAA
18427510 AAAAAAGATGAAAAAGAGAGAAAAGAAAG
1 AAAAAAGA-GAAAAA-AGAGAAAAGAAAG
18427539 GCTCAAATTG
Statistics
Matches: 64, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
45 13 0.20
46 23 0.36
47 14 0.22
48 14 0.22
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (46 bp):
AAAAAAGAGAAAAAAGAGAAAAGAAAGAAAAATGAAAAAGGAAAAA
Found at i:18429020 original size:41 final size:41
Alignment explanation
Indices: 18428963--18429143 Score: 213
Period size: 41 Copynumber: 4.4 Consensus size: 41
18428953 CGTCAATGAG
* * *
18428963 CATTTTATTTTTCAAAGTTGTGGTGCTTCTGTTTAGAGGAA
1 CATTTTATTTTTCAAAGTTGTGGTGCCTCTATTTAAAGGAA
*
18429004 CATTTTATTTTTCAAAGTTGTGGTGCCTCTATTTAAAGGAG
1 CATTTTATTTTTCAAAGTTGTGGTGCCTCTATTTAAAGGAA
* ** *
18429045 CAGTTTATTTTTCAAAGTTACGGTGCCTCTATTTAAAGGAG
1 CATTTTATTTTTCAAAGTTGTGGTGCCTCTATTTAAAGGAA
* * *
18429086 CATTTTATTTTTTAAAAAGTTGTGGTACCTCTGTTTAAA-GAA
1 CATTTTA-TTTTT-CAAAGTTGTGGTGCCTCTATTTAAAGGAA
*
18429128 GCCTTTTA-TTTTCAAA
1 -CATTTTATTTTTCAAA
18429144 AGTCATTGAG
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 3 0.02
41 85 0.70
42 7 0.06
43 26 0.21
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (41 bp):
CATTTTATTTTTCAAAGTTGTGGTGCCTCTATTTAAAGGAA
Found at i:18429097 original size:82 final size:84
Alignment explanation
Indices: 18428960--18429143 Score: 239
Period size: 82 Copynumber: 2.2 Consensus size: 84
18428950 GATCGTCAAT
** * * * *
18428960 GAGCATTTTATTTTTCAAAGTTGTGGTGCTTCTGTTTAGAGGAACATTTTA-TTTTT-CAAAGTT
1 GAGCATTTTATTTTTCAAAGTTACGGTGCCTCTATTTAAAGGAACATTTTATTTTTTAAAAAGTT
*
18429023 GTGGTGCCTCTATTTAAAG
66 GTGGTACCTCTATTTAAAG
* *
18429042 GAGCAGTTTATTTTTCAAAGTTACGGTGCCTCTATTTAAAGGAGCATTTTATTTTTTAAAAAGTT
1 GAGCATTTTATTTTTCAAAGTTACGGTGCCTCTATTTAAAGGAACATTTTATTTTTTAAAAAGTT
*
18429107 GTGGTACCTCTGTTTAAAG
66 GTGGTACCTCTATTTAAAG
* *
18429126 AAGCCTTTTA-TTTTCAAA
1 GAGCATTTTATTTTTCAAA
18429144 AGTCATTGAG
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
82 44 0.51
83 13 0.15
84 30 0.34
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.43
Consensus pattern (84 bp):
GAGCATTTTATTTTTCAAAGTTACGGTGCCTCTATTTAAAGGAACATTTTATTTTTTAAAAAGTT
GTGGTACCTCTATTTAAAG
Found at i:18429170 original size:84 final size:82
Alignment explanation
Indices: 18428961--18429170 Score: 206
Period size: 84 Copynumber: 2.5 Consensus size: 82
18428951 ATCGTCAATG
* *** * * * * *
18428961 AGCATTTTATTTTTCAAAGTTGTGGTGCTTCTGTTTAGAGGAACATTTTATTTTTCAAAGTTGTG
1 AGCAGTTTATTTTTCAAAGTCACGGAGCCTCTATTTAGAGGAGCATTTTATTTTTAAAAGTTGTG
* *
18429026 GTGCCTCTATTTAAAGG
66 GTACCTCTATTTAAAGA
* * *
18429043 AGCAGTTTATTTTTCAAAGTTACGGTGCCTCTATTTAAAGGAGCATTTTATTTTTTAAAAAGTTG
1 AGCAGTTTATTTTTCAAAGTCACGGAGCCTCTATTTAGAGGAGCATTTTA-TTTTT-AAAAGTTG
*
18429108 TGGTACCTCTGTTTAAAGA
64 TGGTACCTCTATTTAAAGA
** ** *
18429127 AGCCTTTTA-TTTTCAAAAGTCATTGAGCCTCTATTTAGGGGAGC
1 AGCAGTTTATTTTTC-AAAGTCACGGAGCCTCTATTTAGAGGAGC
18429171 TTTGTGTACT
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
82 43 0.41
83 10 0.09
84 53 0.50
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.42
Consensus pattern (82 bp):
AGCAGTTTATTTTTCAAAGTCACGGAGCCTCTATTTAGAGGAGCATTTTATTTTTAAAAGTTGTG
