Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 31 of 133
Found at i:7133523 original size:311 final size:312
Alignment explanation
Indices: 7132781--7133688 Score: 1309
Period size: 313 Copynumber: 2.9 Consensus size: 312
7132771 TATTTATTTC
*
7132781 TTTTCTTTTCTATTTTTAAATGTAAAAAAGCCACATGAGAGGAAAAAAATATGACCCCACATATA
1 TTTTCTTTTCTATTTTTACATGTAAAAAAGCCACATGAGAGGAAAAAAATATGACCCCACATATA
* * * *
7132846 AAAACAATATTAATAATTGGTAAAGATCATCAAACCAAATTGCATCATCTAAGAAACATGAGAAC
66 AAAACAATATTAACAATTAGTAAAGATCATCAAACCAAATTGCATCATATAAGAAACATGAAAAC
*
7132911 AATACAATGAATAGCAACAATAACATACACATGAGAAATGGAAAGCAATGAATTAAATTTTATTG
131 AATACAATGAATAGCAACAATTACATACACATGAGAAATGGAAAGCAATGAATTAAATTTTATTG
7132976 TATTATTCTTGCATTTACCCTTACATACACATG-GAAAGCAT-A-ACAGTGAATTAAATTCTATA
196 TATTATTCTTGCATTTACCCTTACATACACATGAG-AAGCATAATACAGTGAATTAAATTCTATA
* * *
7133038 ATATTTTTCTTGCCGCTATCATCACTTTATCTCTAATTTATATTGTTTCTTTGTT
260 ATATTGTTCTTGCAGCTACCATCACTTTATCTCTAATTTATA-T-TTTCTTTGTT
* ** *
7133093 TTTTCTTTTATATTTTTACATGTAGCAAAGCCATATGAGAGGAACAAAAATATGACCCCACATAT
1 TTTTCTTTTCTATTTTTACATGTAAAAAAGCCACATGAGAGGAA-AAAAATATGACCCCACATAT
* * * *
7133158 AAAAACACTATTAACAATTAGCAAAGATCATCGAACCAAATTGCATCATATAAGAAACATGATAA
65 AAAAACAATATTAACAATTAGTAAAGATCATCAAACCAAATTGCATCATATAAGAAACATGAAAA
* *
7133223 CAATACAATGAATAGTAACAATTACATACACATAAGAAATGGAAAGCAATGAATTAAATTTTATT
130 CAATACAATGAATAGCAACAATTACATACACATGAGAAATGGAAAGCAATGAATTAAATTTTATT
* * * * *
7133288 GTATTATTCTTACATTTACCCTTACATACACATGAGAAGTATAATATATTGAATTAAATTCTATT
195 GTATTATTCTTGCATTTACCCTTACATACACATGAGAAGCATAATACAGTGAATTAAATTCTATA
** *
7133353 ATATTGTTCTTTTAGCTACCATCACTTTATCTCTAATTTATA-TTTGTTT-TT
260 ATATTGTTCTTGCAGCTACCATCACTTTATCTCTAATTTATATTTTCTTTGTT
* * *
7133404 TTTTCTTATCTATTTTTACATGTAATAAAGCCACATGAGAGGAATAAAAATATGGCCCCACATAT
1 TTTTCTTTTCTATTTTTACATGTAAAAAAGCCACATGAGAGGAA-AAAAATATGACCCCACATAT
* * * * * *
7133469 AAAAACATTGTTAACAACTAGTAAAGATCATTAAACCAAATTGCATTATATAAGAAACATAAAAA
65 AAAAACAATATTAACAATTAGTAAAGATCATCAAACCAAATTGCATCATATAAGAAACATGAAAA
*
7133534 CAATACAATGAATAGCAACAATTACATACACATGAGAAATGGAAAGCAATGAGTTAAA---T-TT
130 CAATACAATGAATAGCAACAATTACATACACATGAGAAATGGAAAGCAATGAATTAAATTTTATT
* * *
7133595 -TATTA--CTTGCATTTACCCTTACATACACATGATAAGCATAATGCAGTGGATTAAATTCTATA
195 GTATTATTCTTGCATTTACCCTTACATACACATGAGAAGCATAATACAGTGAATTAAATTCTATA
* *
7133657 ATATTGTTCTTGCAGCAACCATCATTTTATCT
260 ATATTGTTCTTGCAGCTACCATCACTTTATCT
7133689 TGTTTGGATG
Statistics
Matches: 535, Mismatches: 57, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
304 77 0.14
306 5 0.01
307 2 0.00
308 1 0.00
311 171 0.32
312 45 0.08
313 178 0.33
314 2 0.00
315 54 0.10
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (312 bp):
TTTTCTTTTCTATTTTTACATGTAAAAAAGCCACATGAGAGGAAAAAAATATGACCCCACATATA
AAAACAATATTAACAATTAGTAAAGATCATCAAACCAAATTGCATCATATAAGAAACATGAAAAC
AATACAATGAATAGCAACAATTACATACACATGAGAAATGGAAAGCAATGAATTAAATTTTATTG
TATTATTCTTGCATTTACCCTTACATACACATGAGAAGCATAATACAGTGAATTAAATTCTATAA
TATTGTTCTTGCAGCTACCATCACTTTATCTCTAATTTATATTTTCTTTGTT
Found at i:7141400 original size:24 final size:24
Alignment explanation
Indices: 7141348--7141400 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
7141338 AATTGTGTTT
* * *
7141348 ATATATCTAATTAAATATTCATAT
1 ATATAACTAATTAAAAATTCATAA
* *
7141372 GTATAACTAATTAAAAATTTATAA
1 ATATAACTAATTAAAAATTCATAA
7141396 ATATA
1 ATATA
7141401 CTTATAAATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (24 bp):
ATATAACTAATTAAAAATTCATAA
Found at i:7141436 original size:64 final size:64
Alignment explanation
Indices: 7141278--7141637 Score: 297
Period size: 64 Copynumber: 5.8 Consensus size: 64
7141268 ACTAATTCAA
* * *
7141278 TATAAATTTACCTAACCATATAAATATTCATATGTTTAACTAATTAAAAACAGTGTGTACAAT-T
1 TATAAATATACCTAACCATATAAATATTCATATGTATAACTAATT-AAAA-A-TGTATA-AATAT
7141342 --G
62 ACG
* ** * * *
7141343 TGTTTATATATCT-A--AT-TAAATATTCATATGTATAACTAATTAAAAATTTATAAATATACT
1 TATAAATATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAATGTATAAATATACG
**
7141403 TATAAATATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAATG------TGCACG
1 TATAAATATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAATGTATAAATATACG
* * * * * ****
7141461 AATAAATATACCTAACCATATCAATATTTATATGTATAATTAATTAAAAATGGCATGTGCA-ACA
1 TATAAATATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAAT-GTATAAATATAC-
7141525 G
64 G
* * * * * *
7141526 TGTATATATAACT-A--AT-TAAATATTCATATATATAACTAATTAAAAATGTAGAAATATACC
1 TATAAATATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAATGTATAAATATACG
*
7141586 TATAAATATACCTAACCGTATAAATATTCATATGTATAACTAATTAAAAATG
1 TATAAATATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAATG
7141638 GTGTGTGCAA
Statistics
Matches: 232, Mismatches: 43, Indels: 41
0.73 0.14 0.13
Matches are distributed among these distances:
57 3 0.01
58 55 0.24
59 2 0.01
60 26 0.11
61 55 0.24
62 4 0.02
63 3 0.01
64 66 0.28
65 18 0.08
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.36
Consensus pattern (64 bp):
TATAAATATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAATGTATAAATATACG
Found at i:7141569 original size:119 final size:119
Alignment explanation
Indices: 7141423--7141665 Score: 310
Period size: 125 Copynumber: 2.0 Consensus size: 119
7141413 CCTAACCATA
* * *
7141423 TAAATATTCATATGTATAACTAATTAAAAATGT-G-CACGAATAAATATACCTAACCATATCAAT
1 TAAATATTCATATATATAACTAATTAAAAATGTAGACACCAATAAATATACCTAACCATATAAAT
* *
7141486 ATTTATATGTATAATTAATTAAAAATGGCATGTGCAACAGTGTATATATAACTAAT
66 ATTCATATGTATAACTAATTAAAAATGGCATGTGCAACAGTG-A-ATATAACTAAT
* * *
7141542 TAAATATTCATATATATAACTAATTAAAAATGTAGAAATATACCTATAAATATACCTAACCGTAT
1 TAAATATTCATATATATAACTAATTAAAAATGTAG----ACACCAATAAATATACCTAACCATAT
** * *
7141607 AAATATTCATATGTATAACTAATTAAAAATGGTGTGTGCAACTGTGAATATACCTAAT
62 AAATATTCATATGTATAACTAATTAAAAATGGCATGTGCAACAGTGAATATAACTAAT
7141665 T
1 T
7141666 GTAGATACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
119 32 0.30
120 1 0.01
123 11 0.10
124 1 0.01
125 61 0.58
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (119 bp):
TAAATATTCATATATATAACTAATTAAAAATGTAGACACCAATAAATATACCTAACCATATAAAT
ATTCATATGTATAACTAATTAAAAATGGCATGTGCAACAGTGAATATAACTAAT
Found at i:7141582 original size:24 final size:24
Alignment explanation
Indices: 7141531--7141583 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
7141521 AACAGTGTAT
* * *
7141531 ATATAACTAATTAAATATTCATAT
1 ATATAACTAATTAAAAATTCAGAA
7141555 ATATAACTAATTAAAAATGT-AGAA
1 ATATAACTAATTAAAAAT-TCAGAA
7141579 ATATA
1 ATATA
7141584 CCTATAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.36
Consensus pattern (24 bp):
ATATAACTAATTAAAAATTCAGAA
Found at i:7141594 original size:183 final size:183
Alignment explanation
Indices: 7141279--7141637 Score: 547
Period size: 183 Copynumber: 2.0 Consensus size: 183
7141269 CTAATTCAAT
* * ** **
7141279 ATAAATTTACCTAACCATATAAATATTCATATGTTTAACTAATTAAAAACAGTGTGTACAATTGT
1 ATAAATATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAACAGCATGTACAACAGT
* * * * * *
7141344 GTTTATATATCTAATTAAATATTCATATGTATAACTAATTAAAAATTTATAAATATACTTATAAA
66 GTATATATAACTAATTAAATATTCATATATATAACTAATTAAAAATGTAGAAATATACCTATAAA
7141409 TATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAATGTGCACGA
131 TATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAATGTGCACGA
* * * ** *
7141462 ATAAATATACCTAACCATATCAATATTTATATGTATAATTAATTAAAAATGGCATGTGCAACAGT
1 ATAAATATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAACAGCATGTACAACAGT
7141527 GTATATATAACTAATTAAATATTCATATATATAACTAATTAAAAATGTAGAAATATACCTATAAA
66 GTATATATAACTAATTAAATATTCATATATATAACTAATTAAAAATGTAGAAATATACCTATAAA
*
7141592 TATACCTAACCGTATAAATATTCATATGTATAACTAATTAAAAATG
131 TATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAATG
7141638 GTGTGTGCAA
Statistics
Matches: 157, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
183 157 1.00
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (183 bp):
ATAAATATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAACAGCATGTACAACAGT
GTATATATAACTAATTAAATATTCATATATATAACTAATTAAAAATGTAGAAATATACCTATAAA
TATACCTAACCATATAAATATTCATATGTATAACTAATTAAAAATGTGCACGA
Found at i:7142313 original size:144 final size:144
Alignment explanation
Indices: 7142099--7142440 Score: 456
Period size: 144 Copynumber: 2.4 Consensus size: 144
7142089 CATAGTTTGG
* * *
7142099 CTTTCCTGAGGTCAGATTTT-ATGAAACTTTTCAAATCTTAATTTCATAATATTTCATAATTTTT
1 CTTT-CTGAGCTCAGATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTCACAATTTTT
* *
7142163 GATGCATTTAAAATTACAATAGTACCCCGAAAAGTGTGAAATTATTAAAATATCATTATAAAGGT
65 GATGCATTTAAAATCACAATAGTACCCCGAAAAGTGTGAAATTACTAAAATA-CATTATAAAGGT
*
7142228 ATTTTCGTAATTT-AC
129 ATTTTAGTAATTTAAC
* *
7142243 CTTTTTGAGCTCAAATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTCACAATTTTT-
1 CTTTCTGAGCTCAGATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTCACAATTTTTG
* * * * *
7142307 AGTGCATTTGAAATCATAGTAGTACCCCGAAAAGTGTGAAATTACTAAAATACCTTATAAGGGTA
66 A-TGCATTTAAAATCACAATAGTACCCCGAAAAGTGTGAAATTACTAAAATACATTATAAAGGTA
7142372 TTTTAGTAATTTAAC
130 TTTTAGTAATTTAAC
** * * * * *
7142387 CTTTCCAAGCTCAGATTTTCATGAAATTTTTTAGATATCAATTTTATAATATTT
1 CTTTCTGAGCTCAGATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTT
7142441 ATTGATTTTT
Statistics
Matches: 173, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
143 35 0.20
144 138 0.80
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.42
Consensus pattern (144 bp):
CTTTCTGAGCTCAGATTTTCATGAAACTTTTCAGATCTTAATTTCATAATATTTCACAATTTTTG
ATGCATTTAAAATCACAATAGTACCCCGAAAAGTGTGAAATTACTAAAATACATTATAAAGGTAT
TTTAGTAATTTAAC
Found at i:7142907 original size:11 final size:11
Alignment explanation
Indices: 7142891--7142917 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
7142881 AATAGAGGAG
7142891 AAAAAAAGAAA
1 AAAAAAAGAAA
7142902 AAAAAAAGAAA
1 AAAAAAAGAAA
7142913 AAAAA
1 AAAAA
7142918 GGGAGTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:7142990 original size:21 final size:21
Alignment explanation
Indices: 7142954--7143011 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
7142944 GAAGGATTTG
7142954 AAAAAAAAATGATAGAAATGGCT
1 AAAAAAAAA-G-TAGAAATGGCT
*
7142977 AAAAAAAAAGTAG-AATTGCT
1 AAAAAAAAAGTAGAAATGGCT
