Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 74 of 427
Found at i:18326881 original size:43 final size:42
Alignment explanation
Indices: 18326817--18326977 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 42
18326807 ACTGGACAAA
* *
18326817 TTAGCGGCGTTTTTTATAAAAGCGCTGCTAAAGGTCCCTGTCT
1 TTAGCGGCCTTTTTTA-AAAAGCGCCGCTAAAGGTCCCTGTCT
18326860 TTAGCGGCCTTTTTATAAAAAGCGCCGCTAAAGGT-CCTGGTCT
1 TTAGCGGCCTTTTT-TAAAAAGCGCCGCTAAAGGTCCCT-GTCT
* * * * * * *
18326903 TTAGCAGCGTTTTTTAAACAGCGCCGCTAAAAGACCATGACTT
1 TTAGCGGCCTTTTTTAAAAAGCGCCGCTAAAGGTCCCTGTC-T
*
18326946 TTAGCGGCGCTTTTTTAAGAAA-CGCTGCTAAA
1 TTAGCGGC-CTTTTTTAA-AAAGCGCCGCTAAA
18326978 AGTTTATTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
42 22 0.22
43 56 0.57
44 19 0.19
45 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (42 bp):
TTAGCGGCCTTTTTTAAAAAGCGCCGCTAAAGGTCCCTGTCT
Found at i:18326949 original size:86 final size:86
Alignment explanation
Indices: 18326817--18326977 Score: 202
Period size: 86 Copynumber: 1.9 Consensus size: 86
18326807 ACTGGACAAA
* * * * * *
18326817 TTAGCGGCGTTTTTTATAAAAGCGCTGCTAAAGGTCCCTGTCTTTAGCGGC-CTTTTTATAA-AA
1 TTAGCAGCGTTTTTTATAAAAGCGCCGCTAAAAGACCATGACTTTAGCGGCGCTTTTT-TAAGAA
18326880 AGCGCCGCTAAAGGTCCTGGTCT
65 A-CGCCGCTAAAGGTCCTGGTCT
*
18326903 TTAGCAGCGTTTTTTA-AACAGCGCCGCTAAAAGACCATGACTTTTAGCGGCGCTTTTTTAAGAA
1 TTAGCAGCGTTTTTTATAAAAGCGCCGCTAAAAGACCATGAC-TTTAGCGGCGCTTTTTTAAGAA
*
18326967 ACGCTGCTAAA
65 ACGCCGCTAAA
18326978 AGTTTATTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
85 19 0.30
86 36 0.56
87 9 0.14
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (86 bp):
TTAGCAGCGTTTTTTATAAAAGCGCCGCTAAAAGACCATGACTTTAGCGGCGCTTTTTTAAGAAA
CGCCGCTAAAGGTCCTGGTCT
Found at i:18331907 original size:14 final size:14
Alignment explanation
Indices: 18331888--18331921 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18331878 GGACATTGCT
*
18331888 TCAAAGCACTGTGA
1 TCAAAGCAATGTGA
18331902 TCAAAGCAATGTGA
1 TCAAAGCAATGTGA
*
18331916 TTAAAG
1 TCAAAG
18331922 ACTTGTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.24
Consensus pattern (14 bp):
TCAAAGCAATGTGA
Found at i:18338259 original size:23 final size:22
Alignment explanation
Indices: 18338233--18338290 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
18338223 TACCATGTAA
*
18338233 TATAAAAAATAATTTTAAATGA-T
1 TATAAAAAATAA-TTAAAAT-ATT
18338256 TATAAAACAATTAATTAAAATATT
1 TATAAAA-AA-TAATTAAAATATT
18338280 TATAAAAAATA
1 TATAAAAAATA
18338291 GTGTGATACA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 2 0.06
23 10 0.32
24 16 0.52
25 3 0.10
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
TATAAAAAATAATTAAAATATT
Found at i:18341616 original size:31 final size:31
Alignment explanation
Indices: 18341575--18341640 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
18341565 ATTTAGTTGG
**
18341575 TCACCCAATTTTATAGGCGTTTTTATTTTGA
1 TCACCCAATTTTATAGGCACTTTTATTTTGA
* * *
18341606 TCACCTAATTTTTTAGGTACTTTTATTTTGA
1 TCACCCAATTTTATAGGCACTTTTATTTTGA
18341637 TCAC
1 TCAC
18341641 TCAAAATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.50
Consensus pattern (31 bp):
TCACCCAATTTTATAGGCACTTTTATTTTGA
Found at i:18345463 original size:166 final size:166
Alignment explanation
Indices: 18345189--18345511 Score: 592
Period size: 166 Copynumber: 1.9 Consensus size: 166
18345179 GTTTAATGAT
18345189 ACAAATGCATTTACTACTTGGAGTGACCATTTAAACTATCCTAGATCATATATGAGGCGAAAATT
1 ACAAATGCATTTACTACTTGGAGTGACCATTTAAACTATCCTAGATCATATATGAGGCGAAAATT
* *
18345254 GATTGAGAATTCATATGGACATTCATTAAAGAACTAAAAGATTCTTCAATTTAAAGAATACTAAT
66 AATTGAGAATTAATATGGACATTCATTAAAGAACTAAAAGATTCTTCAATTTAAAGAATACTAAT
*
18345319 TTGTTGTTTGTTCTCAATGAAAATTGAGAACAAGCA
131 TTGTTGCTTGTTCTCAATGAAAATTGAGAACAAGCA
* *
18345355 ACAAATGCATTTACTACTTGGCGTGACCATTTAAACTATCCTAGATCATATATGATGCGAAAATT
1 ACAAATGCATTTACTACTTGGAGTGACCATTTAAACTATCCTAGATCATATATGAGGCGAAAATT
*
18345420 AATTGAGAATTAATATGGACATTCATTAAAGAACTAAAAGATTCTTTAATTTAAAGAATACTAAT
66 AATTGAGAATTAATATGGACATTCATTAAAGAACTAAAAGATTCTTCAATTTAAAGAATACTAAT
18345485 TTGTTGCTTGTTCTCAATGAAAATTGA
131 TTGTTGCTTGTTCTCAATGAAAATTGA
18345512 TTGTTAAGAC
Statistics
Matches: 151, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
166 151 1.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (166 bp):
ACAAATGCATTTACTACTTGGAGTGACCATTTAAACTATCCTAGATCATATATGAGGCGAAAATT
AATTGAGAATTAATATGGACATTCATTAAAGAACTAAAAGATTCTTCAATTTAAAGAATACTAAT
TTGTTGCTTGTTCTCAATGAAAATTGAGAACAAGCA
Found at i:18348597 original size:25 final size:25
Alignment explanation
Indices: 18348569--18348638 Score: 68
Period size: 28 Copynumber: 2.7 Consensus size: 25
18348559 TTGTTATTGA
*
18348569 TAGTATATTCTGAAAATACTATAGG
1 TAGTATATTCTGAAAACACTATAGG
* *
18348594 TAGTATACTGTACTGAAAACACTTTAGT
1 TAGTATA-T-T-CTGAAAACACTATAGG
* *
18348622 TAGTTTATACTGAAAAC
1 TAGTATATTCTGAAAAC
18348639 TGTAGTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
25 15 0.41
26 1 0.03
27 2 0.05
28 19 0.51
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (25 bp):
TAGTATATTCTGAAAACACTATAGG
Found at i:18350199 original size:22 final size:23
Alignment explanation
Indices: 18350173--18350237 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
18350163 TATTGAAAAT
18350173 ACATATTCATAATATATA-TAAA
1 ACATATTCATAATATATATTAAA
*
18350195 GCATATAT-ATAATATAATATTAAA
1 ACATAT-TCATAATAT-ATATTAAA
*
18350219 ACATTTTACATAATATATA
1 ACATATT-CATAATATATA
18350238 CACATATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
22 12 0.34
23 5 0.14
24 11 0.31
25 7 0.20
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (23 bp):
ACATATTCATAATATATATTAAA
Found at i:18350702 original size:25 final size:24
Alignment explanation
Indices: 18350655--18350702 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
18350645 AAAATAAGCC