GTACCTCTATTTAAAGA
Found at i:18429333 original size:7 final size:8
Alignment explanation
Indices: 18429317--18429360 Score: 52
Period size: 8 Copynumber: 5.1 Consensus size: 8
18429307 TAATTTTGTT
18429317 AATAAAAA
1 AATAAAAA
18429325 AATAAAAA
1 AATAAAAA
18429333 AATAAAAA
1 AATAAAAA
*
18429341 AGCTACAAAA
1 A-ATA-AAAA
18429351 AATGAAAAA
1 AAT-AAAAA
18429360 A
1 A
18429361 CAGGTAGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 17 0.55
9 8 0.26
10 6 0.19
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.11
Consensus pattern (8 bp):
AATAAAAA
Found at i:18430607 original size:189 final size:188
Alignment explanation
Indices: 18430263--18430612 Score: 426
Period size: 189 Copynumber: 1.9 Consensus size: 188
18430253 AATAAATAAT
* *
18430263 AATTATCCAATGATGGAATGTTTAGAAATTTCAAATGATAAATTTTTATAAAATTCCTAGGTGAG
1 AATTATCCAATGATGGAATGTTTAAAAATTTCAAATGATAAATTTTTAAAAAATTCCTAGGTGAG
* * * * *
18430328 AAATTTTGTCTAAATTTATCCCAAATGGTAGAATAATTTAGATAAAGTTTCAATAACAATAATTA
66 AAATTTTCTCTAAATTTATCCCAAATAGTAGAAGAATTTAAATAAAGTTTCAATAAAAATAATTA
18430393 ATATTTATTTTCAATCCAAAAAAATAAAAAATAAAAAATTTTGGATGAAAATATTTGAC
131 ATATTTATTTTCAATCC-AAAAAATAAAAAATAAAAAATTTTGGATGAAAATATTTGAC
* * *
18430452 AATTATTCAATGAT-GAGAT-TCTTAAAAATTTTAAATGGTAAATTTTTTAAAAAA-TCTCTAGG
1 AATTATCCAATGATGGA-ATGT-TTAAAAATTTCAAATGATAAA-TTTTTAAAAAATTC-CTAGG
* * *
18430514 TGA-AAATTTTCTTTAAATTTATCCCAAATAGTGGAAGAATTTAAAT-GAGATTTCAATAAAAAA
62 TGAGAAATTTTCTCTAAATTTATCCCAAATAGTAGAAGAATTTAAATAAAG-TTTCAAT-AAAAA
* **
18430577 TAATT-GTCATATTATTTTCTTTCC-AAAAATAAAAAA
125 TAATTAAT-AT-TTATTTTCAATCCAAAAAATAAAAAA
18430613 ATAAGAAGAA
Statistics
Matches: 137, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
188 5 0.04
189 92 0.67
190 29 0.21
191 11 0.08
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (188 bp):
AATTATCCAATGATGGAATGTTTAAAAATTTCAAATGATAAATTTTTAAAAAATTCCTAGGTGAG
AAATTTTCTCTAAATTTATCCCAAATAGTAGAAGAATTTAAATAAAGTTTCAATAAAAATAATTA
ATATTTATTTTCAATCCAAAAAATAAAAAATAAAAAATTTTGGATGAAAATATTTGAC
Found at i:18432300 original size:4 final size:4
Alignment explanation
Indices: 18432285--18432365 Score: 58
Period size: 4 Copynumber: 20.8 Consensus size: 4
18432275 TTTCATCGAT
* ** * * * *
18432285 TAAA TCAA TAAA TAAA TAGG TAAA AAAA TAAA TCAA -AAT TAAA AAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
* * *
18432332 T-AA TGAA TAAA TAAA TAAA TATA GAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
18432366 GTATGAAAAC
Statistics
Matches: 56, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
3 4 0.07
4 52 0.93
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:18432314 original size:20 final size:19
Alignment explanation
Indices: 18432291--18432334 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
18432281 CGATTAAATC
18432291 AATAAAT-AAATAGGTAAAAA
1 AATAAATCAAA-A-GTAAAAA
*
18432311 AATAAATCAAAATTAAAAA
1 AATAAATCAAAAGTAAAAA
18432330 AATAA
1 AATAA
18432335 TGAATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 11 0.50
20 8 0.36
21 3 0.14
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (19 bp):
AATAAATCAAAAGTAAAAA
Found at i:18432346 original size:19 final size:19