7142997 AAAAAAAAAG-AGAAA
1 AAAAAAAAAGTAGAAA
7143012 CTTCATGAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 2 0.06
20 18 0.55
21 3 0.09
22 1 0.03
23 9 0.27
ACGTcount: A:0.67, C:0.03, G:0.16, T:0.14
Consensus pattern (21 bp):
AAAAAAAAAGTAGAAATGGCT
Found at i:7159556 original size:21 final size:21
Alignment explanation
Indices: 7159530--7159573 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
7159520 TTTGATTTTT
7159530 TTTTTCTCGATTCTTAGATGA
1 TTTTTCTCGATTCTTAGATGA
7159551 TTTTTCTCGATTCTTAGATGA
1 TTTTTCTCGATTCTTAGATGA
7159572 TT
1 TT
7159574 ACTTCCTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.14, G:0.14, T:0.55
Consensus pattern (21 bp):
TTTTTCTCGATTCTTAGATGA
Found at i:7159704 original size:21 final size:21
Alignment explanation
Indices: 7159680--7159725 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
7159670 TTAGGATAAG
** *
7159680 ACTAAAGGACGGTGAGTCATA
1 ACTAAAGGACAATGACTCATA
*
7159701 ACTAAAGTACAATGACTCATA
1 ACTAAAGGACAATGACTCATA
7159722 ACTA
1 ACTA
7159726 TGGTACAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.22
Consensus pattern (21 bp):
ACTAAAGGACAATGACTCATA
Found at i:7168851 original size:12 final size:12
Alignment explanation
Indices: 7168817--7168853 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
7168807 CCTGAAAAGT
*
7168817 GTTT-GAAGGAA
1 GTTTCGAAGGAG
7168828 GTTTCGAAGGAG
1 GTTTCGAAGGAG
7168840 GTTTCGAAGGAG
1 GTTTCGAAGGAG
7168852 GT
1 GT
7168854 CTTGTGAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.27, C:0.05, G:0.41, T:0.27
Consensus pattern (12 bp):
GTTTCGAAGGAG
Found at i:7181185 original size:18 final size:19
Alignment explanation
Indices: 7181146--7181187 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
7181136 ATTTTTATTT
* *
7181146 TATAAAAATTTAAAATATA
1 TATAAAAATTTAAAAAAAA
7181165 TATAAAAA-TTAAAAAAAA
1 TATAAAAATTTAAAAAAAA
7181183 TATAA
1 TATAA
7181188 TTCAAATCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TATAAAAATTTAAAAAAAA
Found at i:7187675 original size:39 final size:39
Alignment explanation
Indices: 7187632--7187709 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
7187622 CCCAACAAGA
*
7187632 AGGAATGATTGAAAAAA-ACATTTGTTCTGTCCTTAGTTT
1 AGGAATGATT-AAAAAATACATTTGTTCTGTCCATAGTTT
7187671 AGGAATGATTAAAAAATACATTTGTTCTGTCCATAGTTT
1 AGGAATGATTAAAAAATACATTTGTTCTGTCCATAGTTT
7187710 TCTTTACACT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
38 6 0.16
39 31 0.84
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (39 bp):
AGGAATGATTAAAAAATACATTTGTTCTGTCCATAGTTT
Found at i:7187864 original size:54 final size:54
Alignment explanation
Indices: 7187772--7187879 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
7187762 AAGTAGAAAG
* *
7187772 AAAGAATTTCATTCTTGTGAGTCTCACTGTACTATGTGAAGAGTATCCATTTCT
1 AAAGAATTTCATTCGTGTGAGTCTCACTGGACTATGTGAAGAGTATCCATTTCT
* * * *
7187826 AAAGAATTTTATTCGTGTGAGTCTCATTGGACTGTGTGAAGATTATCCATTTCT
1 AAAGAATTTCATTCGTGTGAGTCTCACTGGACTATGTGAAGAGTATCCATTTCT
7187880 GTTATCTTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (54 bp):
AAAGAATTTCATTCGTGTGAGTCTCACTGGACTATGTGAAGAGTATCCATTTCT
Found at i:7196938 original size:2 final size:2
Alignment explanation
Indices: 7196933--7196960 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7196923 GTGTGTGTAT
7196933 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7196961 AAACATCTGA
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7198754 original size:2 final size:2
Alignment explanation
Indices: 7198747--7198777 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7198737 GTTACCCCTC
7198747 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
7198778 AGAGTCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:7207142 original size:137 final size:137
Alignment explanation
Indices: 7206894--7207146 Score: 371
Period size: 137 Copynumber: 1.8 Consensus size: 137
7206884 CTACCACTTG
* * * **
7206894 TTTAAGTAGATTGTTTACCGTTTGAGGAGGTAAGGAGAGAGCTGCTAAAATCTCCAAGATTCTTG
1 TTTAAGTAGACTGTTTACCGTTTGAAGAGGCAAGGAGAGAGCTGCTAAAATCTCCAAGATTCTCA
* **
7206959 GAATGCAGCTGTCATGGTATGATTAGCACAAAAGGGGAGCAGTGGTATTGTACCAGCTGTCATGC
66 GAATGCAGCTGTCATGGTATGATCAGCACAAAAGGAAAGCAGTGGTATTGTACCAGCTGTCATGC
7207024 ACCCTTA
131 ACCCTTA
* *** *
7207031 TTTAAGTAGACTGTTTACCGTTTGAAGAGGCAATGAGAGAGCTGCTGGCATCTCCGAGATTCTCA
1 TTTAAGTAGACTGTTTACCGTTTGAAGAGGCAAGGAGAGAGCTGCTAAAATCTCCAAGATTCTCA
* *
7207096 GAATGCAGCTGTCATGGTATGATCAGCACAAAAGGAAAGGATTGGTATTGT
66 GAATGCAGCTGTCATGGTATGATCAGCACAAAAGGAAAGCAGTGGTATTGT
7207147 CTTGTTTACT
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
137 101 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (137 bp):
TTTAAGTAGACTGTTTACCGTTTGAAGAGGCAAGGAGAGAGCTGCTAAAATCTCCAAGATTCTCA
GAATGCAGCTGTCATGGTATGATCAGCACAAAAGGAAAGCAGTGGTATTGTACCAGCTGTCATGC
ACCCTTA
Found at i:7210997 original size:23 final size:22
Alignment explanation
Indices: 7210971--7211175 Score: 107
Period size: 23 Copynumber: 9.5 Consensus size: 22
7210961 AATAATATGT
*
7210971 TATTAACAAATAATATTATAAAA
1 TATTAATAAATAATATTAT-AAA
*
7210994 TATTCATAAA-AATA-T-T--A
1 TATTAATAAATAATATTATAAA
*
7211011 TATTAATAAATAATATTACAATA
1 TATTAATAAATAATATTATAA-A
7211034 TATTAATAAATAATA-T-T--A
1 TATTAATAAATAATATTATAAA
* *
7211052 TATTAATAAATAA-ATCATATTA
1 TATTAATAAATAATATTATA-AA
7211074 TATTAATAAATTATATATTAATAAA
1 TATTAATAAA-TA-ATATT-ATAAA
** **
7211099 TAATATAATAAATGTTATTA-ATT
1 T-AT-TAATAAATAATATTATAAA
* * *
7211122 TAATCAATAAATACTATAATAATA
1 T-ATTAATAAATAATATTATAA-A
7211146 TATTAATAAATAATA-TA-AAA
1 TATTAATAAATAATATTATAAA
7211166 -A-TAATAAATA
1 TATTAATAAATA
7211176 GTTTTATTTT
Statistics
Matches: 142, Mismatches: 21, Indels: 43
0.69 0.10 0.21
Matches are distributed among these distances:
17 11 0.08
18 27 0.19
19 3 0.02
20 2 0.01
21 3 0.02
22 28 0.20
23 44 0.31
24 3 0.02
25 8 0.06
26 6 0.04
27 7 0.05
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (22 bp):
TATTAATAAATAATATTATAAA
Found at i:7211015 original size:40 final size:41
Alignment explanation
Indices: 7210958--7211175 Score: 192
Period size: 40 Copynumber: 5.6 Consensus size: 41
7210948 AATTTTACTT
* *
7210958 ATAAATAATATGT-TATTAACAAATAATATTATAAAATATTC
1 ATAAATAATAT-TATATTAATAAATAATATTATAAAATATTA
* *
7210999 ATAAA-AATATTATATTAATAAATAATATTACAATATATTA
1 ATAAATAATATTATATTAATAAATAATATTATAAAATATTA
* **
7211039 ATAAATAATATTATATTAATAAATAA-ATCATATTATATTA
1 ATAAATAATATTATATTAATAAATAATATTATAAAATATTA
* *
7211079 ATAAAT--TA-TATATTAATAAATAATATAAT-AAATGTT-
1 ATAAATAATATTATATTAATAAATAATATTATAAAATATTA
* * * *
7211115 AT---TAAT-TTA-ATCAATAAATACTATAATAATATATTA
1 ATAAATAATATTATATTAATAAATAATATTATAAAATATTA
* * *
7211151 ATAAATAATATAAAAATAATAAATA
1 ATAAATAATATTATATTAATAAATA
7211176 GTTTTATTTT
Statistics
Matches: 146, Mismatches: 18, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
33 1 0.01
34 16 0.11
35 8 0.05
36 4 0.03
37 19 0.13
38 6 0.04
39 5 0.03
40 53 0.36
41 34 0.23
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (41 bp):
ATAAATAATATTATATTAATAAATAATATTATAAAATATTA
Found at i:7211027 original size:18 final size:18
Alignment explanation
Indices: 7210993--7211104 Score: 106
Period size: 22 Copynumber: 5.9 Consensus size: 18
7210983 ATATTATAAA
*
7210993 ATATTCATAAA-AATATT
1 ATATTAATAAATAATATT
7211010 ATATTAATAAATAATATTACAAT
1 ATATTAATAAATAATA-T----T
7211033 ATATTAATAAATAATATT
1 ATATTAATAAATAATATT
7211051 ATATTAATAAATAAATCATATT
1 ATATTAATAAAT--A--ATATT
7211073 ATATTAATAAAT--TA-T
1 ATATTAATAAATAATATT
7211088 ATATTAATAAATAATAT
1 ATATTAATAAATAATAT
7211105 AATAAATGTT
Statistics
Matches: 81, Mismatches: 1, Indels: 25
0.76 0.01 0.23
Matches are distributed among these distances:
15 13 0.16
16 2 0.02
17 12 0.15
18 17 0.21
19 1 0.01
20 1 0.01
22 18 0.22
23 17 0.21
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATTAATAAATAATATT
Found at i:7211046 original size:63 final size:63
Alignment explanation
Indices: 7210971--7211089 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 63
7210961 AATAATATGT
*
7210971 TATTAACAAATAATATTATA-AAATATTCATAAA-AATATTATATTAATAAATAATATTACAATA
1 TATTAACAAATAATATTATATAAATA--AATAAATAATATTATATTAATAAATAATATTACAATA
* * * *
7211034 TATTAATAAATAATATTATATTAATAAATAAATCATATTATATTAATAAATTATAT
1 TATTAACAAATAATATTATATAAATAAATAAATAATATTATATTAATAAATAATAT
7211090 ATTAATAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
62 5 0.10
63 40 0.82
64 4 0.08
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (63 bp):
TATTAACAAATAATATTATATAAATAAATAAATAATATTATATTAATAAATAATATTACAATA
Found at i:7211048 original size:15 final size:15
Alignment explanation
Indices: 7211030--7211162 Score: 74
Period size: 15 Copynumber: 9.4 Consensus size: 15
7211020 ATAATATTAC
7211030 AATATATTAATAAAT
1 AATATATTAATAAAT
*
7211045 -A-ATATTATATTAAT
1 AATATATTA-ATAAAT
*
7211059 AA-ATA--AAT-CAT
1 AATATATTAATAAAT
*
7211070 ATTATATTAATAAAT
1 AATATATTAATAAAT
*
7211085 TATATATTAATAAAT
1 AATATATTAATAAAT
7211100 -A-ATA-TAATAAAT
1 AATATATTAATAAAT
* *
7211112 -GT-TATTAATTTAAT
1 AATATATTAA-TAAAT
* *
7211126 CAATA-AATACTATAAT
1 -AATATATTAATA-AAT
7211142 AATATATTAATAAAT
1 AATATATTAATAAAT
7211157 AATATA
1 AATATA
7211163 AAAATAATAA
Statistics
Matches: 90, Mismatches: 14, Indels: 28
0.68 0.11 0.21
Matches are distributed among these distances:
11 3 0.03
12 15 0.17
13 13 0.14
14 14 0.16
15 33 0.37
16 12 0.13
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (15 bp):
AATATATTAATAAAT
Found at i:7211160 original size:18 final size:18
Alignment explanation
Indices: 7210988--7211160 Score: 88
Period size: 18 Copynumber: 9.2 Consensus size: 18
7210978 AAATAATATT
* *
7210988 ATAAAATATTCATAAA-A
1 ATAATATATTAATAAATA
*
7211005 ATATTATATTAATAAATAA
1 ATAATATATTAATAAAT-A
7211024 TATTACAATATATTAATAAATA
1 -A-T--AATATATTAATAAATA
*
7211046 ATATTATATTAATAAATAA
1 ATAATATATTAATAAAT-A
7211065 ATCATATTATATTAATAAAT-
1 AT-A-A-TATATTAATAAATA
7211085 -T-ATATATTAATAAATAA
1 ATAATATATTAATAAAT-A
* * *
7211102 TATAATAAATGTTATTAAT-
1 -ATAATATAT-TAATAAATA
* * *
7211121 TTAATCA-ATAAATACTATA
1 ATAAT-ATATTAATA-AATA
7211140 ATAATATATTAATAAATA
1 ATAATATATTAATAAATA
7211158 ATA
1 ATA
7211161 TAAAAATAAT
Statistics
Matches: 119, Mismatches: 17, Indels: 39
0.68 0.10 0.22