* *
18350655 TATACGTAAATATATATATACATA
1 TATACGTAAACATATATAAACATA
18350679 TATACGTAAAACATATATAAACAT
1 TATACGT-AAACATATATAAACAT
18350703 TGGTGATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
TATACGTAAACATATATAAACATA
Found at i:18350833 original size:3 final size:3
Alignment explanation
Indices: 18350825--18350944 Score: 215
Period size: 3 Copynumber: 40.0 Consensus size: 3
18350815 ACAAAAGCAC
18350825 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
18350873 ATA ATA ATA ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18350921 ATA ATA ATA ATA AT- ATCA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA
18350945 TGAAAATAAC
Statistics
Matches: 113, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
2 2 0.02
3 109 0.96
4 2 0.02
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18352737 original size:88 final size:85
Alignment explanation
Indices: 18352539--18353427 Score: 650
Period size: 89 Copynumber: 10.4 Consensus size: 85
18352529 CATGTGACTC
* * * ** *
18352539 GAGGCTC-ACTCACCTCTCGTAATATGAGTTGATTCTTGAAAAGTATAAATTGAAAAAAC-ATTA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACATAAA-T-AAGAAACGA--A
*
18352602 ATTGAAAATACCTCGGCGTGTGATCCT
62 ATTGAAAATACCTCAGC--GTG-TCCT
* * *
18352629 GAGGCTCAATTCACCTCTAGCAATATGAATTAATTTTTGGAAAAACATAAACTAAGAAACGAAAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT-GAAAAACATAAA-TAAGAAACGAAA-
*
18352694 TTGACAATACCTCAGCGTGTCCT
63 TTGAAAATACCTCAGCGTGTCCT
* * *
18352717 GAGGCTCAATTCACCTCTAGCAATATGAATTAATTTTTGGAAAAACATAAATCAAGAAACGAAAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT-GAAAAACATAAAT-AAGAAACGAAA-
*
18352782 TTGACAATACCTCAGCGTGTCCT
63 TTGAAAATACCTCAGCGTGTCCT
* * ** ** * **
18352805 GAGGCTCAACTCACCTTTCGCGATATGAGTTTTTTTTTTTTTTTGAAAGGCAGAAATTGGAAAGC
1 GAGGCTCAACTCACCTCTCGCAATATGAG------TTAATTTTTGAAAAACATAAATAAGAAA-C
* *
18352870 AAAAATTGAAAATACCTCAGCGTGCCCT
59 -GAAATTGAAAATACCTCAGCGTGTCCT
* * * * * **
18352898 GAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGAAGAGCAGAAATTGGAAAGCAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTT-A-ATTTTTGAAAAACATAAATAAGAAA-C-GAA
* *
18352963 ATCGAAAATACCTCAGCGTGCCCT
62 ATTGAAAATACCTCAGCGTGTCCT
* * *
18352987 GAGGCTCAACTCACTTCTCGCAATATGAGCTAATTTTTGAAAAACATAAATTGGAGAAAACAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACATAAA-T-AAG-AAAC-GAA
* *
18353052 ATTGAAATTACCTCAGCATGTCCT
62 ATTGAAAATACCTCAGCGTGTCCT
* *
18353076 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC--------G----GAAATTA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACATAAATAAGAAACGAAATTG
* *
18353129 AAAATACCTCATCGTGACCT
66 AAAATACCTCAGCGTGTCCT
* * * *
18353149 GAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTG--AAACATGGAAATTA-AAACAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAG-TTAATTTTTGAAAAACAT--AAATAAGAAAC-GAA
* *
18353211 ATTGAAAATACCTCAACGTGCCCT
62 ATTGAAAATACCTCAGCGTGTCCT
* *
18353235 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG----AC--AAA-CAG---C--AATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACATAAATAAGAAACGAAATTG
* *
18353288 AAAATACCTCAGCGTGCCCC
66 AAAATACCTCAGCGTGTCCT
** * * * * **
18353308 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAAT-TGAAAGGCTTAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTGAAAAACATAAATAAGAAA--CGAAA
*
18353372 TTGAAAATACCTCGGCGTGTGACCT
63 TTGAAAATACCTCAGCGTGT--CCT
*
18353397 GAGGTTCAACTCACCTCTCGCAATATGAGTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTT
18353428 GAAATTAAAA
Statistics
Matches: 666, Mismatches: 81, Indels: 105
0.78 0.10 0.12
Matches are distributed among these distances:
72 4 0.01
73 102 0.15
74 13 0.02
76 1 0.00
78 3 0.00
79 4 0.01
80 4 0.01
83 2 0.00
85 8 0.01
86 52 0.08
87 37 0.06
88 116 0.17
89 180 0.27
90 12 0.02
91 44 0.07
92 16 0.02
93 58 0.09
94 10 0.02
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (85 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACATAAATAAGAAACGAAATTG
AAAATACCTCAGCGTGTCCT
Found at i:18353162 original size:73 final size:74
Alignment explanation
Indices: 18353043--18353191 Score: 210
Period size: 73 Copynumber: 2.0 Consensus size: 74
18353033 TAAATTGGAG
* * *
18353043 AAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
18353108 A-TTTTTGA
66 ATTTTTTGA
* * * * * *
18353116 AAAACGGAAATTAAAAATACCTCATCGTGACCTGAGGTTCAACTCACCTCTCGCAATATGAGCTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
18353181 ATTTTTTGA
66 ATTTTTTGA
18353190 AA
1 AA
18353192 CATGGAAATT
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
73 58 0.87
74 9 0.13
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (74 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTGA
Found at i:18353259 original size:159 final size:159
Alignment explanation
Indices: 18352958--18353505 Score: 678
Period size: 159 Copynumber: 3.4 Consensus size: 159
18352948 AATTGGAAAG
* * * *
18352958 CAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGCT-AATT
1 CAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
* * *
18353022 TTTGAAAAACAT-AAATTGGAGAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAAC
66 TTTG--AAACATGAAATT---GAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAAC
18353086 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
126 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* * * * * *
18353120 CGGAAATTAAAAATACCTCATCGTGACCTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
* *
18353185 TTTGAAACATGGAAATT-AAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCAC
66 TTTGAAACAT-GAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCAC
*
18353249 CTCTCGCAATATGAGTTGATTTTTGACAAA
130 CTCTCGCAATATGAGTTGATTTTTGAAAAA
* ** *
18353279 CAGCAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
* ** * *