Alignment explanation
Indices: 18432305--18432365 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
18432295 AATAAATAGG
* *
18432305 TAAAAAAATAAATCAA-AAT
1 TAAAAAAAT-AATGAATAAA
18432324 TAAAAAAATAATGAATAAA
1 TAAAAAAATAATGAATAAA
*
18432343 TAAATAAAT-ATAGAAATAAA
1 TAAAAAAATAAT-G-AATAAA
18432363 TAA
1 TAA
18432366 GTATGAAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 7 0.19
19 20 0.56
20 9 0.25
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (19 bp):
TAAAAAAATAATGAATAAA
Found at i:18433450 original size:24 final size:23
Alignment explanation
Indices: 18433423--18433549 Score: 82
Period size: 22 Copynumber: 5.6 Consensus size: 23
18433413 AAATATGAGT
18433423 TACTTAGAGGTTTTCAAAGAAAGA
1 TACTTAGAGGTTTT-AAAGAAAGA
* * *
18433447 TACTTGGAGGTTTCAAAGATA-A
1 TACTTAGAGGTTTTAAAGAAAGA
* * * *
18433469 TACATGGAGATTTTAAA-AATGA
1 TACTTAGAGGTTTTAAAGAAAGA
* ** *
18433491 CACCCAGAGGTTTTAAAG-ATG-
1 TACTTAGAGGTTTTAAAGAAAGA
* *
18433512 TACTTAGAAGTTTTAAAAAAGAGA
1 TACTTAGAGGTTTTAAAGAA-AGA
*
18433536 TACATAGAGGTTTT
1 TACTTAGAGGTTTT
18433550 TTTTTTTTTT
Statistics
Matches: 77, Mismatches: 21, Indels: 10
0.71 0.19 0.09
Matches are distributed among these distances:
21 14 0.18
22 32 0.42
23 7 0.09
24 24 0.31
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (23 bp):
TACTTAGAGGTTTTAAAGAAAGA
Found at i:18433476 original size:22 final size:24
Alignment explanation
Indices: 18433429--18433482 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
18433419 GAGTTACTTA
*
18433429 GAGGTTTTCAAAGAAAGATACTTG
1 GAGGTTTTCAAAGAAAGATACATG
*
18433453 GAGG-TTTCAAAGATA-ATACATG
1 GAGGTTTTCAAAGAAAGATACATG
*
18433475 GAGATTTT
1 GAGGTTTT
18433483 AAAAATGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 9 0.35
23 13 0.50
24 4 0.15
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.31
Consensus pattern (24 bp):
GAGGTTTTCAAAGAAAGATACATG
Found at i:18433605 original size:22 final size:22
Alignment explanation
Indices: 18433579--18433681 Score: 84
Period size: 22 Copynumber: 4.7 Consensus size: 22
18433569 TTACTCATAA
18433579 GTTTTAAAAAAGATA-TTGAAG
1 GTTTTAAAAAAGATACTTGAAG
* * * **
18433600 GTTTTTAGAGATGATACTCAAAG
1 G-TTTTAAAAAAGATACTTGAAG
* *
18433623 GTTTTCAAAAAGATACTT-AAT
1 GTTTTAAAAAAGATACTTGAAG
* *
18433644 GTTTTAAAAATGATACCTGAAG
1 GTTTTAAAAAAGATACTTGAAG
*
18433666 GTTTTTGAAAAAGATA
1 G-TTTTAAAAAAGATA
18433682 TTCAAAAGTT
Statistics
Matches: 61, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
21 18 0.30
22 26 0.43
23 17 0.28
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (22 bp):
GTTTTAAAAAAGATACTTGAAG
Found at i:18433747 original size:22 final size:21
Alignment explanation
Indices: 18433708--18433766 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
18433698 GATTACATAT
18433708 AGGTTTTATA-ATTCATGCCCTG
1 AGGTTTTATAGATT-ATG-CCTG
*
18433730 AGGTTTTTTAGATTATGCCTG
1 AGGTTTTATAGATTATGCCTG
* *
18433751 AAGTCTTATAGATTAT
1 AGGTTTTATAGATTAT
18433767 TTTTATCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 17 0.53
22 12 0.38
23 3 0.09
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (21 bp):
AGGTTTTATAGATTATGCCTG