Matches are distributed among these distances:
15 13 0.11
16 1 0.01
17 15 0.13
18 29 0.24
19 17 0.14
20 8 0.07
21 8 0.07
22 14 0.12
23 14 0.12
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (18 bp):
ATAATATATTAATAAATA
Found at i:7211172 original size:9 final size:10
Alignment explanation
Indices: 7211014--7211175 Score: 58
Period size: 11 Copynumber: 14.9 Consensus size: 10
7211004 AATATTATAT
7211014 TAATAAATAA
1 TAATAAATAA
*
7211024 TATTACAATATA
1 TAATA-AATA-A
7211036 TTAATAAATAA
1 -TAATAAATAA
* *
7211047 TATTATATTAA
1 TAATA-AATAA
*
7211058 TAAATAAATCA
1 T-AATAAATAA
* *
7211069 TATTATATTAA
1 TAATA-AATAA
* *
7211080 TAAATTATATAT
1 T-AA-TAAATAA
7211092 TAATAAATAATA
1 TAATAAAT-A-A
**
7211104 TAATAAATGT
1 TAATAAATAA
* *
7211114 TATTAATTTAA
1 TAATAA-ATAA
7211125 TCAATAAATACTA
1 T-AATAAATA--A
*
7211138 TAATAATATAT
1 TAATAA-ATAA
7211149 TAATAAATAA
1 TAATAAATAA
7211159 T-ATAAA-AA
1 TAATAAATAA
7211167 TAATAAATA
1 TAATAAATA
7211176 GTTTTATTTT
Statistics
Matches: 109, Mismatches: 26, Indels: 34
0.64 0.15 0.20
Matches are distributed among these distances:
8 3 0.03
9 10 0.09
10 25 0.23
11 31 0.28
12 29 0.27
13 11 0.10
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (10 bp):
TAATAAATAA
Found at i:7211269 original size:26 final size:27
Alignment explanation
Indices: 7211251--7211320 Score: 87
Period size: 26 Copynumber: 2.7 Consensus size: 27
7211241 AATTATTTTT
7211251 TAATTTTAATA-ATTTTAA-TAATAAA
1 TAATTTTAATATATTTTAATTAATAAA
7211276 TAATTTTAATATATTTTAA-TAATAAA
1 TAATTTTAATATATTTTAATTAATAAA
*
7211302 TCATTTT--TAGTATTTTAAT
1 TAATTTTAATA-TATTTTAAT
7211321 AGTTATATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
24 2 0.05
25 19 0.46
26 20 0.49
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (27 bp):
TAATTTTAATATATTTTAATTAATAAA
Found at i:7211279 original size:25 final size:25
Alignment explanation
Indices: 7211251--7211321 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 25
7211241 AATTATTTTT
7211251 TAATTTTAATAATTTTAATAATAAA
1 TAATTTTAATAATTTTAATAATAAA
7211276 TAATTTTAATATATTTTAATAATAAA
1 TAATTTTAATA-ATTTTAATAATAAA
* *
7211302 TCATTTTTAGT-ATTTTAATA
1 T-AATTTTAATAATTTTAATA
7211322 GTTATATTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.48
26 15 0.36
27 7 0.17
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (25 bp):
TAATTTTAATAATTTTAATAATAAA
Found at i:7211291 original size:10 final size:9
Alignment explanation
Indices: 7211251--7211298 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
7211241 AATTATTTTT
7211251 TAATTTTAA
1 TAATTTTAA
7211260 TAATTTTAA
1 TAATTTTAA
*
7211269 TAA--TAAA
1 TAATTTTAA
7211276 TAATTTTAA
1 TAATTTTAA
7211285 TATATTTTAA
1 TA-ATTTTAA
7211295 TAAT
1 TAAT
7211299 AAATCATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
7 6 0.18
9 19 0.56
10 9 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TAATTTTAA
Found at i:7218451 original size:30 final size:30
Alignment explanation
Indices: 7218417--7218476 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
7218407 TTGTCCACCA
* *
7218417 GTCGATTTATGCTAAGGAGAGAAAAGTTAT
1 GTCGATTTATACTAAGAAGAGAAAAGTTAT
7218447 GTCGATTTATACTAAGAAGAGAAAAGTTAT
1 GTCGATTTATACTAAGAAGAGAAAAGTTAT
7218477 CTTTCGGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (30 bp):
GTCGATTTATACTAAGAAGAGAAAAGTTAT
Found at i:7220645 original size:22 final size:22
Alignment explanation
Indices: 7220620--7220671 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
7220610 ATAACAAAAA
7220620 GTGGTTGAACTCCTTGAACATG
1 GTGGTTGAACTCCTTGAACATG
7220642 GTGGTTGAACTCCTTGAACATG
1 GTGGTTGAACTCCTTGAACATG
*
7220664 GTGATTGA
1 GTGGTTGA
7220672 CCTCAGTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (22 bp):
GTGGTTGAACTCCTTGAACATG
Found at i:7232055 original size:6 final size:6
Alignment explanation
Indices: 7232044--7232119 Score: 53
Period size: 6 Copynumber: 12.7 Consensus size: 6
7232034 CTGTAAAAAA
* * * * * * *
7232044 ATATCT ATATCT ATATCT ATATCT ATCTCT CTCTCT CTCTCT CTCTCT
1 ATATCT ATATCT ATATCT ATATCT ATATCT ATATCT ATATCT ATATCT
* * * *
7232092 ATATAT ATATAT ATATGT ATATGT ATAT
1 ATATCT ATATCT ATATCT ATATCT ATAT
7232120 ATATCAGTCT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.28, C:0.20, G:0.03, T:0.50
Consensus pattern (6 bp):
ATATCT
Found at i:7235791 original size:26 final size:26
Alignment explanation
Indices: 7235755--7235810 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
7235745 CAACCAAAAG
7235755 CCCACTTTCTTCAGTATAAAATACAA
1 CCCACTTTCTTCAGTATAAAATACAA
7235781 CCCACTTTCTTCAGTATAAAATACAA
1 CCCACTTTCTTCAGTATAAAATACAA
7235807 CCCA
1 CCCA
7235811 ATTCTATGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.38, C:0.30, G:0.04, T:0.29
Consensus pattern (26 bp):
CCCACTTTCTTCAGTATAAAATACAA
Found at i:7243659 original size:19 final size:18
Alignment explanation
Indices: 7243630--7243665 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
7243620 TGACATGAAT
7243630 TTGATTTATGAAGTAACA
1 TTGATTTATGAAGTAACA
*
7243648 TTGATGTTATGATGTAAC
1 TTGAT-TTATGAAGTAAC
7243666 TTCTTTTTAA
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:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (18 bp):
TTGATTTATGAAGTAACA
Found at i:7248837 original size:54 final size:54
Alignment explanation
Indices: 7248695--7248837 Score: 166
Period size: 54 Copynumber: 2.7 Consensus size: 54
7248685 TGCTGTCTTG
*
7248695 AAAGTTTTAATGCAATAA-ATAAA-ATGCTAGGGGCACATTGGGTGTGATGGCAT
1 AAAGCTTTAATGCAA-AAGATAAAGATGCTAGGGGCACATTGGGTGTGATGGCAT
* * * * * * *
7248748 AAAGCCTTAAAGCAAAAGATGAAGCTGCCAAGGGCACATTGGGCT-TGTTGGCAT
1 AAAGCTTTAATGCAAAAGATAAAGATGCTAGGGGCACATTGGG-TGTGATGGCAT
*
7248802 AAAGCTTTAATGCAAGAGATAAAGATGCTAGGGGCA
1 AAAGCTTTAATGCAAAAGATAAAGATGCTAGGGGCA
7248838 TGTTAGGTGT
Statistics
Matches: 72, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
52 2 0.03
53 16 0.22
54 53 0.74
55 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.23
Consensus pattern (54 bp):
AAAGCTTTAATGCAAAAGATAAAGATGCTAGGGGCACATTGGGTGTGATGGCAT
Found at i:7249283 original size:77 final size:77
Alignment explanation
Indices: 7249193--7249378 Score: 239
Period size: 77 Copynumber: 2.4 Consensus size: 77
7249183 ATGTTGGTAG
* *
7249193 GAAGTGGAGACTATATTAACCTATATGCCTTAACACAATAAAAAATGACACGCGAGA-CACGTTA
1 GAAGTGGAGACTATGTTAACCTATATGCCTTAACACAATAAAAAATGACA-GAGAGAGCACGTTA
**
7249257 AGTGTGTTGACAA
65 AGTGTGTCAACAA
* * * ** * *
7249270 GAAGTGGAAACTATGTTAACCCATATGTCTTAACGTAATAAAAAATGACATATAGAGCACGTTAA
1 GAAGTGGAGACTATGTTAACCTATATGCCTTAACACAATAAAAAATGACAGAGAGAGCACGTTAA
*
7249335 GTGTGTCAATAA
66 GTGTGTCAACAA
*
7249347 GAAATGGAGACTATGTTAACCTATATGCCTTA
1 GAAGTGGAGACTATGTTAACCTATATGCCTTA
7249379 GCTCGATAAA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
76 3 0.03
77 89 0.97
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (77 bp):
GAAGTGGAGACTATGTTAACCTATATGCCTTAACACAATAAAAAATGACAGAGAGAGCACGTTAA
GTGTGTCAACAA
Found at i:7249641 original size:80 final size:80
Alignment explanation
Indices: 7249338--7249642 Score: 230
Period size: 80 Copynumber: 3.8 Consensus size: 80
7249328 ACGTTAAGTG
* * * *
7249338 TGTCAATAAGAAATG-GAGACTATGTTAACCTATATGCCTTAGCT-CGATAAATAAAGATGATGC
1 TGTCAACAAGAAATGAG-GACTATGTTAACCCATATGCCTTA-ATGCGATAAATAAAAATGATGC
* *
7249401 ACAAGGCATATTGAGCT-
64 ACGAGGCATGTTGAG-TA
* * * **
7249418 TGTCAAC-AGAAATGAAGACTATGTTAACCTCTATAT--CTTAATGTGATAAATGAAAATGGCGC
1 TGTCAACAAGAAATGAGGACTATGTTAACC-C-ATATGCCTTAATGCGATAAATAAAAATGATGC
* * * *
7249480 ACGGGGTATGTTCAGCA
64 ACGAGGCATGTTGAGTA
* * * * ** ** * * *
7249497 TATCGA-TAGAAAGTGAGGATTATGAAAACCCATATGCCTTAATAAGAAAAATGAAGAT-AGTGC
1 TGTCAACAAGAAA-TGAGGACTATGTTAACCCATATGCCTTAATGCGATAAATAAAAATGA-TGC
*
7249560 ACGAGACATGTTGAGTA
64 ACGAGGCATGTTGAGTA
* *
7249577 TGTCAACAAGAAGTGAGGACTATGTTAACCCATATGCCTTAATGCGATAAATAAAAATTATGCAC
1 TGTCAACAAGAAATGAGGACTATGTTAACCCATATGCCTTAATGCGATAAATAAAAATGATGCAC
7249642 G
66 G
7249643 GGATACATTA
Statistics
Matches: 169, Mismatches: 44, Indels: 24
0.71 0.19 0.10
Matches are distributed among these distances:
78 5 0.03
79 58 0.34
80 97 0.57
81 9 0.05
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (80 bp):
TGTCAACAAGAAATGAGGACTATGTTAACCCATATGCCTTAATGCGATAAATAAAAATGATGCAC
GAGGCATGTTGAGTA
Found at i:7253283 original size:27 final size:28
Alignment explanation
Indices: 7253233--7253296 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 28
7253223 GATACATATA
7253233 AAAATACATAGTAAAACACACAATCCAAT
1 AAAATACATAG-AAAACACACAATCCAAT
* * *
7253262 AAAATACATA-AAAATATACAATTCAAT
1 AAAATACATAGAAAACACACAATCCAAT
7253289 AAAATACA
1 AAAATACA
7253297 ATAATCATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 22 0.69
29 10 0.31
ACGTcount: A:0.62, C:0.16, G:0.02, T:0.20
Consensus pattern (28 bp):
AAAATACATAGAAAACACACAATCCAAT
Found at i:7255986 original size:2 final size:2
Alignment explanation
Indices: 7255979--7256003 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7255969 TGGAATATGG
7255979 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
7256004 CATTTTGTTC
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:7266880 original size:30 final size:29
Alignment explanation
Indices: 7266837--7266909 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 29
7266827 ATTAATTTAT
* * *
7266837 ATTAAGAGTTTATTTAGATATAAATTAAAA
1 ATTAAGAGCTTATTAAAATAT-AATTAAAA
*
7266867 ATTAAGCGCTTATTAAAATATAATTAAAA
1 ATTAAGAGCTTATTAAAATATAATTAAAA
* * *
7266896 GTTAAAAGTTTATT
1 ATTAAGAGCTTATT
7266910 TTAATAAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 18 0.51
30 17 0.49
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.40
Consensus pattern (29 bp):
ATTAAGAGCTTATTAAAATATAATTAAAA
Found at i:7266908 original size:29 final size:29
Alignment explanation
Indices: 7266837--7266955 Score: 105
Period size: 30 Copynumber: 4.1 Consensus size: 29
7266827 ATTAATTTAT
* *
7266837 ATTAAGAGTTTATTTAGATATAAATTAAAA
1 ATTAAAAGTTTATTTAAATAT-AATTAAAA
** * *
7266867 ATTAAGCGCTTATTAAAATATAATTAAAA
1 ATTAAAAGTTTATTTAAATATAATTAAAA
* * *
7266896 GTTAAAAGTTTATTTTAATAAAAATTAAAA
1 ATTAAAAGTTTATTTAAAT-ATAATTAAAA
* **
7266926 TTTAAAAGTTTATTTGCATATAA-TAAAA
1 ATTAAAAGTTTATTTAAATATAATTAAAA
7266954 AT
1 AT
7266956 ATAAGGATTT