18353344 TTTGAAAGACA-GAAATTGAAAGGC-TTAATTGAAAATACCTCGGCGTGTGACCTGAGGTTCAAC
66 TTTG-AA-ACATGAAATTGAAA-ACAGAAATTGAAAATACCTCAGC--GTGACCTGAGGCTCAAC
**
18353407 TCACCTCTCGCAATATGAGTTGA-AATT-AAAACA
126 TCACCTCTCGCAATATGAGTTGATTTTTGAAAA-A
* *
18353440 CAAAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
18353505 T
66 T
18353506 GAAAAAGTAG
Statistics
Matches: 337, Mismatches: 39, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
159 137 0.41
160 24 0.07
161 73 0.22
162 91 0.27
163 12 0.04
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (159 bp):
CAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
TTTGAAACATGAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACC
TCTCGCAATATGAGTTGATTTTTGAAAAA
Found at i:18353327 original size:73 final size:73
Alignment explanation
Indices: 18353202--18353364 Score: 256
Period size: 73 Copynumber: 2.2 Consensus size: 73
18353192 CATGGAAATT
*
18353202 AAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
18353267 A-TTTTTG
66 ATTTTTTG
* * **
18353274 ACAAACAGCAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
18353339 GATTTTTTG
65 GATTTTTTG
18353348 AAAGACAGAAATTGAAA
1 AAA-ACAGAAATTGAAA
18353365 GGCTTAATTG
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
72 1 0.01
73 62 0.76
74 19 0.23
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (73 bp):
AAAACAGAAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTG
Found at i:18353448 original size:87 final size:86
Alignment explanation
Indices: 18353283--18353451 Score: 205
Period size: 89 Copynumber: 1.9 Consensus size: 86
18353273 GACAAACAGC
* ** ** *
18353283 AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTG
1 AATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TAATTA
* *
18353348 AAAGACAGAAATTGAAAGGCTT
65 AAACACAAAAATTGAAAGGCTT
* * *
18353370 AATTGAAAATACCTCGGCGTGTGACCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGA-AATT
1 AATTGAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATT
18353434 AAAACACAAAAATTGAAA
64 AAAACACAAAAATTGAAA
18353452 ATACCTCAGT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
87 34 0.49
89 35 0.51
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (86 bp):
AATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTAA
AACACAAAAATTGAAAGGCTT
Found at i:18353620 original size:73 final size:72
Alignment explanation
Indices: 18353528--18353720 Score: 271
Period size: 75 Copynumber: 2.6 Consensus size: 72
18353518 ATTAAAAGGT
* * * *
18353528 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAAATACCTCAGCGTGC
*
18353593 CCTGAGGC
65 CCCGAGGC
*
18353601 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAATACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAA-AACAGAAATTGAAAATACCTCAGCGT
18353666 GCCCCGAGGC
63 GCCCCGAGGC
*
18353676 TCAACTCACCTCCCGCAATATGAGTTGAATTTTTG-AAACAGAAAT
1 TCAACTCACCTCTCGCAATATGAGTTG-ATTTTTGAAAACAGAAAT
18353721 AAAAGCATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 9
0.86 0.06 0.07
Matches are distributed among these distances:
72 8 0.07
73 28 0.26
74 7 0.06
75 64 0.59
76 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAGCGTGCC
CCGAGGC
Found at i:18353623 original size:127 final size:126
Alignment explanation
Indices: 18353398--18353632 Score: 355
Period size: 127 Copynumber: 1.9 Consensus size: 126
18353388 GTGTGACCTG
* *
18353398 AGGTTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGTG
1 AGGTTCAACCCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
18353463 TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAA
** * * *
18353524 AGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAA-ACAGAAATTGAAATTACCTCAG
1 AGGTTCAACCCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAAATTGAAAATACCTCAG
* * *
18353588 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
64 CGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
18353633 TTTGAAGAGC
Statistics
Matches: 97, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
126 31 0.32
127 63 0.65
128 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.27
Consensus pattern (126 bp):
AGGTTCAACCCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAA
Found at i:18360138 original size:22 final size:23
Alignment explanation
Indices: 18360112--18360176 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
18360102 TATTGAAAAT
18360112 ACATATTCATAATATATA-TAAA
1 ACATATTCATAATATATATTAAA
*
18360134 GCATATAT-ATAATATAATATTAAA
1 ACATAT-TCATAATAT-ATATTAAA
*
18360158 ACATTTTACATAATATATA
1 ACATATT-CATAATATATA
18360177 CACATATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
22 12 0.34
23 5 0.14
24 11 0.31
25 7 0.20
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (23 bp):
ACATATTCATAATATATATTAAA
Found at i:18360637 original size:25 final size:24
Alignment explanation
Indices: 18360590--18360637 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
18360580 AAAAATAAGC
* *
18360590 TATACGTAAATATATATATACATA
1 TATACGTAAACATATATAAACATA
18360614 TATACGTAAAACATATATAAACAT
1 TATACGT-AAACATATATAAACAT
18360638 TGGTGATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
TATACGTAAACATATATAAACATA
Found at i:18360769 original size:3 final size:3
Alignment explanation
Indices: 18360761--18360833 Score: 98
Period size: 3 Copynumber: 24.3 Consensus size: 3
18360751 ACAAAAGCAC
18360761 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
18360807 ATA AT- ATCA ATA AT- ATGA A-A ATA ATA A
1 ATA ATA AT-A ATA ATA AT-A ATA ATA ATA A
18360834 GGATATTTAG
Statistics
Matches: 64, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
2 6 0.09
3 52 0.81
4 6 0.09
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:18360864 original size:13 final size:13
Alignment explanation
Indices: 18360846--18360870 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18360836 ATATTTAGAT