Found at i:18434438 original size:11 final size:11
Alignment explanation
Indices: 18434422--18434486 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 11
18434412 AAAATTAAAA
*
18434422 AATAATATAGT
1 AATAATATAAT
18434433 AATAATATAAT
1 AATAATATAAT
18434444 AATAATAATAAAT
1 AATAAT-AT-AAT
18434457 AAATAA-ATAAAT
1 -AATAATAT-AAT
*
18434469 AAATAATAGTAAA
1 -AATAATA-TAAT
18434482 AATAA
1 AATAA
18434487 AACATGTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
11 16 0.34
12 19 0.40
13 6 0.13
14 6 0.13
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
AATAATATAAT
Found at i:18434443 original size:8 final size:7
Alignment explanation
Indices: 18434433--18434476 Score: 54
Period size: 8 Copynumber: 6.0 Consensus size: 7
18434423 ATAATATAGT
18434433 AATAATA
1 AATAATA
18434440 TAATAAT-
1 -AATAATA
18434447 AATAATA
1 AATAATA
18434454 AATAAATA
1 AAT-AATA
18434462 AATAAATA
1 AAT-AATA
18434470 AATAATA
1 AATAATA
18434477 GTAAAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.18
7 7 0.21
8 21 0.62
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:18434459 original size:4 final size:4
Alignment explanation
Indices: 18434450--18434474 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
18434440 TAATAATAAT
18434450 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
18434475 TAGTAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:18434487 original size:32 final size:32
Alignment explanation
Indices: 18434395--18434488 Score: 93
Period size: 36 Copynumber: 2.8 Consensus size: 32
18434385 AAAAGACCAT
18434395 TAAAGTAAATAA-AATTAAAAATTAAAAAATAATA
1 TAAA-TAAATAATAA-TAAAAA-TAAAAAATAATA
*
18434429 TAGTAATAATATAATAATAATAATAAATAAATAA-A
1 TA--AATAA-ATAATAATAAAAATAAA-AAATAATA
*
18434464 TAAATAAATAATAGTAAAAATAAAA
1 TAAATAAATAATAATAAAAATAAAA
18434489 CATGTAAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
31 1 0.02
32 15 0.29
33 5 0.10
34 2 0.04
35 10 0.19
36 17 0.33
37 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (32 bp):
TAAATAAATAATAATAAAAATAAAAAATAATA
Found at i:18435281 original size:37 final size:37
Alignment explanation
Indices: 18435195--18435281 Score: 102
Period size: 37 Copynumber: 2.4 Consensus size: 37
18435185 CTGAAAACCA
* *
18435195 AAGAAACACAAAACAGAAACAAAAAAGCACACTGCAG
1 AAGAAACACAAAACAGAAACAAAAAAGCACACCGAAG
* * * *
18435232 AAGAAGCGCAAAACAGAAGCCAAAAAGCACACCGAAG
1 AAGAAACACAAAACAGAAACAAAAAAGCACACCGAAG
* *
18435269 CAGAAACCCAAAA
1 AAGAAACACAAAA
18435282 AACGGCAGAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.59, C:0.24, G:0.16, T:0.01
Consensus pattern (37 bp):
AAGAAACACAAAACAGAAACAAAAAAGCACACCGAAG
Found at i:18436433 original size:3 final size:3
Alignment explanation
Indices: 18436425--18436466 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
18436415 ATATATATTT
18436425 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18436467 GATTTTAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:18436860 original size:51 final size:53
Alignment explanation
Indices: 18436805--18436924 Score: 131
Period size: 51 Copynumber: 2.3 Consensus size: 53
18436795 AATATAGATG
* *
18436805 AAATCCTAAAATTAAAA-CTGTAAATAAAAC-CTAAGGTTAAAACCCTACA-TA