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
28 6 0.08
29 24 0.33
30 42 0.58
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (29 bp):
ATTAAAAGTTTATTTAAATATAATTAAAA
Found at i:7273058 original size:20 final size:20
Alignment explanation
Indices: 7273033--7273076 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7273023 GGTATTTGTT
* **
7273033 TAATATTCTATGTTTTTATA
1 TAATATTATATGCCTTTATA
7273053 TAATATTATATGCCTTTATA
1 TAATATTATATGCCTTTATA
7273073 TAAT
1 TAAT
7273077 TATCATGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TAATATTATATGCCTTTATA
Found at i:7273574 original size:17 final size:19
Alignment explanation
Indices: 7273540--7273574 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7273530 GATTAAAGAG
7273540 AGAGAAAGAGATAGAAAAT
1 AGAGAAAGAGATAGAAAAT
7273559 AGAGAAA-AGA-AGAAAA
1 AGAGAAAGAGATAGAAAA
7273575 AGAAAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.06
Consensus pattern (19 bp):
AGAGAAAGAGATAGAAAAT
Found at i:7274222 original size:15 final size:15
Alignment explanation
Indices: 7274204--7274236 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
7274194 TTTGTTATGC
7274204 TTTTTACAT-TTATA
1 TTTTTACATATTATA
7274218 TTTTT-CATATTATA
1 TTTTTACATATTATA
7274232 TTTTT
1 TTTTT
7274237 TATTTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTACATATTATA
Found at i:7274247 original size:14 final size:14
Alignment explanation
Indices: 7274213--7274255 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
7274203 CTTTTTACAT
*
7274213 TTATATTTTTCATA
1 TTATATTTTTTATA
*
7274227 TTATATTTTTTATT
1 TTATATTTTTTATA
*
7274241 TTTTATTTTATTATA
1 TTATATTTT-TTATA
7274256 GTAATTTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (14 bp):
TTATATTTTTTATA
Found at i:7274538 original size:61 final size:62
Alignment explanation
Indices: 7274465--7274669 Score: 185
Period size: 61 Copynumber: 3.4 Consensus size: 62
7274455 TTTTCATACT
* * *
7274465 TAGAGGAGACATTA-AGTAATTTTGTCTAATTAAGATAAAAGAGGCATTTTTGTAATTATTG
1 TAGAAGAGACATTATAATAATTTGGTCTAATTAAGATAAAAGAGGCATTTTTGTAATTATTG
** **
7274526 TAGAAGAGACATTATAATAAGTTTGGT-TAATTATA-ATATGA-AGGCATTTTCATAATTA-TG
1 TAGAAGAGACATTATAATAA-TTTGGTCTAATTA-AGATAAAAGAGGCATTTTTGTAATTATTG
* * ** *
7274586 -ATAAGATGAGCATTATAATAATTTGGTC-AATTATGATAAAAGAGTAATTTTTGTAATTATGG
1 TAGAAGA-GA-CATTATAATAATTTGGTCTAATTAAGATAAAAGAGGCATTTTTGTAATTATTG
*
7274648 TATG-AGGGAC-TTATAATAATTT
1 TA-GAAGAGACATTATAATAATTT
7274670 TTGCTTATTA
Statistics
Matches: 115, Mismatches: 18, Indels: 23
0.74 0.12 0.15
Matches are distributed among these distances:
59 5 0.04
60 31 0.27
61 53 0.46
62 17 0.15
63 9 0.08
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (62 bp):
TAGAAGAGACATTATAATAATTTGGTCTAATTAAGATAAAAGAGGCATTTTTGTAATTATTG
Found at i:7274680 original size:61 final size:62
Alignment explanation
Indices: 7274615--7274750 Score: 138
Period size: 61 Copynumber: 2.2 Consensus size: 62
7274605 AATTTGGTCA
* * ** * * *
7274615 ATTATGATAAAAGAGTA-ATTTTTGTAATTATGGTATGAGGGAC-TTATAATAATTTTTGCTT
1 ATTATGATAAAAGAGCATATTTTCGTAATTATGACATAACGGACATTATAATAATTTTT-ATT
*
7274676 ATTATGCTAATAA-A-CATATTTTCGTAATTATGACATAACGGACATTATAATAATTTTTATT
1 ATTATGATAA-AAGAGCATATTTTCGTAATTATGACATAACGGACATTATAATAATTTTTATT
*
7274737 ATTAT-TTAAAAGAG
1 ATTATGATAAAAGAG
7274751 AAGCATTTCC
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
59 2 0.03
60 5 0.08
61 38 0.62
62 16 0.26
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (62 bp):
ATTATGATAAAAGAGCATATTTTCGTAATTATGACATAACGGACATTATAATAATTTTTATT
Found at i:7278256 original size:2 final size:2
Alignment explanation
Indices: 7278249--7278273 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7278239 ATAACAAATG
7278249 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
7278274 CCAACAGAAA
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:7281305 original size:18 final size:18
Alignment explanation
Indices: 7281282--7281333 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
7281272 TTTAAAAAAA
*
7281282 AAAGATAAATCCATAACT
1 AAAGATAAATCAATAACT
*
7281300 AAAGATAAATCAATAAGT
1 AAAGATAAATCAATAACT
*
7281318 AAAGATAAATCTATAA
1 AAAGATAAATCAATAA
7281334 AGATAAACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.60, C:0.10, G:0.08, T:0.23
Consensus pattern (18 bp):
AAAGATAAATCAATAACT
Found at i:7281363 original size:16 final size:17
Alignment explanation
Indices: 7281342--7281404 Score: 67
Period size: 16 Copynumber: 3.8 Consensus size: 17
7281332 AAAGATAAAC
7281342 AAATAAAAATAAAATG-
1 AAATAAAAATAAAATGA
* *
7281358 AAATAAAAGTAAAAAGA
1 AAATAAAAATAAAATGA
*
7281375 TAAATAAAAGTAAAA-GA
1 -AAATAAAAATAAAATGA
*
7281392 AAATAAAGATAAA
1 AAATAAAAATAAA
7281405 GTAAATAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
16 25 0.61
17 2 0.05
18 14 0.34
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.16
Consensus pattern (17 bp):
AAATAAAAATAAAATGA
Found at i:7281389 original size:34 final size:31
Alignment explanation
Indices: 7281342--7281415 Score: 87
Period size: 34 Copynumber: 2.3 Consensus size: 31
7281332 AAAGATAAAC
7281342 AAATAAAAATAAAATG-AAATAAAAGTAAAAAGAT
1 AAATAAAAATAAAA-GAAAAT-AAAG-AAAAAG-T
* *
7281376 AAATAAAAGTAAAAGAAAATAAAGATAAAGT
1 AAATAAAAATAAAAGAAAATAAAGAAAAAGT
7281407 AAATAAAAA
1 AAATAAAAA
7281416 AGTAAACAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
31 9 0.25
32 5 0.14
33 5 0.14
34 17 0.47
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.16
Consensus pattern (31 bp):
AAATAAAAATAAAAGAAAATAAAGAAAAAGT
Found at i:7281417 original size:27 final size:26
Alignment explanation
Indices: 7281370--7281433 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
7281360 ATAAAAGTAA
* *
7281370 AAAGATAAATAAAAGTAAAAGAAAAT
1 AAAGATAAATAAAAGAAAAAGAAAAC
*
7281396 AAAGATAAAGTAAATA-AAAAAGTAAAC
1 AAAGATAAA-TAAA-AGAAAAAGAAAAC
*
7281423 AATGATAAATA
1 AAAGATAAATA
7281434 CAACTTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 11 0.34
27 20 0.62
28 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.17
Consensus pattern (26 bp):
AAAGATAAATAAAAGAAAAAGAAAAC
Found at i:7282802 original size:33 final size:33
Alignment explanation
Indices: 7282755--7282817 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
7282745 AAAAATATTT
7282755 GATATTTATATTATATATTA-TATAAAATAAAC
1 GATATTTATATTATATATTATTATAAAATAAAC
*
7282787 GATATATTATATTATATATTATTTTAAAATA
1 GATAT-TTATATTATATATTATTATAAAATA
7282818 TTATATAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 5 0.18
33 15 0.54
34 8 0.29
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (33 bp):
GATATTTATATTATATATTATTATAAAATAAAC
Found at i:7282894 original size:18 final size:18
Alignment explanation
Indices: 7282871--7282907 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7282861 AATATAAAGC
7282871 TTTTTTAAT-TTTATATTT
1 TTTTTTAATCTTTA-ATTT
7282889 TTTTTTAATCTTTAATTT
1 TTTTTTAATCTTTAATTT
7282907 T
1 T
7282908 AATGAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTAATCTTTAATTT
Found at i:7283965 original size:13 final size:13
Alignment explanation
Indices: 7283926--7283966 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
7283916 AAATAAAAAA
* *
7283926 ATAATTTATTATA
1 ATAATTTTTTATT
*
7283939 ATAATTTTTAATT
1 ATAATTTTTTATT
7283952 ATAATTTTTTATT
1 ATAATTTTTTATT
7283965 AT
1 AT
7283967 TTGTGATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATAATTTTTTATT
Found at i:7284093 original size:14 final size:14
Alignment explanation
Indices: 7284074--7284100 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7284064 CATGAAACTT
7284074 ACTTTAAAAAAATG
1 ACTTTAAAAAAATG
7284088 ACTTTAAAAAAAT
1 ACTTTAAAAAAAT
7284101 TATAAAAAAA
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:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (14 bp):
ACTTTAAAAAAATG
Found at i:7284249 original size:18 final size:18
Alignment explanation
Indices: 7284226--7284261 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7284216 TTTTTTTTCC
**
7284226 AAATAAAAGTATTAAAAA
1 AAATAAAAAAATTAAAAA
7284244 AAATAAAAAAATTAAAAA
1 AAATAAAAAAATTAAAAA
7284262 TGATTGAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATAAAAAAATTAAAAA
Found at i:7287981 original size:32 final size:32
Alignment explanation
Indices: 7287935--7287998 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
7287925 TTAATGCCTG
7287935 TATGAACTCAAGGTTGTAAAC-TTCGAGTGTT
1 TATGAACTCAAGGTTGTAAACTTTCGAGTGTT
* * *
7287966 TATGAAACTTAAGGTTTTAAACTTTTGAGTGTT
1 TATG-AACTCAAGGTTGTAAACTTTCGAGTGTT
7287999 GGTGGAACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 4 0.14
32 15 0.54
33 9 0.32
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (32 bp):
TATGAACTCAAGGTTGTAAACTTTCGAGTGTT
Found at i:7288008 original size:33 final size:32
Alignment explanation
Indices: 7287938--7288008 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 32
7287928 ATGCCTGTAT
* *
7287938 GAACTCAAGGTTGTAAACTTCGAGTGTTTATG
1 GAACTTAAGGTTGTAAACTTCGAGTGTTGATG
* * * *
7287970 AAACTTAAGGTTTTAAACTTTTGAGTGTTGGTG
1 GAACTTAAGGTTGTAAAC-TTCGAGTGTTGATG
7288003 GAACTT
1 GAACTT
7288009 TAATAGCGAC
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (32 bp):
GAACTTAAGGTTGTAAACTTCGAGTGTTGATG
Found at i:7291167 original size:12 final size:11
Alignment explanation
Indices: 7291119--7291187 Score: 57
Period size: 12 Copynumber: 5.7 Consensus size: 11
7291109 TTTTAAATAT
*
7291119 AAATATTTAAA
1 AAATAATTAAA
* *
7291130 AATATCATTATAT
1 AA-ATAATTA-AA
7291143 AAATATATATAAA
1 AAATA-AT-TAAA
7291156 TAAATAATTAAA
1 -AAATAATTAAA
7291168 AAATTAATTAAA
1 AAA-TAATTAAA
7291180 AAATAATT
1 AAATAATT
7291188 TTTTAAATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
11 10 0.21
12 22 0.47
13 8 0.17
14 7 0.15
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (11 bp):
AAATAATTAAA
Found at i:7299993 original size:15 final size:16
Alignment explanation
Indices: 7299973--7300003 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
7299963 TTTCTATTTC
7299973 ATTAATTGCTT-ACTT
1 ATTAATTGCTTGACTT
7299988 ATTAATTGCTTGACTT
1 ATTAATTGCTTGACTT
7300004 GGCATTTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.52
Consensus pattern (16 bp):
ATTAATTGCTTGACTT
Found at i:7301172 original size:2 final size:2
Alignment explanation