18360846 AAAAAACGAAAAA
1 AAAAAACGAAAAA
18360859 AAAAAACGAAAA
1 AAAAAACGAAAA
18360871 CAGGACTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAACGAAAAA
Found at i:18362265 original size:39 final size:39
Alignment explanation
Indices: 18362221--18362383 Score: 281
Period size: 39 Copynumber: 4.2 Consensus size: 39
18362211 CGAAATCTAG
*
18362221 CTGAAGCACATAAGTGCTAAACGGAAGCTCGGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAA
*
18362260 TTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAA
* *
18362299 CTGAAGCACATAGGTGCTAAACGGAAGCCCGAAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAA
*
18362338 CTGAAGCACATAAGTGCTAAACGGAAACCCGGAGGCTAA
1 CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAA
18362377 CTGAAGC
1 CTGAAGC
18362384 TCATCAAAGC
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 116 1.00
ACGTcount: A:0.36, C:0.22, G:0.28, T:0.14
Consensus pattern (39 bp):
CTGAAGCACATAAGTGCTAAACGGAAGCCCGGAGGCTAA
Found at i:18369450 original size:25 final size:25
Alignment explanation
Indices: 18369422--18369471 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
18369412 CTTAGTAAAA
18369422 AAGAGTTTTATTTGGTGTTTAGGAG
1 AAGAGTTTTATTTGGTGTTTAGGAG
18369447 AAGAGTTTTATTTGGTGTTTAGGAG
1 AAGAGTTTTATTTGGTGTTTAGGAG
18369472 TTAACCAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (25 bp):
AAGAGTTTTATTTGGTGTTTAGGAG
Found at i:18376947 original size:14 final size:14
Alignment explanation
Indices: 18376928--18376956 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18376918 GGAATAAAGA
18376928 AATTACATTCTCGT
1 AATTACATTCTCGT
18376942 AATTACATTCTCGT
1 AATTACATTCTCGT
18376956 A
1 A
18376957 TGCAATGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (14 bp):
AATTACATTCTCGT
Found at i:18377913 original size:22 final size:22
Alignment explanation
Indices: 18377888--18377931 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18377878 TGTGTTGTTG
*
18377888 TTTGCAATTTTTGGATT-ATTTA
1 TTTGCAAATTTT-GATTAATTTA
*
18377910 TTTGTAAATTTTGATTAATTTA
1 TTTGCAAATTTTGATTAATTTA
18377932 ATTATATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.59
Consensus pattern (22 bp):
TTTGCAAATTTTGATTAATTTA
Found at i:18378940 original size:12 final size:12
Alignment explanation
Indices: 18378923--18378953 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
18378913 TTGAGTTGTA
18378923 AATGGAGGTGAG
1 AATGGAGGTGAG
*
18378935 AATGGAGTTGAG
1 AATGGAGGTGAG
18378947 AATGGAG
1 AATGGAG
18378954 CATGCTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.45, T:0.19
Consensus pattern (12 bp):
AATGGAGGTGAG
Found at i:18380118 original size:13 final size:13
Alignment explanation
Indices: 18380100--18380125 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18380090 TATTAAAGGA
18380100 TTAAAATTTAAAG
1 TTAAAATTTAAAG
18380113 TTAAAATTTAAAG
1 TTAAAATTTAAAG
18380126 ATGATAATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
TTAAAATTTAAAG
Found at i:18382511 original size:26 final size:26
Alignment explanation
Indices: 18382482--18382617 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
18382472 TGATACAAAT
18382482 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
18382508 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
18382534 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
18382560 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
18382586 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
18382612 TGATAA
1 TGATAA
18382618 GAATTTCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:18384115 original size:24 final size:24
Alignment explanation
Indices: 18384085--18384615 Score: 936
Period size: 24 Copynumber: 22.1 Consensus size: 24
18384075 GAATGTGACT
* *
18384085 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
18384109 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18384133 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18384157 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18384181 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18384205 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18384229 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18384253 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18384277 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18384301 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18384325 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18384349 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18384373 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18384397 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18384421 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18384445 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18384469 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18384493 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18384517 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18384541 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18384565 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18384589 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18384613 ATA
1 ATA
18384616 TGGTCTTTGC
Statistics
Matches: 497, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 497 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:18392413 original size:24 final size:24
Alignment explanation
Indices: 18392383--18392913 Score: 936
Period size: 24 Copynumber: 22.1 Consensus size: 24
18392373 GAATGTGACT
* *
18392383 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