1 AAATCCTAAAATTAAAACCT-TAAATAAAACTCTAAGGTCAAAACCCTAAATTA
** * * * *
18436856 AAATCCTAAGGTCAAAACCTTAAATAAAACTCTAAGGTCGAAACCTTAAATTG
1 AAATCCTAAAATTAAAACCTTAAATAAAACTCTAAGGTCAAAACCCTAAATTA
18436909 AAATCCT-AAATTAAAA
1 AAATCCTAAAATTAAAA
18436925 TCTCAAAGTC
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
51 24 0.44
52 23 0.42
53 8 0.15
ACGTcount: A:0.51, C:0.17, G:0.07, T:0.24
Consensus pattern (53 bp):
AAATCCTAAAATTAAAACCTTAAATAAAACTCTAAGGTCAAAACCCTAAATTA
Found at i:18436872 original size:26 final size:25
Alignment explanation
Indices: 18436825--18436906 Score: 101
Period size: 26 Copynumber: 3.2 Consensus size: 25
18436815 ATTAAAACTG
*
18436825 TAAATAAAACCTAAGGTTAAAACCC
1 TAAATAAAACCTAAGGTCAAAACCC
* *
18436850 TACATAAAATCCTAAGGTCAAAACCT
1 TAAATAAAA-CCTAAGGTCAAAACCC
* *
18436876 TAAATAAAACTCTAAGGTCGAAACCT
1 TAAATAAAAC-CTAAGGTCAAAACCC
18436902 TAAAT
1 TAAAT
18436907 TGAAATCCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
25 9 0.18
26 41 0.82
ACGTcount: A:0.49, C:0.20, G:0.09, T:0.23
Consensus pattern (25 bp):
TAAATAAAACCTAAGGTCAAAACCC
Found at i:18436960 original size:40 final size:40
Alignment explanation
Indices: 18436870--18436966 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
18436860 CCTAAGGTCA
* * *
18436870 AAACCTTAAA-TAAAACTCTAAGGTCGAAACCTTAAATTG
1 AAACCTTAAATTAAAACTCTAAAGTCAAAACCCTAAATTG
18436909 AAATCC-TAAATTAAAA-TCTCAAAGTCAAAACCCTAAA-TG
1 AAA-CCTTAAATTAAAACTCT-AAAGTCAAAACCCTAAATTG
*
18436948 AAACCTTAAAATTTAAACT
1 AAACCTT-AAATTAAAACT
18436967 AAAACATTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
38 2 0.04
39 16 0.33
40 29 0.60
41 1 0.02
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.26
Consensus pattern (40 bp):
AAACCTTAAATTAAAACTCTAAAGTCAAAACCCTAAATTG
Found at i:18440807 original size:39 final size:39
Alignment explanation
Indices: 18440754--18440889 Score: 148
Period size: 39 Copynumber: 3.4 Consensus size: 39
18440744 AATATATTTT
* * *
18440754 TCATATTTTCAACAAAGATTACATTTTATCTTAGAAATG
1 TCATCTTTTTAACAAAGACTACATTTTATCTTAGAAATG
* ** ***
18440793 TCATCTTTTTAACAAAAACTAGTTTTTATCTTAGAAGCA
1 TCATCTTTTTAACAAAGACTACATTTTATCTTAGAAATG
*
18440832 TCATCTTTTCT-ACAAAGACTGCATTTTTATCTTAGAAATG
1 TCATCTTTT-TAACAAAGACTACA-TTTTATCTTAGAAATG
18440872 TCGATCTTTTTAACAAAG
1 TC-ATCTTTTTAACAAAG
18440890 TCCACGTTTT
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
39 47 0.61
40 17 0.22
41 13 0.17
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (39 bp):
TCATCTTTTTAACAAAGACTACATTTTATCTTAGAAATG
Found at i:18441698 original size:13 final size:13
Alignment explanation
Indices: 18441680--18441707 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18441670 TTTTTGTGAC
18441680 TTTAATTTAATTT
1 TTTAATTTAATTT
18441693 TTTAATTTAATTT
1 TTTAATTTAATTT
18441706 TT
1 TT
18441708 ATTTTTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTAATTTAATTT
Found at i:18441703 original size:18 final size:19
Alignment explanation
Indices: 18441680--18441715 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18441670 TTTTTGTGAC
18441680 TTTAA-TTTAATTTTTTAA
1 TTTAATTTTAATTTTTTAA
*