Indices: 7301165--7301190 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7301155 TTAATTTGGG
7301165 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
7301191 AGTAAAATTT
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):
TA
Found at i:7301291 original size:21 final size:21
Alignment explanation
Indices: 7301254--7301432 Score: 85
Period size: 21 Copynumber: 8.6 Consensus size: 21
7301244 ACCTCTATTA
* *
7301254 AAAATTTCG-TAATTTTTGAT
1 AAAATTTTGATAACTTTTGAT
7301274 AAAATTTTGATAACTTTTGAT
1 AAAATTTTGATAACTTTTGAT
* * * *
7301295 ACAATTTTGTTAACATTCGAT
1 AAAATTTTGATAACTTTTGAT
** * *
7301316 ATTACTTTGATAA-TTATGAT
1 AAAATTTTGATAACTTTTGAT
* ** **
7301336 ATAATTTTTTTAACCATTGAT
1 AAAATTTTGATAACTTTTGAT
* * *
7301357 ACAATTTTTG-TAATTTTTTAT
1 A-AAATTTTGATAACTTTTGAT
* * *
7301378 AAAATTTTAATAATTTTTAAT
1 AAAATTTTGATAACTTTTGAT
** * * *
7301399 GTAATTTTGGTAACCTTTCAT
1 AAAATTTTGATAACTTTTGAT
*
7301420 ATAATTTTGATAA
1 AAAATTTTGATAA
7301433 TTTATAATAT
Statistics
Matches: 116, Mismatches: 39, Indels: 7
0.72 0.24 0.04
Matches are distributed among these distances:
20 27 0.23
21 84 0.72
22 5 0.04
ACGTcount: A:0.35, C:0.07, G:0.08, T:0.50
Consensus pattern (21 bp):
AAAATTTTGATAACTTTTGAT
Found at i:7301336 original size:41 final size:42
Alignment explanation
Indices: 7301279--7301357 Score: 108
Period size: 41 Copynumber: 1.9 Consensus size: 42
7301269 TTGATAAAAT
*
7301279 TTTGATAACTTTTGATACAATTTTGTTAA-CATTCGATATTAC
1 TTTGATAACTTATGATACAATTTTGTTAACCATT-GATATTAC
* *
7301321 TTTGATAA-TTATGATATAATTTTTTTAACCATTGATA
1 TTTGATAACTTATGATACAATTTTGTTAACCATTGATA
7301358 CAATTTTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 21 0.64
42 12 0.36
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (42 bp):
TTTGATAACTTATGATACAATTTTGTTAACCATTGATATTAC
Found at i:7301405 original size:42 final size:42
Alignment explanation
Indices: 7301359--7301468 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
7301349 CCATTGATAC
* * * *
7301359 AATTTTTGTAATTTTTTATAAAATTTTAATAATTTTTAATGT
1 AATTTTTGTAATCTTTAATAAAATTTTAATAATTTATAATAT
* * * * *
7301401 AATTTTGGTAACCTTTCATATAATTTTGATAATTTATAATAT
1 AATTTTTGTAATCTTTAATAAAATTTTAATAATTTATAATAT
* *
7301443 ACTTTTTGTAATCCTTAATAAAATTT
1 AATTTTTGTAATCTTTAATAAAATTT
7301469 GTGACATCAT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (42 bp):
AATTTTTGTAATCTTTAATAAAATTTTAATAATTTATAATAT
Found at i:7301442 original size:21 final size:21
Alignment explanation
Indices: 7301362--7301448 Score: 77
Period size: 21 Copynumber: 4.2 Consensus size: 21
7301352 TTGATACAAT
* *
7301362 TTTTG-TAATTTTTTATAAAA
1 TTTTGATAATTTTTAATATAA
* *
7301382 TTTTAATAATTTTTAATGTAA
1 TTTTGATAATTTTTAATATAA
* ** *
7301403 TTTTGGTAACCTTTCATATAA
1 TTTTGATAATTTTTAATATAA
* *
7301424 TTTTGATAATTTATAATATAC
1 TTTTGATAATTTTTAATATAA
7301445 TTTT
1 TTTT
7301449 TGTAATCCTT
Statistics
Matches: 50, Mismatches: 16, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
20 4 0.08
21 46 0.92
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (21 bp):
TTTTGATAATTTTTAATATAA
Found at i:7301746 original size:22 final size:21
Alignment explanation
Indices: 7301721--7301787 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
7301711 ATTATTGACA
7301721 ATTATATTATCATTAATTTACT
1 ATTATATTATCA-TAATTTACT
* * *
7301743 ATTATGTCATCAATGATTTACT
1 ATTATATTATC-ATAATTTACT
* *
7301765 ATTAAATTATTGATAATTTACT
1 ATTATATTA-TCATAATTTACT
7301787 A
1 A
7301788 CTAAGTTATA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
22 33 0.94
23 2 0.06
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.49
Consensus pattern (21 bp):
ATTATATTATCATAATTTACT
Found at i:7301805 original size:22 final size:22
Alignment explanation
Indices: 7301736--7301869 Score: 76
Period size: 22 Copynumber: 6.1 Consensus size: 22
7301726 ATTATCATTA
* * * *
7301736 ATTTACTATTATGTCATCAATG
1 ATTTACTACTAAGTTATAAATG
* * ** *
7301758 ATTTACTATTAAATTATTGATA
1 ATTTACTACTAAGTTATAAATG
7301780 ATTTACTACTAAGTTATAAATG
1 ATTTACTACTAAGTTATAAATG
* *
7301802 ATTTATTA-TAAGGTTATAAATT
1 ATTTACTACTAA-GTTATAAATG
* *
7301824 ATTTGCTACTAA-TTA-ATGATG
1 ATTTACTACTAAGTTATA-AATG
*** *
7301845 ATTTACTTGAAAGTTATCAATG
1 ATTTACTACTAAGTTATAAATG
7301867 ATT
1 ATT
7301870 AATTAATTAA
Statistics
Matches: 84, Mismatches: 23, Indels: 10
0.72 0.20 0.09
Matches are distributed among these distances:
20 1 0.01
21 16 0.19
22 64 0.76
23 3 0.04
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (22 bp):
ATTTACTACTAAGTTATAAATG
Found at i:7301932 original size:25 final size:25
Alignment explanation
Indices: 7301881--7301954 Score: 91
Period size: 25 Copynumber: 3.1 Consensus size: 25
7301871 ATTAATTAAT
*
7301881 TACTAAATTATCAATGATTTAC-A-
1 TACTAAATTATCAATAATTTACTAC
* * *
7301904 -ACTAAGTTATTAGTAATTTACTAC
1 TACTAAATTATCAATAATTTACTAC
7301928 TACTAAATTATCAATAATTTACTAC
1 TACTAAATTATCAATAATTTACTAC
7301953 TA
1 TA
7301955 GATTATTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
22 17 0.41
23 1 0.02
25 23 0.56
ACGTcount: A:0.42, C:0.14, G:0.04, T:0.41
Consensus pattern (25 bp):
TACTAAATTATCAATAATTTACTAC
Found at i:7301939 original size:47 final size:47
Alignment explanation
Indices: 7301881--7301973 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
7301871 ATTAATTAAT
* *
7301881 TACTAAATTATCAATGATTTACAACTA-AGTTATTAGTAATTTACTAC
1 TACTAAATTATCAATAATTTACAACTAGA-TTATTAATAATTTACTAC
*
7301928 TACTAAATTATCAATAATTTACTACTAGATTATTAATAATTTACTA
1 TACTAAATTATCAATAATTTACAACTAGATTATTAATAATTTACTA
7301974 ATATGATATC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
47 41 0.98
48 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (47 bp):
TACTAAATTATCAATAATTTACAACTAGATTATTAATAATTTACTAC
Found at i:7301962 original size:25 final size:22
Alignment explanation
Indices: 7301912--7301973 Score: 54
Period size: 25 Copynumber: 2.7 Consensus size: 22
7301902 CAACTAAGTT
* *
7301912 ATTAGTAATTTACTACTACTAA
1 ATTAATAATTTACTACTAATAA
*
7301934 ATTATCAATAATTTACTACTAGAT-T
1 A-T-T-AATAATTTACTACTA-ATAA
7301959 ATTAATAATTTACTA
1 ATTAATAATTTACTA
7301974 ATATGATATC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 13 0.39
23 2 0.06
24 2 0.06
25 15 0.45
26 1 0.03
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (22 bp):
ATTAATAATTTACTACTAATAA
Found at i:7301972 original size:22 final size:22
Alignment explanation
Indices: 7301867--7301973 Score: 97
Period size: 22 Copynumber: 4.7 Consensus size: 22
7301857 GTTATCAATG
* *
7301867 ATTAATTAATTAATTACTAAATT
1 ATTAA-TAATTTACTACTAAATT
* * * *
7301890 ATCAATGATTTACAACTAAGTT
1 ATTAATAATTTACTACTAAATT
*
7301912 ATTAGTAATTTACTACTACTAAATT
1 ATTAATAA-TT--TACTACTAAATT
* *
7301937 ATCAATAATTTACTACTAGATT
1 ATTAATAATTTACTACTAAATT
7301959 ATTAATAATTTACTA
1 ATTAATAATTTACTA
7301974 ATATGATATC
Statistics
Matches: 66, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
22 42 0.64
23 6 0.09
24 2 0.03
25 16 0.24
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (22 bp):
ATTAATAATTTACTACTAAATT
Found at i:7302091 original size:10 final size:10
Alignment explanation
Indices: 7302076--7302126 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
7302066 TATCACTCTT
*
7302076 TTATATTAAA
1 TTATATTAAG
7302086 TTATATTAAG
1 TTATATTAAG
*
7302096 TTATCGA-TAAT
1 TTAT--ATTAAG
7302107 TTATTATTAAG
1 TTA-TATTAAG
7302118 TTATATTAA
1 TTATATTAA
7302127 TTTACTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 20 0.59
11 12 0.35
12 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (10 bp):
TTATATTAAG
Found at i:7302117 original size:22 final size:21
Alignment explanation
Indices: 7302089--7302187 Score: 74
Period size: 22 Copynumber: 4.5 Consensus size: 21
7302079 TATTAAATTA
7302089 TATTAAGTTATCGATAATTTAT
1 TATTAAGTTATC-ATAATTTAT
7302111 TATTAAGTTAT-ATTAATTTACT
1 TATTAAGTTATCA-TAATTTA-T
* * * *
7302133 TTTTAAGTTTTCAATAATTAAC
1 TATTAAGTTATC-ATAATTTAT
* * * *
7302155 TATTAAATTATCATTGAGTTAC
1 TATTAAGTTATCA-TAATTTAT
7302177 TATTAAGTTAT
1 TATTAAGTTAT
7302188 TTATGATTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
20 1 0.02
21 8 0.13
22 45 0.74
23 6 0.10
24 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.51
Consensus pattern (21 bp):
TATTAAGTTATCATAATTTAT
Found at i:7302183 original size:44 final size:44
Alignment explanation
Indices: 7302076--7302187 Score: 113
Period size: 44 Copynumber: 2.6 Consensus size: 44
7302066 TATCACTCTT
* * * * *
7302076 TTATATTAAATTA--TATTAAGTTATCGATAATTTATTATTAAG
1 TTATATTAAGTTACTTATTAAGTTATCAATAATTAACTATTAAA
* * *
7302118 TTATATTAATTTACTTTTTAAGTTTTCAATAATTAACTATTAAA
1 TTATATTAAGTTACTTATTAAGTTATCAATAATTAACTATTAAA
*
7302162 TTATCATTGAGTTAC-TATTAAGTTAT
1 TTAT-ATTAAGTTACTTATTAAGTTAT
7302188 TTATGATTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 12 0.21
44 36 0.64
45 8 0.14
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.51
Consensus pattern (44 bp):
TTATATTAAGTTACTTATTAAGTTATCAATAATTAACTATTAAA
Found at i:7302276 original size:22 final size:22
Alignment explanation
Indices: 7302251--7302294 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
7302241 TACTATTTAA
*
7302251 TTATAATTTATTTATTACTAAG
1 TTATAACTTATTTATTACTAAG
* * *
7302273 TTATCACTTATTTTTTATTAAG
1 TTATAACTTATTTATTACTAAG
7302295 CTATCCTTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.57
Consensus pattern (22 bp):
TTATAACTTATTTATTACTAAG
Found at i:7302307 original size:22 final size:22
Alignment explanation
Indices: 7302258--7302303 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
7302248 TAATTATAAT
*
7302258 TTATTTATTACTAAGTTATCAC
1 TTATTTATTACTAAGCTATCAC
* *
7302280 TTATTTTTTATTAAGCTATC-C
1 TTATTTATTACTAAGCTATCAC
7302301 TTA
1 TTA
7302304 ATTTCCTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.28, C:0.13, G:0.04, T:0.54
Consensus pattern (22 bp):
TTATTTATTACTAAGCTATCAC
Found at i:7302594 original size:22 final size:22
Alignment explanation
Indices: 7302553--7302605 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
7302543 TAAATGATTG
* * *
7302553 ATAAGTTATAACTAATTTACTA
1 ATAAATTATAAATAACTTACTA
*
7302575 CTAAATTATAAATAACTTACTA
1 ATAAATTATAAATAACTTACTA
7302597 ATAAATTAT
1 ATAAATTAT
7302606 CCATGATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (22 bp):
ATAAATTATAAATAACTTACTA