18392407 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18392431 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18392455 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18392479 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18392503 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18392527 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18392551 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18392575 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18392599 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18392623 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18392647 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18392671 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18392695 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18392719 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18392743 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18392767 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18392791 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18392815 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
18392839 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18392863 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18392887 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
18392911 ATA
1 ATA
18392914 TGGTCTTTGC
Statistics
Matches: 497, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 497 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:18395891 original size:28 final size:26
Alignment explanation
Indices: 18395849--18395923 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
18395839 AAAAGTAGCT
* *
18395849 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGGA
* *
18395877 AAATTACTGTTATACCCCTAGGTGTA
1 AAATTACTGTTATACCCCTAGATGGA
*
18395903 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
18395924 GGTTAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGGA
Found at i:18396068 original size:27 final size:27
Alignment explanation
Indices: 18396027--18396166 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
18396017 GAGGAAGCGT
*
18396027 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
18396054 TCTGGTGGCTCTGCCACAAATATTTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
18396081 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
18396108 TCTGGTGGCTCTGCCACGATTATTTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
18396136 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
18396162 TCTGG
1 TCTGG
18396167 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.05
27 78 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:18396112 original size:54 final size:55
Alignment explanation
Indices: 18396027--18396166 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 55
18396017 GAGGAAGCGT
* * *
18396027 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATTTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATTTGTA
* *
18396081 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATTTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATTTGTA
* *
18396136 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
18396167 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATTTGTA
Found at i:18398487 original size:43 final size:43
Alignment explanation
Indices: 18398441--18398754 Score: 247
Period size: 43 Copynumber: 7.3 Consensus size: 43
18398431 AAAATTTTGT
* * *
18398441 TAAAGAACGTGACTTTTAGCGGTGCTTTTCACACAAATGCCGT
1 TAAAGAACGTGACTTTCAGCGGTGCTTTTCACACAAACGCCGC
* * ** * * *
18398484 TAAAAAACGTGACCTTCAGTAGCGCCTTTCATACAAACGCCGC
1 TAAAGAACGTGACTTTCAGCGGTGCTTTTCACACAAACGCCGC
* *
18398527 TAAAGAACGTGA-TCTTCAGTGGTGCCTTTT-ACACAAACGCTGC
1 TAAAGAACGTGACT-TTCAGCGGTG-CTTTTCACACAAACGCCGC
* * *
18398570 TAAATAACGTGATTTTCAGCGGTGCTTTTCACACAAATGCCGC
1 TAAAGAACGTGACTTTCAGCGGTGCTTTTCACACAAACGCCGC
* * * *
18398613 TAAAGAACGTGACCTTT-AGCGGCGCTTTTCACACAACCGTCGT
1 TAAAGAACGTGA-CTTTCAGCGGTGCTTTTCACACAAACGCCGC
* **** * ***
18398656 TAAAGAACATGACTTTCAGCGACATTTTTCACATAAACGTTAC
1 TAAAGAACGTGACTTTCAGCGGTGCTTTTCACACAAACGCCGC
* * * * * * * *
18398699 TAAAAAATGTGATTTTCAACGGCGCTTTTCATATAAACGTCGC
1 TAAAGAACGTGACTTTCAGCGGTGCTTTTCACACAAACGCCGC
*
18398742 TAAAGAACATGAC
1 TAAAGAACGTGAC
18398755 CTTGCGTTTT
Statistics
Matches: 213, Mismatches: 52, Indels: 12
0.77 0.19 0.04
Matches are distributed among these distances:
42 9 0.04
43 196 0.92
44 8 0.04
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (43 bp):
TAAAGAACGTGACTTTCAGCGGTGCTTTTCACACAAACGCCGC
Found at i:18398694 original size:129 final size:129
Alignment explanation
Indices: 18398441--18398757 Score: 327
Period size: 129 Copynumber: 2.5 Consensus size: 129
18398431 AAAATTTTGT
* * * *
18398441 TAAAGAACGTGACTTTT-AGCGGTGCTTTTCACACAAATGCCGTTAAAAAACGTGACCTTCAGTA
1 TAAAAAACGTGA-TTTTCAGCGGTGCTTTTCACACAAATGCCGCTAAAGAACGTGACCTTCAGCA
* * * * *
18398505 GCGCCTTTCATACAAACGCCGCTAAAGAACGTGATCTTCAGTGGTGCCTTTTACACAAACGCTGC
65 GCGCCTTTCACACAAACGCCGCTAAAGAACATGATCTTCAGTCGTACCTTTTACACAAACGCTAC
* * *
18398570 TAAATAACGTGATTTTCAGCGGTGCTTTTCACACAAATGCCGCTAAAGAACGTGACCTTTAGCGG
1 TAAAAAACGTGATTTTCAGCGGTGCTTTTCACACAAATGCCGCTAAAGAACGTGACCTTCAGCAG
* * * * * * *
18398635 CGCTTTTCACACAACCGTCGTTAAAGAACATGA-CTTTCAG-CG-ACATTTTTCACATAAACGTT
66 CGCCTTTCACACAAACGCCGCTAAAGAACATGATC-TTCAGTCGTAC-CTTTT-ACACAAACGCT
18398697 AC
128 AC
* * * * * * * *
18398699 TAAAAAATGTGATTTTCAACGGCGCTTTTCATATAAACGTCGCTAAAGAACATGACCTT
1 TAAAAAACGTGATTTTCAGCGGTGCTTTTCACACAAATGCCGCTAAAGAACGTGACCTT
18398758 GCGTTTTTCA
Statistics
Matches: 157, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
127 1 0.01
128 10 0.06
129 146 0.93
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (129 bp):
TAAAAAACGTGATTTTCAGCGGTGCTTTTCACACAAATGCCGCTAAAGAACGTGACCTTCAGCAG
CGCCTTTCACACAAACGCCGCTAAAGAACATGATCTTCAGTCGTACCTTTTACACAAACGCTAC
Found at i:18399609 original size:13 final size:14
Alignment explanation
Indices: 18399583--18399611 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18399573 ATTAACGACG