18441698 TTTAATTTTTATTTTTTA
1 TTTAATTTTAATTTTTTA
18441716 TGAATTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTAATTTTAATTTTTTAA
Found at i:18442589 original size:33 final size:31
Alignment explanation
Indices: 18442547--18442616 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
18442537 TAAAATATTT
*
18442547 AATAAATAATAAATTACTCAGTAAAAATAA-ACA
1 AATAAATAATAAA--ACTCAAT-AAAATAACACA
*
18442580 AATAAATAATAAAAGTCAATAAAATAACACA
1 AATAAATAATAAAACTCAATAAAATAACACA
18442611 AATAAA
1 AATAAA
18442617 ATAAAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 7 0.21
31 14 0.41
33 13 0.38
ACGTcount: A:0.67, C:0.09, G:0.03, T:0.21
Consensus pattern (31 bp):
AATAAATAATAAAACTCAATAAAATAACACA
Found at i:18442618 original size:5 final size:5
Alignment explanation
Indices: 18442597--18442676 Score: 60
Period size: 5 Copynumber: 16.2 Consensus size: 5
18442587 AATAAAAGTC
* * *
18442597 AATAA AATAA CA-CA AATAA AATAA AATAA AATATA AA-ATA AATAA AATCA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATA-A AATA-A AATAA AATAA
* *
18442647 AAT-C AA-AA AATAAA AATAA AATAG AATAA A
1 AATAA AATAA AAT-AA AATAA AATAA AATAA A
18442677 GAAAACTTAC
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
4 6 0.10
5 45 0.75
6 9 0.15
ACGTcount: A:0.75, C:0.05, G:0.01, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:18442622 original size:50 final size:51
Alignment explanation
Indices: 18442568--18442669 Score: 115
Period size: 50 Copynumber: 2.0 Consensus size: 51
18442558 AATTACTCAG
*
18442568 TAAAAATAAACAAAT-AAAT-AATAAAAGTC-AAT-AAAATAACACAAATAAAA
1 TAAAAATAAA-AAATAAAATAAATAAAA-TCAAATCAAAA-AACAAAAATAAAA
* *
18442618 T-AAAATAAAATATAAAATAAATAAAATCAAATCAAAAAATAAAAATAAAA
1 TAAAAATAAAAAATAAAATAAATAAAATCAAATCAAAAAACAAAAATAAAA
18442668 TA
1 TA
18442670 GAATAAAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
48 3 0.07
49 14 0.32
50 23 0.52
51 4 0.09
ACGTcount: A:0.74, C:0.06, G:0.01, T:0.20
Consensus pattern (51 bp):
TAAAAATAAAAAATAAAATAAATAAAATCAAATCAAAAAACAAAAATAAAA
Found at i:18442633 original size:31 final size:29
Alignment explanation
Indices: 18442570--18442638 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 29
18442560 TTACTCAGTA
18442570 AAAATAAACAAATAAATAATAAAAGTCAAT
1 AAAATAAACAAATAAATAATAAAAGT-AAT
18442600 AAAATAACACAAATAAAATAAAATAAAA-T-AT
1 AAAATAA-ACAAAT-AAAT--AATAAAAGTAAT
18442631 AAAATAAA
1 AAAATAAA
18442639 TAAAATCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
30 8 0.23
31 15 0.43
32 4 0.11
33 1 0.03
34 7 0.20
ACGTcount: A:0.74, C:0.06, G:0.01, T:0.19
Consensus pattern (29 bp):
AAAATAAACAAATAAATAATAAAAGTAAT
Found at i:18443508 original size:3 final size:3
Alignment explanation
Indices: 18443502--18443653 Score: 120
Period size: 3 Copynumber: 51.7 Consensus size: 3
18443492 AAAAAAAGAG
*
18443502 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
18443550 AAT -AT AAC AAT -AT AAT -GT AA- CAT ACCAT ACT -AT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT
* * * *
18443592 AAT AAT AAC AAT AA- AAT AAT AACA AAT AAT AAT ACT AAC AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT
*
18443636 AAGT AAT AAT AGT AAT AA