Found at i:7302709 original size:43 final size:43
Alignment explanation
Indices: 7302651--7302757 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
7302641 TTAAGATATG
* * * *
7302651 AATGATTTATCATAAAATTGTTGA-TGATTTACTACTAA-TTATT
1 AATGATTTATTATAAAATT-ATAACTGATTTACTAC-AATTTATC
7302694 AATGATTTATTATAAAATTATAACTGATTTACTACAATTTATC
1 AATGATTTATTATAAAATTATAACTGATTTACTACAATTTATC
7302737 AATGATTTATTATAAAATTAT
1 AATGATTTATTATAAAATTAT
7302758 CATTGATTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
42 4 0.07
43 54 0.93
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (43 bp):
AATGATTTATTATAAAATTATAACTGATTTACTACAATTTATC
Found at i:7302721 original size:22 final size:21
Alignment explanation
Indices: 7302651--7302757 Score: 85
Period size: 21 Copynumber: 5.0 Consensus size: 21
7302641 TTAAGATATG
* *
7302651 AATGATTTATCATAAAATTGTT
1 AATGATTTATTATAAAATT-AT
* *
7302673 GATGATTTACTACT--AATTATT
1 AATGATTTATTA-TAAAATTA-T
7302694 AATGATTTATTATAAAATTAT
1 AATGATTTATTATAAAATTAT
* * *
7302715 AACTGATTTACTA-CAATTTAT
1 AA-TGATTTATTATAAAATTAT
7302736 CAATGATTTATTATAAAATTAT
1 -AATGATTTATTATAAAATTAT
7302758 CATTGATTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
20 1 0.02
21 33 0.50
22 31 0.47
23 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (21 bp):
AATGATTTATTATAAAATTAT
Found at i:7302764 original size:22 final size:22
Alignment explanation
Indices: 7302599--7302765 Score: 94
Period size: 22 Copynumber: 7.7 Consensus size: 22
7302589 ACTTACTAAT
*
7302599 AAATTATCCATGATTTATTACT-
1 AAATTATCAATGATTTATTA-TA
* * * * *
7302621 AATTTTTGAATAATTTATCATTA
1 AAATTATCAATGATTTATTA-TA
* * *
7302644 AGA-TATGAATGATTTATCATA
1 AAATTATCAATGATTTATTATA
* ** *
7302665 AAATTGTTGATGATTTACTACT-
1 AAATTATCAATGATTTATTA-TA
*
7302687 -AATTATTAATGATTTATTATA
1 AAATTATCAATGATTTATTATA
* *
7302708 AAATTAT-AACTGATTTACTA-C
1 AAATTATCAA-TGATTTATTATA
*
7302729 AATTTATCAATGATTTATTATA
1 AAATTATCAATGATTTATTATA
*
7302751 AAATTATCATTGATT
1 AAATTATCAATGATT
7302766 AACTAAAATA
Statistics
Matches: 110, Mismatches: 27, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
20 1 0.01
21 37 0.34
22 70 0.64
23 2 0.02
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (22 bp):
AAATTATCAATGATTTATTATA
Found at i:7302778 original size:22 final size:22
Alignment explanation
Indices: 7302674--7302778 Score: 76
Period size: 22 Copynumber: 4.9 Consensus size: 22
7302664 AAAATTGTTG
** *
7302674 ATGATTTACTACTA-ATTATTA
1 ATGATTTACTAAAATATTATCA
*
7302695 ATGATTTATTATAAA-ATTAT-A
1 ATGATTTACTA-AAATATTATCA
*
7302716 ACTGATTTACTACAAT-TTATCA
1 A-TGATTTACTAAAATATTATCA
*
7302738 ATGATTTATTATAAA-ATTATCA
1 ATGATTTACTA-AAATATTATCA
* *
7302760 TTGATTAACTAAAATATTA
1 ATGATTTACTAAAATATTA
7302779 CTAAAATATC
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
21 30 0.45
22 37 0.55
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.45
Consensus pattern (22 bp):
ATGATTTACTAAAATATTATCA
Found at i:7302993 original size:22 final size:22
Alignment explanation
Indices: 7302968--7303015 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7302958 TTGATTATTC
7302968 ACTACAAAATTAT-TATCAATTT
1 ACTACAAAATTATCTAT-AATTT
* *
7302990 ACTACTATATTATCTATAATTT
1 ACTACAAAATTATCTATAATTT
7303012 ACTA
1 ACTA
7303016 TTAAATTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
ACTACAAAATTATCTATAATTT
Found at i:7303865 original size:22 final size:22
Alignment explanation
Indices: 7303839--7303894 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
7303829 AATATAATAT
* * *
7303839 TAAATTATCATTGATTTATTAC
1 TAAATTATCATTAATTAACTAC
*
7303861 TAAATTATCAATAATTAACTAC
1 TAAATTATCATTAATTAACTAC
*
7303883 TAAGTTATCATT
1 TAAATTATCATT
7303895 TTTTAATAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.45
Consensus pattern (22 bp):
TAAATTATCATTAATTAACTAC
Found at i:7304073 original size:44 final size:44
Alignment explanation
Indices: 7303988--7304074 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
7303978 GCAAGTTATG
* * ** *
7303988 TTATTATTTATTTACTACTGAGTTATCAATTATTAAGTACTAAA
1 TTATTATTAATTTACTACTAAGTTATCAAGAATTAACTACTAAA
* * *
7304032 TTATTATTAATTTACTATTAAGTTATCACGAATTTACTACTAA
1 TTATTATTAATTTACTACTAAGTTATCAAGAATTAACTACTAA
7304075 GTGATCCATA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (44 bp):
TTATTATTAATTTACTACTAAGTTATCAAGAATTAACTACTAAA
Found at i:7304087 original size:22 final size:22
Alignment explanation
Indices: 7304039--7304089 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
7304029 AAATTATTAT
* *
7304039 TAATTTACTATTAAGTTATCAC
1 TAATTTACTACTAAGTGATCAC
*
7304061 GAATTTACTACTAAGTGATC-C
1 TAATTTACTACTAAGTGATCAC
7304082 ATAATTTA
1 -TAATTTA
7304090 AGATTAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (22 bp):
TAATTTACTACTAAGTGATCAC
Found at i:7307109 original size:92 final size:92
Alignment explanation
Indices: 7306952--7307134 Score: 303
Period size: 92 Copynumber: 2.0 Consensus size: 92
7306942 TCTAACATTG
7306952 GCATAAGCACAATTAAAAGATAGTTCCAATAAAATTTGTCACACCTTAAAAAATTCATAAAAAAT
1 GCATAAGCACAATTAAAAGATAGTTCCAATAAAATTTGTCACACCTTAAAAAATTCATAAAAAAT
*
7307017 AATTAATTATACTTCACTTAATAATTA
66 AATTAATCATACTTCACTTAATAATTA
* * * **
7307044 GCATAAGCACAATTAAAAGATAGTTCCAATAAAATTTGTCTCACTTTAAAAATTTTGTAAAAAAT
1 GCATAAGCACAATTAAAAGATAGTTCCAATAAAATTTGTCACACCTTAAAAAATTCATAAAAAAT
*
7307109 AATTAATCATACTTCACTTGATAATT
66 AATTAATCATACTTCACTTAATAATT
7307135 CTCTACTTAG
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 84 1.00
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (92 bp):
GCATAAGCACAATTAAAAGATAGTTCCAATAAAATTTGTCACACCTTAAAAAATTCATAAAAAAT
AATTAATCATACTTCACTTAATAATTA
Found at i:7307599 original size:25 final size:24
Alignment explanation
Indices: 7307566--7307625 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 24
7307556 TTATGTTATC
7307566 AATGATCAAATAATTTGTACCACAA
1 AATGATCAAATAATTTGTACCA-AA
* *
7307591 AATGGTCAAATGATTTGTACCAAA
1 AATGATCAAATAATTTGTACCAAA
7307615 AGATGATCAAA
1 A-ATGATCAAA
7307626 CATTCAACTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 3 0.10
25 28 0.90
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (24 bp):
AATGATCAAATAATTTGTACCAAA
Found at i:7308098 original size:17 final size:17
Alignment explanation
Indices: 7308076--7308110 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7308066 CAGCATTTTT
*
7308076 AAATCTAATTATAAAAA
1 AAATCTAATAATAAAAA
7308093 AAATCTAATAATAAAAA
1 AAATCTAATAATAAAAA
7308110 A
1 A
7308111 GAAAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATCTAATAATAAAAA
Found at i:7308806 original size:12 final size:11
Alignment explanation
Indices: 7308772--7308812 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
7308762 ACAAAATTAT
7308772 TAAAGTAAATAA
1 TAAA-TAAATAA
7308784 T-AAT-AATAA
1 TAAATAAATAA
7308793 TAAATAAATAAA
1 TAAATAAAT-AA
7308805 TAAATAAA
1 TAAATAAA
7308813 ATACACGTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 6 0.23
10 4 0.15
11 5 0.19
12 11 0.42
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (11 bp):
TAAATAAATAA
Found at i:7309190 original size:16 final size:16
Alignment explanation
Indices: 7309166--7309196 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7309156 TTTTATATGA
7309166 AAAAGTTAATAATAAT
1 AAAAGTTAATAATAAT
*
7309182 AAAATTTAATAATAA
1 AAAAGTTAATAATAA
7309197 AAATCACTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAAAGTTAATAATAAT
Found at i:7309258 original size:14 final size:14
Alignment explanation
Indices: 7309221--7309269 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
7309211 AAAATTTATT
*
7309221 AAAAATTAATAAATG
1 AAAAATTAA-AAATA
* *
7309236 AGAATTTAAAAATA
1 AAAAATTAAAAATA
*
7309250 AAAAATTAACAATA
1 AAAAATTAAAAATA
7309264 AAAAAT
1 AAAAAT
7309270 ATTTAAATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 21 0.75
15 7 0.25
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (14 bp):
AAAAATTAAAAATA
Found at i:7309512 original size:2 final size:2
Alignment explanation
Indices: 7309505--7309535 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7309495 ACATTGATGA
7309505 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 A
7309536 ATAAAAGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7312613 original size:14 final size:15
Alignment explanation
Indices: 7312576--7312614 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
7312566 ATCTATAAAA
7312576 AAAATTTTTTCTATT
1 AAAATTTTTTCTATT
*
7312591 AAAATTTTTT-TTTT
1 AAAATTTTTTCTATT
7312605 CAAAATTTTT
1 -AAAATTTTT
7312615 AATTCATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (15 bp):
AAAATTTTTTCTATT
Found at i:7312633 original size:21 final size:19
Alignment explanation
Indices: 7312607--7312657 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 19
7312597 TTTTTTTTCA
7312607 AAATTT-TTAATTCATCAAAT
1 AAATTTATTAATT--TCAAAT
7312627 AATATTTAATTAATTTCAAAT
1 AA-ATTT-ATTAATTTCAAAT
7312648 AAATTTATTA
1 AAATTTATTA
7312658 TGAGATTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
19 4 0.14
20 6 0.21
21 12 0.43
23 6 0.21
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATTTATTAATTTCAAAT
Found at i:7312711 original size:2 final size:2
Alignment explanation
Indices: 7312704--7312733 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7312694 ATGAAATTTG
*
7312704 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7312734 TGGTGATGTA
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7313310 original size:41 final size:41
Alignment explanation
Indices: 7313259--7313345 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
7313249 TAATTTTAAC
* * * *
7313259 TAATA-AATAAACTTATTTTATTTTAATTCTTATAT-ATATA
1 TAATATAATAAAATAATATTATTTTAATT-TAATATAATATA
*
7313299 TAATATAATAAAATAATATTATTTTAATTTAATATAATTTA
1 TAATATAATAAAATAATATTATTTTAATTTAATATAATATA
7313340 TAATAT
1 TAATAT
7313346 CATTTTATCA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
40 10 0.25
41 30 0.75
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (41 bp):
TAATATAATAAAATAATATTATTTTAATTTAATATAATATA
Found at i:7314580 original size:17 final size:18
Alignment explanation
Indices: 7314560--7314594 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7314550 TAAAATTGGT
7314560 TTAATTAA-AATTAAAAA
1 TTAATTAATAATTAAAAA
*
7314577 TTAATTAATTATTAAAAA