18399583 AATTAAACCATTAT
1 AATTAAACCATTAT
18399597 AATTAAA-CATTAT
1 AATTAAACCATTAT
18399610 AA
1 AA
18399612 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:18400114 original size:15 final size:15
Alignment explanation
Indices: 18400096--18400137 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
18400086 AAGGCTTATA
18400096 TCTTTCTTAAAAGGT
1 TCTTTCTTAAAAGGT
* *
18400111 TCTTTATTAAAATGT
1 TCTTTCTTAAAAGGT
*
18400126 T-TTTCTTTAAAG
1 TCTTTCTTAAAAG
18400138 TGCTTTTATG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (15 bp):
TCTTTCTTAAAAGGT
Found at i:18404666 original size:9 final size:9
Alignment explanation
Indices: 18404654--18404691 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
18404644 ATATGATATA
18404654 TATATAAGT
1 TATATAAGT
*
18404663 TATA-AATT
1 TATATAAGT
*
18404671 TATGTAAGT
1 TATATAAGT
18404680 TATATAAGT
1 TATATAAGT
18404689 TAT
1 TAT
18404692 GATATGATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
8 6 0.25
9 18 0.75
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (9 bp):
TATATAAGT
Found at i:18404709 original size:26 final size:25
Alignment explanation
Indices: 18404635--18404711 Score: 72
Period size: 26 Copynumber: 3.1 Consensus size: 25
18404625 TTAAGTTATG
18404635 TAAGTTATGATATG-AT-ATATATA
1 TAAGTTATGATATGTATGATATATA
* *
18404658 TAAGTTAT-AAATTTATG-TAAGTTATA
1 TAAGTTATGATATGTATGAT-A--TATA
18404684 TAAGTTATGATATGATATGATATATA
1 TAAGTTATGATATG-TATGATATATA
18404710 TA
1 TA
18404712 TATATATATG
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
22 3 0.07
23 11 0.26
24 1 0.02
26 18 0.43
27 3 0.07
28 5 0.12
29 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (25 bp):
TAAGTTATGATATGTATGATATATA
Found at i:18408394 original size:40 final size:40
Alignment explanation
Indices: 18408339--18408416 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
18408329 TACAGTACCT
*
18408339 TATGGTGTGTAGGGATGGATGGGTCGATTGTATCCCCATA
1 TATGGTGTGCAGGGATGGATGGGTCGATTGTATCCCCATA
* *
18408379 TATGGTGTGCAGGGATGGGTGGGTCGATTTTATCCCCA
1 TATGGTGTGCAGGGATGGATGGGTCGATTGTATCCCCA
18408417 CATGGTGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.18, C:0.14, G:0.36, T:0.32
Consensus pattern (40 bp):
TATGGTGTGCAGGGATGGATGGGTCGATTGTATCCCCATA
Found at i:18415654 original size:40 final size:40
Alignment explanation
Indices: 18415578--18415655 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
18415568 TGTAGTACCT
* * * *
18415578 TATGGTGTGTAGGGATGGATGGGTCGATTGTGTCCCCATA
1 TATGGTGTGCAGGGATGGATGAGTCAATTGTATCCCCATA
* * *
18415618 TATGGTGTGCAGGGATGGGTGAGTTAATTTTATCCCCA
1 TATGGTGTGCAGGGATGGATGAGTCAATTGTATCCCCA
18415656 CATGGTGTGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.19, C:0.13, G:0.35, T:0.33
Consensus pattern (40 bp):
TATGGTGTGCAGGGATGGATGAGTCAATTGTATCCCCATA
Found at i:18418768 original size:26 final size:26
Alignment explanation
Indices: 18418739--18418846 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
18418729 TCGTACAAAT
*
18418739 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
18418765 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18418791 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18418817 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18418843 TGAT
1 TGAT
18418847 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18430905 original size:40 final size:41
Alignment explanation
Indices: 18430861--18431008 Score: 162
Period size: 41 Copynumber: 3.7 Consensus size: 41
18430851 TAAACTTTTT
* * *
18430861 GCGGCAGTTTT-AAAAAGTCACCGTTAATTCTCGATCTTTA
1 GCGGCATTTTTCAAAAAGTCGCCGCTAATTCTCGATCTTTA
18430901 GCGGCATTTTTCAAAAAAG-CGCCGCTAATTCTCGATCTTTA
1 GCGGCATTTTTC-AAAAAGTCGCCGCTAATTCTCGATCTTTA
* *
18430942 GTGGCATTTTTCAAAAA-TGCGCCACTAATTCTCGATCTTTA
1 GCGGCATTTTTCAAAAAGT-CGCCGCTAATTCTCGATCTTTA
** *
18430983 ATGGCGTTTTTCAGAAAA--CGCCGCTA
1 GCGGCATTTTTCA-AAAAGTCGCCGCTA
18431009 GTGCCACTAG
Statistics
Matches: 95, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
40 22 0.23
41 63 0.66
42 10 0.11
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (41 bp):
GCGGCATTTTTCAAAAAGTCGCCGCTAATTCTCGATCTTTA
Found at i:18430930 original size:41 final size:41
Alignment explanation
Indices: 18430885--18431008 Score: 187
Period size: 41 Copynumber: 3.0 Consensus size: 41
18430875 AAGTCACCGT
*
18430885 TAATTCTCGATCTTTAGCGGCATTTTTCAAAAAAGCGCCGC
1 TAATTCTCGATCTTTAGTGGCATTTTTCAAAAAAGCGCCGC
* *
18430926 TAATTCTCGATCTTTAGTGGCATTTTTCAAAAATGCGCCAC
1 TAATTCTCGATCTTTAGTGGCATTTTTCAAAAAAGCGCCGC
* * *
18430967 TAATTCTCGATCTTTAATGGCGTTTTTCAGAAAA-CGCCGC
1 TAATTCTCGATCTTTAGTGGCATTTTTCAAAAAAGCGCCGC
18431007 TA
1 TA
18431009 GTGCCACTAG
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 7 0.09
41 68 0.91
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.35
Consensus pattern (41 bp):
TAATTCTCGATCTTTAGTGGCATTTTTCAAAAAAGCGCCGC
Found at i:18431257 original size:2 final size:2
Alignment explanation
Indices: 18431250--18431279 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18431240 AACCCTAAAA
18431250 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18431280 TACAAGGTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18431450 original size:29 final size:29
Alignment explanation
Indices: 18431392--18431459 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 29
18431382 CAAAATCTTC
* *
18431392 AACACTAAACCCCAAACAACAAACTTTAA
1 AACACTAAACCCCAAACAACAAAATATAA
* *
18431421 AACATTAAACCCCAAAC-CCAAAATA-ATA
1 AACACTAAACCCCAAACAACAAAATATA-A
*
18431449 AACCCTAAACC
1 AACACTAAACC
18431460 ATAAATTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
27 1 0.03
28 15 0.47
29 16 0.50
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.13
Consensus pattern (29 bp):
AACACTAAACCCCAAACAACAAAATATAA
Found at i:18431501 original size:15 final size:15