1 AA-T AAT AAT AAT AAT AA
18443654 AAATCGACCC
Statistics
Matches: 116, Mismatches: 22, Indels: 22
0.73 0.14 0.14
Matches are distributed among these distances:
2 11 0.09
3 98 0.84
4 4 0.03
5 3 0.03
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:18444083 original size:55 final size:55
Alignment explanation
Indices: 18443910--18444089 Score: 168
Period size: 55 Copynumber: 3.3 Consensus size: 55
18443900 GAGGTTGAAT
* * * *
18443910 GACTGAGATTGAACCATAAGTCTAGAAAATGATCTGGACTGAGCCAAGATCAAACA
1 GACTGAGATTGAACTAAAAGTCTAAAAAATGATCTGGACTAAGCCAAGATCAAA-A
* ** * *** * * *
18443966 -ATTGAGATTGAA-TTCAAGTCTGAAAAATTGA-CTTGGACTAAGTTGAGGTCGAAC
1 GACTGAGATTGAACTAAAAGTCT-AAAAAATGATC-TGGACTAAGCCAAGATCAAAA
* *
18444020 GACCGAGATTGAACTAAAAGTCTAAAAAATGATCTGGATTAAGCCAAGATCAAAA
1 GACTGAGATTGAACTAAAAGTCTAAAAAATGATCTGGACTAAGCCAAGATCAAAA
18444075 GACTGAGATTGAACT
1 GACTGAGATTGAACT
18444090 GCAAGTTTAG
Statistics
Matches: 93, Mismatches: 26, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
54 7 0.08
55 78 0.84
56 8 0.09
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (55 bp):
GACTGAGATTGAACTAAAAGTCTAAAAAATGATCTGGACTAAGCCAAGATCAAAA
Found at i:18445073 original size:61 final size:62
Alignment explanation
Indices: 18444948--18445102 Score: 156
Period size: 63 Copynumber: 2.5 Consensus size: 62
18444938 CCCTTCTAGA
* * *
18444948 TTTTCAACTTGAACTCTTTTTTT-TTTTGTTTTTTGTTTTTTTGGCTTAAGTTTCCCTTTCAGG
1 TTTTCAACTTGAACT-TTTTTTTCTTTT-TTCTTTGTTTTTTTGGCTCAAGTATCCCTTTCAGG
* * *
18445011 TTTTCAACTTAAACTTTTTTTTCTTTTTCTCTTT-TTTTTTT-GCTCAAGTCAT-CTTTTTAGG
1 TTTTCAACTTGAACTTTTTTTTCTTTTT-TCTTTGTTTTTTTGGCTCAAGT-ATCCCTTTCAGG
* *
18445072 TTTTTAACTTGAACTTCTCTCTTTCTTTTTT
1 TTTTCAACTTGAACTT-T-TTTTTCTTTTTT
18445103 TTTATCCAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
61 28 0.36
62 18 0.23
63 32 0.41
ACGTcount: A:0.13, C:0.16, G:0.08, T:0.63
Consensus pattern (62 bp):
TTTTCAACTTGAACTTTTTTTTCTTTTTTCTTTGTTTTTTTGGCTCAAGTATCCCTTTCAGG
Found at i:18454283 original size:21 final size:19
Alignment explanation
Indices: 18454259--18454297 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
18454249 GTCATTTCAG
18454259 TATAAAATATAGTATAAACAC
1 TATAAAATA-AGTA-AAACAC
*
18454280 TATAAAGTAAGTAAAACA
1 TATAAAATAAGTAAAACA
18454298 ACAACATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 4 0.24
21 8 0.47
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (19 bp):
TATAAAATAAGTAAAACAC
Found at i:18455677 original size:22 final size:21
Alignment explanation
Indices: 18455652--18455748 Score: 65
Period size: 19 Copynumber: 4.4 Consensus size: 21
18455642 TAAATTACTC
18455652 AATAAAAATAAATAAATAGTAA
1 AATAAAAATAAATAAATA-TAA
*
18455674 AAT-AAAATAAAATACTAAAACTCAA
1 AATAAAAAT-AAATA--AATA-T-AA
*
18455699 AATATAAAATAAATACATATAA
1 AATA-AAAATAAATAAATATAA
* *
18455721 AAT-CAAA-AAATAAAAATAA
1 AATAAAAATAAATAAATATAA
18455740 AATAGAAAA
1 AATA-AAAA
18455749 AAAGAAAAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
19 13 0.22
20 3 0.05
21 8 0.14
22 13 0.22
23 1 0.02
24 6 0.10
25 5 0.08
26 5 0.08
27 5 0.08
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (21 bp):
AATAAAAATAAATAAATATAA
Done.