1 TTAATTAATAATTAAAAA
7314595 AATAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAATTAATAATTAAAAA
Found at i:7316050 original size:16 final size:16
Alignment explanation
Indices: 7316031--7316149 Score: 77
Period size: 16 Copynumber: 7.6 Consensus size: 16
7316021 ATCCTAAGTT
7316031 TCTAAAACCCCTAAAA
1 TCTAAAACCCCTAAAA
* *
7316047 TCTAAAA-TCTTAAAA
1 TCTAAAACCCCTAAAA
7316062 TCTAAAA-CCCTAAAA
1 TCTAAAACCCCTAAAA
**
7316077 TCCGAAACCCCTAAAA
1 TCTAAAACCCCTAAAA
*** *
7316093 T-TCAAAATTTCTTAAA
1 TCT-AAAACCCCTAAAA
*
7316109 T-TTAAACCCCTAAAA
1 TCTAAAACCCCTAAAA
**
7316124 T-TCAAAACCTTTAAAA
1 TCT-AAAACCCCTAAAA
*
7316140 TCCAAAACCC
1 TCTAAAACCC
7316150 AATAAAATCC
Statistics
Matches: 77, Mismatches: 22, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
15 34 0.44
16 43 0.56
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.25
Consensus pattern (16 bp):
TCTAAAACCCCTAAAA
Found at i:7316062 original size:15 final size:15
Alignment explanation
Indices: 7316031--7316093 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
7316021 ATCCTAAGTT
7316031 TCTAAAACCCCTAAAA
1 TCTAAAA-CCCTAAAA
* *
7316047 TCTAAAATCTTAAAA
1 TCTAAAACCCTAAAA
7316062 TCTAAAACCCTAAAA
1 TCTAAAACCCTAAAA
* *
7316077 TCCGAAACCCCTAAAA
1 T-CTAAAACCCTAAAA
7316093 T
1 T
7316094 TCAAAATTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
15 20 0.50
16 20 0.50
ACGTcount: A:0.49, C:0.27, G:0.02, T:0.22
Consensus pattern (15 bp):
TCTAAAACCCTAAAA
Found at i:7316139 original size:47 final size:48
Alignment explanation
Indices: 7316034--7316146 Score: 133
Period size: 47 Copynumber: 2.4 Consensus size: 48
7316024 CTAAGTTTCT
*
7316034 AAAACCCCTAAAATCTAAAA--TCTTAAAATCTAAAACCCTAAAATCC
1 AAAACCCCTAAAATCCAAAATTTCTTAAAATCTAAAACCCTAAAATCC
* * * * *
7316080 GAAACCCCTAAAATTCAAAATTTCTT-AAATTTAAACCCCTAAAATTC
1 AAAACCCCTAAAATCCAAAATTTCTTAAAATCTAAAACCCTAAAATCC
**
7316127 AAAACCTTTAAAATCCAAAA
1 AAAACCCCTAAAATCCAAAA
7316147 CCCAATAAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
46 17 0.31
47 34 0.62
48 4 0.07
ACGTcount: A:0.50, C:0.24, G:0.01, T:0.25
Consensus pattern (48 bp):
AAAACCCCTAAAATCCAAAATTTCTTAAAATCTAAAACCCTAAAATCC
Found at i:7327624 original size:19 final size:20
Alignment explanation
Indices: 7327602--7327647 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
7327592 AAAAAAAAAG
*
7327602 AAAAAATGGATAAAAAT-AC
1 AAAAAATGGACAAAAATGAC
7327621 AAAAAATGGACAAAAATGGAC
1 AAAAAATGGACAAAAAT-GAC
7327642 AAAAAA
1 AAAAAA
7327648 AAGAGAAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
21 8 0.33
ACGTcount: A:0.70, C:0.07, G:0.13, T:0.11
Consensus pattern (20 bp):
AAAAAATGGACAAAAATGAC
Found at i:7327635 original size:9 final size:10
Alignment explanation
Indices: 7327603--7327646 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
7327593 AAAAAAAAGA
*
7327603 AAAAATGGAT
1 AAAAATGGAC
7327613 AAAAAT--AC
1 AAAAATGGAC
7327621 AAAAAATGGAC
1 -AAAAATGGAC
7327632 AAAAATGGAC
1 AAAAATGGAC
7327642 AAAAA
1 AAAAA
7327647 AAAGAGAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
8 1 0.03
9 6 0.20
10 21 0.70
11 2 0.07
ACGTcount: A:0.68, C:0.07, G:0.14, T:0.11
Consensus pattern (10 bp):
AAAAATGGAC
Found at i:7328921 original size:36 final size:36
Alignment explanation
Indices: 7328744--7329214 Score: 209
Period size: 35 Copynumber: 13.0 Consensus size: 36
7328734 AATCTCGATT
* *
7328744 ATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTC
1 ATTCTTATATCTT-T-GACTTGCGGTTTAATCCTAGTC
* * * * * *
7328782 ATTTTTATTTCTTTGACTTGCAGTTCAGT-CTCAGTT
1 ATTCTTATATCTTTGACTTGCGGTTTAATCCT-AGTC
*** *
7328818 A-TCTT-TAATCTTTGACTCATGGTTTAAT-CTCGTTC
1 ATTCTTAT-ATCTTTGACTTGCGGTTTAATCCTAG-TC
* * *
7328853 ATTCTTATAGCTTCTCAACTTACGGTTTAATCCTAGTC
1 ATTCTTATATCTT-T-GACTTGCGGTTTAATCCTAGTC
* * * * **
7328891 GTTTTTATTTCTTTGACTTGCGGTTCAATCCCGGTC
1 ATTCTTATATCTTTGACTTGCGGTTTAATCCTAGTC
* * * *
7328927 ATCCTTA-ATCTTTGACTCGTGGTTTAATCC-CGATC
1 ATTCTTATATCTTTGACTTGCGGTTTAATCCTAG-TC
* *
7328962 ATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTC
1 ATTCTTATATCTT-T-GACTTGCGGTTTAATCCTAGTC
* * * * *
7329000 ATTTTTATTTCTTTGACTTGCGGTTCAGT-CTCAGTT
1 ATTCTTATATCTTTGACTTGCGGTTTAATCCT-AGTC
*
7329036 A-TCTT-TAATCTTTGAC-T-CGTGTTTAATCC-CGATC
1 ATTCTTAT-ATCTTTGACTTGCG-GTTTAATCCTAG-TC
* **
7329070 ATTCTTATAGCTTCTCGACTTATGGTTTAATCCTAGTC
1 ATTCTTATATCTT-T-GACTTGCGGTTTAATCCTAGTC
* * * * *
7329108 ACTT-TTATTTCTCTGACTTGCGATTTAGTCCTAGTT
1 A-TTCTTATATCTTTGACTTGCGGTTTAATCCTAGTC
* * * *
7329144 A-TCTT-TAATCTTTGACTCGTGGTTTAATTCTAATC
1 ATTCTTAT-ATCTTTGACTTGCGGTTTAATCCTAGTC
* * * * *
7329179 ATTTTTATAGTTTTTGAATTACGATTTAATCC-AGTC
1 ATTCTTATA-TCTTTGACTTGCGGTTTAATCCTAGTC
7329215 TCCTTATTTT
Statistics
Matches: 314, Mismatches: 88, Indels: 64
0.67 0.19 0.14
Matches are distributed among these distances:
33 3 0.01
34 14 0.04
35 94 0.30
36 91 0.29
37 26 0.08
38 78 0.25
39 8 0.03
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.46
Consensus pattern (36 bp):
ATTCTTATATCTTTGACTTGCGGTTTAATCCTAGTC
Found at i:7328956 original size:35 final size:36
Alignment explanation
Indices: 7328744--7329134 Score: 168
Period size: 38 Copynumber: 10.8 Consensus size: 36
7328734 AATCTCGATT
* * **
7328744 ATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTC
1 ATTCTTATATCTT-T-GACTTGCGGTTTAATCCCGGTC
* * * * * * * *
7328782 ATTTTTATTTCTTTGACTTGCAGTTCAGTCTCAGTT
1 ATTCTTATATCTTTGACTTGCGGTTTAATCCCGGTC
*** * *
7328818 A-TCTT-TAATCTTTGACTCATGGTTTAATCTCGTTC
1 ATTCTTAT-ATCTTTGACTTGCGGTTTAATCCCGGTC
* * * **
7328853 ATTCTTATAGCTTCTCAACTTACGGTTTAATCCTAGTC
1 ATTCTTATATCTT-T-GACTTGCGGTTTAATCCCGGTC
* * * *
7328891 GTTTTTATTTCTTTGACTTGCGGTTCAATCCCGGTC
1 ATTCTTATATCTTTGACTTGCGGTTTAATCCCGGTC
* * * *
7328927 ATCCTTA-ATCTTTGACTCGTGGTTTAATCCCGATC
1 ATTCTTATATCTTTGACTTGCGGTTTAATCCCGGTC
* * **
7328962 ATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTC
1 ATTCTTATATCTT-T-GACTTGCGGTTTAATCCCGGTC
* * * * * * *
7329000 ATTTTTATTTCTTTGACTTGCGGTTCAGTCTCAGTT
1 ATTCTTATATCTTTGACTTGCGGTTTAATCCCGGTC
*
7329036 A-TCTT-TAATCTTTGAC-T-CGTGTTTAATCCCGATC
1 ATTCTTAT-ATCTTTGACTTGCG-GTTTAATCCCGGTC
* ** **
7329070 ATTCTTATAGCTTCTCGACTTATGGTTTAATCCTAGTC
1 ATTCTTATATCTT-T-GACTTGCGGTTTAATCCCGGTC
* * *
7329108 ACTT-TTATTTCTCTGACTTGCGATTTA
1 A-TTCTTATATCTTTGACTTGCGGTTTA
7329135 GTCCTAGTTA
Statistics
Matches: 254, Mismatches: 82, Indels: 36
0.68 0.22 0.10
Matches are distributed among these distances:
33 2 0.01
34 12 0.05
35 70 0.28
36 78 0.31
37 10 0.04
38 79 0.31
39 3 0.01
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (36 bp):
ATTCTTATATCTTTGACTTGCGGTTTAATCCCGGTC
Found at i:7328991 original size:38 final size:36
Alignment explanation
Indices: 7328685--7329102 Score: 162
Period size: 35 Copynumber: 11.5 Consensus size: 36
7328675 TTTTATTTTC
** * *
7328685 TTGACTTGTGGTTCAATCTCGATCA-TCGTTA-ATCT
1 TTGACTTACGGTTTAATCCCGATCATTC-TTATATCT
* * * * * *
7328720 TTGACTCATGATTTAATCTCGATTATTCTTATAGCT
1 TTGACTTACGGTTTAATCCCGATCATTCTTATATCT
* * *
7328756 TCTCGACTTACGGTTTAAT-CCTAGTCATTTTTATTTCT
1 T-T-GACTTACGGTTTAATCCCGA-TCATTCTTATATCT
* * * * * *
7328794 TTGACTTGCAGTTCAGTCTC-AGTTA-TCTT-TAATCT
1 TTGACTTACGGTTTAATCCCGA-TCATTCTTAT-ATCT
* * * * *
7328829 TTGACTCATGGTTTAATCTCGTTCATTCTTATAGCT
1 TTGACTTACGGTTTAATCCCGATCATTCTTATATCT
* * * * *
7328865 TCTCAACTTACGGTTTAAT-CCTAGTCGTTTTTATTTCT
1 T-T-GACTTACGGTTTAATCCCGA-TCATTCTTATATCT
* * * *
7328903 TTGACTTGCGGTTCAATCCCGGTCATCCTTA-ATCT
1 TTGACTTACGGTTTAATCCCGATCATTCTTATATCT
*** *
7328938 TTGACTCGTGGTTTAATCCCGATCATTCTTATAGCT
1 TTGACTTACGGTTTAATCCCGATCATTCTTATATCT
* * *
7328974 TCTCGACTTACGGTTTAAT-CCTAGTCATTTTTATTTCT
1 T-T-GACTTACGGTTTAATCCCGA-TCATTCTTATATCT
* * * * *
7329012 TTGACTTGCGGTTCAGTCTC-AGTTA-TCTT-TAATCT
1 TTGACTTACGGTTTAATCCCGA-TCATTCTTAT-ATCT
*
7329047 TTGAC-T-CGTGTTTAATCCCGATCATTCTTATAGCT
1 TTGACTTACG-GTTTAATCCCGATCATTCTTATATCT
*
7329082 TCTCGACTTATGGTTTAATCC
1 T-T-GACTTACGGTTTAATCC
7329103 TAGTCACTTT
Statistics
Matches: 278, Mismatches: 77, Indels: 53
0.68 0.19 0.13
Matches are distributed among these distances:
33 2 0.01
34 12 0.04
35 94 0.34
36 69 0.25
37 20 0.07
38 80 0.29
39 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.45
Consensus pattern (36 bp):
TTGACTTACGGTTTAATCCCGATCATTCTTATATCT
Found at i:7329108 original size:108 final size:109
Alignment explanation
Indices: 7328675--7329214 Score: 723
Period size: 109 Copynumber: 5.0 Consensus size: 109
7328665 TTATGGTTAC
* * * * * *
7328675 TTTTATTT-TCTTGACTTGTGGTTCAATCTC-GATCATCGTTAATCTTTGACTCATGATTTAATC
1 TTTTATTTCT-TTGACTTGCGGTTCAGTCTCAG-TTATCTTTAATCTTTGACTCGTGGTTTAATC
* *
7328738 TCGATTATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTCAT
64 CCGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTCAT
* * *
7328784 TTTTATTTCTTTGACTTGCAGTTCAGTCTCAGTTATCTTTAATCTTTGACTCATGGTTTAATCTC
1 TTTTATTTCTTTGACTTGCGGTTCAGTCTCAGTTATCTTTAATCTTTGACTCGTGGTTTAATCCC
* * *
7328849 GTTCATTCTTATAGCTTCTCAACTTACGGTTTAATCCTAGTCGT
66 GATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTCAT
* * * * *
7328893 TTTTATTTCTTTGACTTGCGGTTCAATCCCGGTCATCCTTAATCTTTGACTCGTGGTTTAATCCC
1 TTTTATTTCTTTGACTTGCGGTTCAGTCTCAGTTATCTTTAATCTTTGACTCGTGGTTTAATCCC
7328958 GATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTCAT
66 GATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTCAT
7329002 TTTTATTTCTTTGACTTGCGGTTCAGTCTCAGTTATCTTTAATCTTTGACTCGT-GTTTAATCCC
1 TTTTATTTCTTTGACTTGCGGTTCAGTCTCAGTTATCTTTAATCTTTGACTCGTGGTTTAATCCC
* *
7329066 GATCATTCTTATAGCTTCTCGACTTATGGTTTAATCCTAGTCAC
66 GATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTCAT
* * * *
7329110 TTTTATTTCTCTGACTTGCGATTTAGTC-CTAGTTATCTTTAATCTTTGACTCGTGGTTTAATTC
1 TTTTATTTCTTTGACTTGCGGTTCAGTCTC-AGTTATCTTTAATCTTTGACTCGTGGTTTAATCC
** * * * * *
7329174 TAATCATTTTTATAG-TTTTTGAATTACGATTTAATCC-AGTC
65 CGATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTC
7329215 TCCTTATTTT
Statistics
Matches: 387, Mismatches: 40, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
107 5 0.01
108 118 0.30
109 262 0.68
110 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (109 bp):
TTTTATTTCTTTGACTTGCGGTTCAGTCTCAGTTATCTTTAATCTTTGACTCGTGGTTTAATCCC
GATCATTCTTATAGCTTCTCGACTTACGGTTTAATCCTAGTCAT