Alignment explanation
Indices: 18431483--18431512 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18431473 ACGAATAATT
18431483 AAACCCTAAAACATA
1 AAACCCTAAAACATA
*
18431498 AAACCCTAAACCATA
1 AAACCCTAAAACATA
18431513 GACATTAAAC
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:0.57, C:0.30, G:0.00, T:0.13
Consensus pattern (15 bp):
AAACCCTAAAACATA
Found at i:18432137 original size:41 final size:41
Alignment explanation
Indices: 18432023--18432392 Score: 369
Period size: 41 Copynumber: 9.1 Consensus size: 41
18432013 GCTGCTCAAC
* * *
18432023 TTTTTA-TGGTGTTTGGACCAGAAATGCTGCTATTGCTCAA
1 TTTTTAGTGGCGTTTGGACCAGAAACGCTGCTATTGCTCAG
* * ** *
18432063 TTTTTAGTGGC-TTTGGACAAAAAACGCCACTATTGCTCAA
1 TTTTTAGTGGCGTTTGGACCAGAAACGCTGCTATTGCTCAG
*
18432103 TTTTTAGTGGCGTTTGGACTAGAAACGCTGCTATTGCTCAG
1 TTTTTAGTGGCGTTTGGACCAGAAACGCTGCTATTGCTCAG
* *
18432144 -TTTTAAT-GCGTTTGGACCAGAAACGC-GACTTTTGCTCAG
1 TTTTTAGTGGCGTTTGGACCAGAAACGCTG-CTATTGCTCAG
* * *
18432183 TTTTTAGTGGCGTTTGGACC-GAAAATGCCGCTATTGCTTAG
1 TTTTTAGTGGCGTTTGGACCAG-AAACGCTGCTATTGCTCAG
* * *
18432224 TTTTTAATGGCGTTTGAACC-GAAAACGATGCTATTGCTCAG
1 TTTTTAGTGGCGTTTGGACCAG-AAACGCTGCTATTGCTCAG
*** * * * * *
18432265 TTTTTAGCAACTTTTGGGCCAAAAACG-TCGCTATTGATTAG
1 TTTTTAGTGGCGTTTGGACCAGAAACGCT-GCTATTGCTCAG
*
18432306 TTTTTAGTGGCGTTTGGACCAGAAACGCCGCTATTGCTCAG
1 TTTTTAGTGGCGTTTGGACCAGAAACGCTGCTATTGCTCAG
* * * * *
18432347 TTTTTAGTGGAGTTTGGACCAAAAATGCTGTTATTGCTGAG
1 TTTTTAGTGGCGTTTGGACCAGAAACGCTGCTATTGCTCAG
18432388 TTTTT
1 TTTTT
18432393 TACAAACGCC
Statistics
Matches: 271, Mismatches: 49, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
38 1 0.00
39 28 0.10
40 55 0.20
41 186 0.69
42 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (41 bp):
TTTTTAGTGGCGTTTGGACCAGAAACGCTGCTATTGCTCAG
Found at i:18445703 original size:22 final size:22
Alignment explanation
Indices: 18445673--18445715 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
18445663 ATTATTACTA
*
18445673 AATTTGAATTCGACTCAATCGT
1 AATTCGAATTCGACTCAATCGT
18445695 AATTCGAATTCGACTCAATCG
1 AATTCGAATTCGACTCAATCG
18445716 ATAGCTAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.33
Consensus pattern (22 bp):
AATTCGAATTCGACTCAATCGT
Found at i:18453394 original size:91 final size:91
Alignment explanation
Indices: 18453239--18453434 Score: 286
Period size: 91 Copynumber: 2.2 Consensus size: 91
18453229 ACTCTTTGTA
* *
18453239 TAAGGGTTGGGAGATGTATGCCTAAAGCAACGCTTAAATAAGAGTTGCCTTTATGTAGTCCTAAG
1 TAAGGGTTGGTATATGTATGCCTAAAGCAACGCTTAAATAAGAGTTGCCTTTATGTAGTCCTAAG
* *
18453304 ACGACACTTTTGTGGTGACATTTTCC
66 ACGACACTTTTGTGGCGACACTTTCC
* * * * *
18453330 TAAGGGTTGGTATATGTATGCCT-AGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTTGTCCTAA
1 TAAGGGTTGGTATATGTATGCCTAAAGCAACGCTTAAATAAGAGTT-GCCTTTATGTAGTCCTAA
18453394 GACGACACTTTTGTGGCGACACTTTCC
65 GACGACACTTTTGTGGCGACACTTTCC
*
18453421 TAAGTGTTGGTATA
1 TAAGGGTTGGTATA
18453435 GACTATGCTT
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
90 20 0.21
91 74 0.79
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (91 bp):
TAAGGGTTGGTATATGTATGCCTAAAGCAACGCTTAAATAAGAGTTGCCTTTATGTAGTCCTAAG
ACGACACTTTTGTGGCGACACTTTCC
Found at i:18453568 original size:132 final size:132
Alignment explanation
Indices: 18453330--18453698 Score: 641
Period size: 132 Copynumber: 2.8 Consensus size: 132
18453320 GACATTTTCC
* * *
18453330 TAAGGGTTGGTATATGTATGCCT-AGGCAACGCTTGAATAAGAGTTGGCTTTTGTGTTGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
* *
18453394 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGTATAGACTATGCTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTACGCTTTGGCCAACTCTTTG
18453459 TA
131 TA
18453461 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
*
18453526 GACGACACTTTTGTGGCGACACTTTTCTAAGTGTTGGGATAGACTACGCTTTGGCCAACTCTTTG
66 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTACGCTTTGGCCAACTCTTTG
18453591 TA
131 TA
*
18453593 TAAGGGTTGGGATATGTATGCCTAAGACAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
1 TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
* * *
18453658 GACGATAGTTTTGGGGCGACACTTTCCTAAGTGTTGGGATA
66 GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATA
18453699 CACTTGTCAG
Statistics
Matches: 226, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
131 22 0.10
132 204 0.90
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (132 bp):
TAAGGGTTGGGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGCTTTTGTCTAGTCCTAA
GACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTACGCTTTGGCCAACTCTTTG
TA
Found at i:18454057 original size:22 final size:22
Alignment explanation
Indices: 18454032--18454086 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
18454022 GGTTTGGGGT
18454032 TTATGATTTTAGGGG-TTTATGA
1 TTATGA-TTTAGGGGTTTTATGA
*
18454054 TTATGGATTT-GGGGTTTTGTGA
1 TTAT-GATTTAGGGGTTTTATGA
18454076 TTATGAGTTTA
1 TTATGA-TTTA
18454087 CGATTAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 6 0.21
22 20 0.71
23 2 0.07
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (22 bp):
TTATGATTTAGGGGTTTTATGA
Found at i:18454767 original size:47 final size:47
Alignment explanation
Indices: 18454699--18454912 Score: 374
Period size: 47 Copynumber: 4.6 Consensus size: 47
18454689 TTAAGAATGT
*
18454699 ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATT
1 ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
*
18454746 ATGCATACTTTACCCAGATAAAGTATGTATTAGCAGATTCACTAATA
1 ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
* *
18454793 ATGCATACTTTACTCGGATAAAGTATATATTAGCAGATTCACTAATA
1 ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
*
18454840 ATGCATATTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
1 ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
*