Found at i:7329389 original size:65 final size:68
Alignment explanation
Indices: 7329255--7329393 Score: 178
Period size: 65 Copynumber: 2.1 Consensus size: 68
7329245 AATCTCTTTA
* * * *
7329255 TATTCTGACTCGCTGTTCAATCTCGATCTCTTTAAATCCAAAAATCGTAATTTAATCTTGATTGA
1 TATTTTGACTCGCGGTTCAATCTCGATCTCTTTAAATCCAAAAATCGTAAGTTAATCTCGATTGA
7329320 TGT
66 TGT
* *
7329323 TATTTTGACTCGCGGTTCAATCTCGAT-T-TTTTAATCC-AAAATTG-AAGGTTAATCTCGATTG
1 TATTTTGACTCGCGGTTCAATCTCGATCTCTTTAAATCCAAAAATCGTAA-GTTAATCTCGATTG
*
7329384 TTGT
65 ATGT
7329388 TATTTT
1 TATTTT
7329394 TTGACTCGTG
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
64 2 0.03
65 27 0.43
66 8 0.13
67 1 0.02
68 25 0.40
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.44
Consensus pattern (68 bp):
TATTTTGACTCGCGGTTCAATCTCGATCTCTTTAAATCCAAAAATCGTAAGTTAATCTCGATTGA
TGT
Found at i:7329416 original size:135 final size:135
Alignment explanation
Indices: 7329260--7329558 Score: 320
Period size: 135 Copynumber: 2.2 Consensus size: 135
7329250 CTTTATATTC
* * * *
7329260 TGACTCGCTG-TTCAATCTCGATCTCTTTAAATCCAAAAATCGTAATTTAATCT-TGATTGATGT
1 TGACTCG-TGATTTAATCTCGATCTCTTTAAATCC-AAAATCGTAATTCAATCTAAG-TTGACGT
* * *
7329323 TATTTTGACTCGCGGTTCAATCTCGATTT-TTTAATCCAAAATTGA-AGGTTAATCTCGATTGTT
63 TATTCTGACTCGCGATTCAATCTCGATTTCTTTAATCCAAAA-TCACAGGTTAATCTCGATTGTT
*
7329386 GTTATTTTT
127 ATTATTTTT
* * ** * * * * * *
7329395 TGACTCGTGATTTAATATCGATTTCTTTATTTTCTAACTTGTGATTCATTCTAAGTTGACGTTAT
1 TGACTCGTGATTTAATCTCGATCTCTTTAAATCCAAAATCGTAATTCAATCTAAGTTGACGTTAT
* * *
7329460 TCTGACTTGCGATTCAATCTCGATTTCTTTAATCCAAAATCACAGTTTAATCTCGATTGTTATTT
66 TCTGACTCGCGATTCAATCTCGATTTCTTTAATCCAAAATCACAGGTTAATCTCGATTGTTATTA
7329525 TTTTT
131 TTTTT
*
7329530 TGACTCGTGGA-TTAATCCCGATCTCTTTA
1 TGACTCGT-GATTTAATCTCGATCTCTTTA
7329559 TATTTTGACT
Statistics
Matches: 135, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
134 48 0.36
135 85 0.63
136 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.13, T:0.45
Consensus pattern (135 bp):
TGACTCGTGATTTAATCTCGATCTCTTTAAATCCAAAATCGTAATTCAATCTAAGTTGACGTTAT
TCTGACTCGCGATTCAATCTCGATTTCTTTAATCCAAAATCACAGGTTAATCTCGATTGTTATTA
TTTTT
Found at i:7329570 original size:135 final size:134
Alignment explanation
Indices: 7329316--7329586 Score: 368
Period size: 135 Copynumber: 2.0 Consensus size: 134
7329306 TTAATCTTGA
* * * *
7329316 TTGATGTTATTTTGACTCGCGGTTCAATCTCGATTTTTTAATCCAAAATTGAAGGTTAATCTCGA
1 TTGACGTTATTCTGACTCGCGATTCAATCTCGATTTTTTAATCCAAAATTCAAGGTTAATCTCGA
* * * *
7329381 TTGTTGTTATTTTTTGACTCGTGATTTAATATCGATTTCTTTATTTTCTAACTTGTGATTCATTC
66 TTGTTATTATTTTTTGACTCGTGATTTAATACCGATCTCTTTATTTTCTAACTTGTGATTCAATC
7329446 TAAG
131 TAAG
* *
7329450 TTGACGTTATTCTGACTTGCGATTCAATCTCGATTTCTTTAATCCAAAA-TCACAGTTTAATCTC
1 TTGACGTTATTCTGACTCGCGATTCAATCTCGATTT-TTTAATCCAAAATTCA-AGGTTAATCTC
* * *
7329514 GATTGTTATTTTTTTTTGACTCGTGGA-TTAATCCCGATCTCTTTATATTT-TGACTTGTGATTC
64 GATTGTTATTATTTTTTGACTCGT-GATTTAATACCGATCTCTTTAT-TTTCTAACTTGTGATTC
7329577 AATCTAAG
127 AATCTAAG
7329585 TT
1 TT
7329587 CAATCTTGAT
Statistics
Matches: 120, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
134 34 0.28
135 81 0.68
136 5 0.04
ACGTcount: A:0.23, C:0.15, G:0.14, T:0.47
Consensus pattern (134 bp):
TTGACGTTATTCTGACTCGCGATTCAATCTCGATTTTTTAATCCAAAATTCAAGGTTAATCTCGA
TTGTTATTATTTTTTGACTCGTGATTTAATACCGATCTCTTTATTTTCTAACTTGTGATTCAATC
TAAG
Found at i:7331014 original size:17 final size:19
Alignment explanation
Indices: 7330992--7331042 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
7330982 AAATTTTTTA
*
7330992 ATTTTTTTATATATT-ATT
1 ATTTTTTTATATATTAAGT
7331010 ATTTTTGTTAT-T-TTAAGT
1 ATTTTT-TTATATATTAAGT
7331028 ATTTTTTTATATATT
1 ATTTTTTTATATATT
7331043 TATGCATGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 6 0.21
18 16 0.57
19 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (19 bp):
ATTTTTTTATATATTAAGT
Found at i:7331460 original size:16 final size:16
Alignment explanation
Indices: 7331441--7331565 Score: 112
Period size: 16 Copynumber: 7.9 Consensus size: 16
7331431 CTAGGTTTCT
7331441 AAAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
* *
7331457 AAAA-TCTTAAAATCC
1 AAAACCCCTAAAATCC
7331472 AAAA-CCCTAAAATCC
1 AAAACCCCTAAAATCC
* ** **
7331487 GAAACCTTTAAAATTT
1 AAAACCCCTAAAATCC
* * * *
7331503 AAAATCCTTTAAATTC
1 AAAACCCCTAAAATCC
7331519 -AAACCCCTAAAATCC
1 AAAACCCCTAAAATCC
*
7331534 AAAACCTCTAAAATCC
1 AAAACCCCTAAAATCC
7331550 AAAACCCCCTAAAATC
1 AAAA-CCCCTAAAATC
7331566 TGAAATCCCA
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
15 36 0.42
16 40 0.47
17 10 0.12
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.22
Consensus pattern (16 bp):
AAAACCCCTAAAATCC
Found at i:7331469 original size:15 final size:15
Alignment explanation
Indices: 7331449--7331555 Score: 106
Period size: 15 Copynumber: 6.9 Consensus size: 15
7331439 CTAAAACCCC
*
7331449 TAAAATCCAAAATCT
1 TAAAATCCAAAACCT
*
7331464 TAAAATCCAAAACCC
1 TAAAATCCAAAACCT
*
7331479 TAAAATCCGAAACCTT
1 TAAAATCCAAAACC-T
**
7331495 TAAAATTTAAAATCCT
1 TAAAATCCAAAA-CCT
* * * *
7331511 TTAAATTCAAACCCC
1 TAAAATCCAAAACCT
7331526 TAAAATCCAAAACCT
1 TAAAATCCAAAACCT
7331541 CTAAAATCCAAAACC
1 -TAAAATCCAAAACC
7331556 CCCTAAAATC
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
15 39 0.53
16 33 0.45
17 2 0.03
ACGTcount: A:0.50, C:0.26, G:0.01, T:0.23
Consensus pattern (15 bp):
TAAAATCCAAAACCT
Found at i:7331477 original size:31 final size:31
Alignment explanation
Indices: 7331441--7331555 Score: 115
Period size: 31 Copynumber: 3.7 Consensus size: 31
7331431 CTAGGTTTCT
*
7331441 AAAACCCCTAAAATCCAAAATCTTAAAATCC
1 AAAACCCCTAAAATCCAAAACCTTAAAATCC
* **
7331472 AAAA-CCCTAAAATCCGAAACCTTTAAAATTT
1 AAAACCCCTAAAATCCAAAACC-TTAAAATCC
* * * * * *
7331503 AAAATCCTTTAAATTCAAACCCCTAAAATCC
1 AAAACCCCTAAAATCCAAAACCTTAAAATCC
*
7331534 AAAACCTCTAAAATCCAAAACC
1 AAAACCCCTAAAATCCAAAACC
7331556 CCCTAAAATC
Statistics
Matches: 64, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
30 15 0.23
31 37 0.58
32 12 0.19
ACGTcount: A:0.50, C:0.28, G:0.01, T:0.22
Consensus pattern (31 bp):
AAAACCCCTAAAATCCAAAACCTTAAAATCC
Found at i:7333929 original size:19 final size:19
Alignment explanation
Indices: 7333891--7333929 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
7333881 GGCTAAGATA
* *
7333891 AGCTATTTTGATCGATGTG
1 AGCTATTTTGATCAAGGTG
*
7333910 AGCTCTTTTGATCAAGGTG
1 AGCTATTTTGATCAAGGTG
7333929 A
1 A
7333930 ATTCTTTTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (19 bp):
AGCTATTTTGATCAAGGTG
Found at i:7334026 original size:56 final size:55
Alignment explanation
Indices: 7333907--7334060 Score: 173
Period size: 56 Copynumber: 2.7 Consensus size: 55
7333897 TTTGATCGAT
* * * * * * *
7333907 GTGAGCTCTTTTGATCAAGGTGAATTCTTTTAGCTAAGCTAATCACTTTGGCCGAG
1 GTGAGCTCTTTTGATCGATGTGAGTTCTTTTGGC-AAGCTGATCACTTTGGCCAAA
* * *
7333963 GTAAGCTCTTTTGATCGATGTGAGTTATTTTGGTCAAGCTGATCACTTTGGCTAAA
1 GTGAGCTCTTTTGATCGATGTGAGTTCTTTTGG-CAAGCTGATCACTTTGGCCAAA
* *
7334019 GTGAGCTCTTTTGGTCGATGTGAGCTCTTTTGGCCAAGCTGA
1 GTGAGCTCTTTTGATCGATGTGAGTTCTTTTGG-CAAGCTGA
7334061 AATTTTGGCT
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
56 81 0.99
57 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (55 bp):
GTGAGCTCTTTTGATCGATGTGAGTTCTTTTGGCAAGCTGATCACTTTGGCCAAA
Found at i:7334156 original size:56 final size:56
Alignment explanation
Indices: 7334064--7334181 Score: 164
Period size: 56 Copynumber: 2.1 Consensus size: 56
7334054 AAGCTGAAAT
* * *
7334064 TTTGGCTGATGTGGTCAAACTAAGCCTTTATGAAGGTAATTTACTAAGATGAGCTA
1 TTTGGCTGAGGTGGTCAAACTAAGCCTTTATAAAGGTAATTTACTAAGATGAACTA
* * * * *
7334120 TTTGGTTGAGGTGGTCAAGCTAAGCCTTTGTAAAGGTAATTTATTAAGATGAACTC
1 TTTGGCTGAGGTGGTCAAACTAAGCCTTTATAAAGGTAATTTACTAAGATGAACTA
7334176 TTTGGC
1 TTTGGC
7334182 CAATGTAATA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.36
Consensus pattern (56 bp):
TTTGGCTGAGGTGGTCAAACTAAGCCTTTATAAAGGTAATTTACTAAGATGAACTA
Found at i:7334264 original size:19 final size:20
Alignment explanation
Indices: 7334240--7334290 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
7334230 AAAGTAGCCG
7334240 AGTGAGCTCTTTTAATCGA-
1 AGTGAGCTCTTTTAATCGAT
* * *
7334259 AGTGAGCTTTTTTTATTGAT
1 AGTGAGCTCTTTTAATCGAT
7334279 A-TGAGCTCTTTT
1 AGTGAGCTCTTTT
7334291 GGTTAGGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.22, C:0.12, G:0.20, T:0.47
Consensus pattern (20 bp):
AGTGAGCTCTTTTAATCGAT
Found at i:7334380 original size:20 final size:20
Alignment explanation
Indices: 7334306--7334385 Score: 67
Period size: 19 Copynumber: 4.1 Consensus size: 20
7334296 GGTTGAATTC
7334306 TTTAGTCGATGTGAGCT-TT
1 TTTAGTCGATGTGAGCTCTT
* * *
7334325 TTTGGTCAATGTGAAC-CTT
1 TTTAGTCGATGTGAGCTCTT
* * * *
7334344 TTTGGCCTA-GTTAAGCTCTT
1 TTTAGTCGATG-TGAGCTCTT
7334364 TTTAGTCGATGTGAGCTCTT
1 TTTAGTCGATGTGAGCTCTT
7334384 TT
1 TT
7334386 GGTTGAGTTG
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
18 1 0.02
19 25 0.54
20 19 0.41
21 1 0.02
ACGTcount: A:0.16, C:0.15, G:0.23, T:0.46
Consensus pattern (20 bp):
TTTAGTCGATGTGAGCTCTT
Found at i:7334674 original size:19 final size:19
Alignment explanation
Indices: 7334652--7334710 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
7334642 GAAGTGATTG
7334652 AGATAAGCTCTTTTAACCA
1 AGATAAGCTCTTTTAACCA
* * * **
7334671 AGATAAACTTTTTTAGCTG
1 AGATAAGCTCTTTTAACCA
* *
7334690 AGTTGAGCTCTTTTAACCA
1 AGATAAGCTCTTTTAACCA
7334709 AG
1 AG
7334711 CTGATCACTT
Statistics
Matches: 28, Mismatches: 12, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (19 bp):
AGATAAGCTCTTTTAACCA
Found at i:7334752 original size:19 final size:19
Alignment explanation
Indices: 7334719--7334802 Score: 64
Period size: 19 Copynumber: 4.5 Consensus size: 19
7334709 AGCTGATCAC
* *
7334719 TTTGGCCAATATGAGCTTT
1 TTTGGTCAAGATGAGCTTT
* *
7334738 TTTGGTCAAGCTGAGCTCT
1 TTTGGTCAAGATGAGCTTT
** * *
7334757 TTCAG-CTGAGGTGAGC-TT
1 TTTGGTC-AAGATGAGCTTT
*
7334775 TTTGGTTAAGATGAGCTTT
1 TTTGGTCAAGATGAGCTTT
7334794 TTTGGTCAA
1 TTTGGTCAA
7334803 AGTGATCGAG
Statistics
Matches: 47, Mismatches: 15, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
18 12 0.26
19 35 0.74
ACGTcount: A:0.19, C:0.14, G:0.26, T:0.40
Consensus pattern (19 bp):
TTTGGTCAAGATGAGCTTT
Done.