18454887 ATGCATACTTTACCCGGGTAAAGTAT
1 ATGCATACTTTACCCGGATAAAGTAT
18454913 ACATTATTTA
Statistics
Matches: 157, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 157 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (47 bp):
ATGCATACTTTACCCGGATAAAGTATGTATTAGCAGATTCACTAATA
Found at i:18457881 original size:36 final size:36
Alignment explanation
Indices: 18457820--18458106 Score: 154
Period size: 36 Copynumber: 7.8 Consensus size: 36
18457810 ATTATACGTG
* * *
18457820 TCTATCCCAATCTTTTTTTATAGGTTGTTTTAAATAATA
1 TCTATCCCAA-CCTTTTTTA-AGGTTGCTTTAAA-AAGA
* *
18457859 TCTATCCCAA-CTTTTTTAAGGTTGCTTTAAACAGG
1 TCTATCCCAACCTTTTTTAAGGTTGCTTTAAAAAGA
* * * * * *
18457894 TCTATCCCAACCTTTTTTAAAAGTTACCTTAGACATGG
1 TCTATCCCAACCTTTTTT-AAGGTTGCTTTA-AAAAGA
* * *
18457932 TCTATCCCAACC-TTTTTAAGGTTGCCTT-AGACGA
1 TCTATCCCAACCTTTTTTAAGGTTGCTTTAAAAAGA
* * * * * *
18457966 GTCTATTCCGACCTTTTTTAAAGGTTGCCTTAGACATGG
1 -TCTATCCCAACCTTTTTT-AAGGTTGCTTTA-AAAAGA
* * * * * * *
18458005 TTTATCCTAA-CTTGTTTAAGGTTGCCTTAGACAGG
1 TCTATCCCAACCTTTTTTAAGGTTGCTTTAAAAAGA
* *
18458040 TCTATCCCAACCTTTTTTATAGGTTGTTTTAGACAATG-
1 TCTATCCCAACCTTTTTTA-AGGTTGCTTTA-A-AAAGA
* *
18458078 TCGATCCCAACC-TTTTTGAGGTTGCTTTA
1 TCTATCCCAACCTTTTTTAAGGTTGCTTTA
18458107 GACGGCTCTA
Statistics
Matches: 195, Mismatches: 41, Indels: 27
0.74 0.16 0.10
Matches are distributed among these distances:
34 3 0.02
35 31 0.16
36 62 0.32
37 52 0.27
38 32 0.16
39 15 0.08
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (36 bp):
TCTATCCCAACCTTTTTTAAGGTTGCTTTAAAAAGA
Found at i:18457942 original size:73 final size:72
Alignment explanation
Indices: 18457859--18458243 Score: 350
Period size: 73 Copynumber: 5.3 Consensus size: 72
18457849 TTAAATAATA
* * * *
18457859 TCTATCCCAACTTTTTTAAGGTTGCTTTAAACAGGTCTATCCCAACCTTTTTTAAAAGTTACCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGAC-GGTCTATCCCAACCTTTTTTAAAAGTTGCCTT
18457924 AGACATGG
65 AGACATGG
* * *
18457932 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACGAGTCTATTCCGACCTTTTTTAAAGGTTGCCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACG-GTCTATCCCAACCTTTTTTAAAAGTTGCCTT
18457997 AGACATGG
65 AGACATGG
* * * * **
18458005 TTTATCCTAA-CTTGTTTAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTATAGGTTGTTT
1 TCTATCCCAACCTT-TTTAAGGTTGCCTTAGAC-GGTCTATCCCAACCTTTTTTAAAAGTTGCCT
18458069 TAGACAAT-G
64 TAGAC-ATGG
* * * *
18458078 TCGATCCCAACCTTTTTGAGGTTGCTTTAGACGGCTCTATCCTAA-CTGTTTTTAAAAGTTGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACGG-TCTATCCCAACCT-TTTTTAAAAGTTGCCT
* *
18458142 TA-AGCAAGA
64 TAGA-CATGG
* ** * * * * * * * *
18458151 ACTATATCGACCTTTTTAAGGTTGTCTTAGATAGGTTTATCACAACCTTTTTCAAAGGTTGGTCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGA-CGGTCTATCCCAACCTTTTTTAAAAGTT-GCCT
18458216 TA-AC-TAGG
64 TAGACAT-GG
18458224 TCTATCCCAACCCTTTTTAA
1 TCTATCCCAA-CCTTTTTAA
18458244 AGGTCGGCAT
Statistics
Matches: 251, Mismatches: 47, Indels: 27
0.77 0.14 0.08
Matches are distributed among these distances:
72 10 0.04
73 216 0.86
74 25 0.10
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.39
Consensus pattern (72 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGTCTATCCCAACCTTTTTTAAAAGTTGCCTTA
GACATGG
Found at i:18458107 original size:36 final size:35
Alignment explanation
Indices: 18457859--18458243 Score: 258
Period size: 37 Copynumber: 10.5 Consensus size: 35
18457849 TTAAATAATA
* * * *
18457859 TCTATCCCAACTTTTTTAAGGTTGCTTTAAACAGG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
* *
18457894 TCTATCCCAACCTTTTTTAAAAGTTACCTTAGACATGG
1 TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAT-G
18457932 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACGA-G
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGAC-ATG
* *
18457967 TCTATTCCGACCTTTTTTAAAGGTTGCCTTAGACATGG
1 TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAT-G
* * *
18458005 TTTATCCTAA-CTTGTTTAAGGTTGCCTTAGACAGG
1 TCTATCCCAACCTT-TTTAAGGTTGCCTTAGACATG
**
18458040 TCTATCCCAACCTTTTTTATAGGTTGTTTTAGACAATG
1 TCTATCCCAACC-TTTTTA-AGGTTGCCTTAGAC-ATG
* * * *
18458078 TCGATCCCAACCTTTTTGAGGTTGCTTTAGAC-GG
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
* * * *
18458112 CTCTATCCTAACTGTTTTTAAAAGTTGCCTTA-AGCAAG
1 -TCTATCCCAAC-CTTTTT-AAGGTTGCCTTAGA-CATG
* ** * * * *
18458150 AACTATATCGACCTTTTTAAGGTTGTCTTAGATAGG
1 -TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
* * * *
18458186 TTTATCACAACCTTTTTCAAAGGTTGGTCTTA-ACTAGG
1 TCTATCCCAACCTTTTT--AAGGTT-GCCTTAGAC-ATG
18458224 TCTATCCCAACCCTTTTTAA
1 TCTATCCCAA-CCTTTTTAA
18458244 AGGTCGGCAT
Statistics
Matches: 276, Mismatches: 50, Indels: 46
0.74 0.13 0.12
Matches are distributed among these distances:
34 1 0.00
35 52 0.19
36 78 0.28
37 81 0.29
38 57 0.21
39 7 0.03
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.39
Consensus pattern (35 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGACATG
Found at i:18459262 original size:42 final size:42
Alignment explanation
Indices: 18459144--18459280 Score: 129
Period size: 42 Copynumber: 3.2 Consensus size: 42
18459134 CAGTTTAATA
*
18459144 ATCTGCAAATAGTGTGGTTCATTCATGAGCCAAGTGACAGTT-TTT
1 ATCTGCAAATA-TGTGGTTCATTCATGAACCAAGTG---GTTGTTT
** * *
18459189 ATCTGCAAATATGTTATGCATTCA-CAA-CAAGTGGTTGTTT
1 ATCTGCAAATATGTGGTTCATTCATGAACCAAGTGGTTGTTT
* *
18459229 ATCTGCAAATATGTGGTTCGA-TCATGAACCAAGTGATAGTTT
1 ATCTGCAAATATGTGGTTC-ATTCATGAACCAAGTGGTTGTTT
*
18459271 ATCAGCAAAT
1 ATCTGCAAAT
18459281 GTTTTTATCT
Statistics
Matches: 76, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
39 3 0.04
40 22 0.29
41 3 0.04
42 26 0.34
43 1 0.01
44 10 0.13
45 11 0.14
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (42 bp):
ATCTGCAAATATGTGGTTCATTCATGAACCAAGTGGTTGTTT
Found at i:18460771 original size:15 final size:15
Alignment explanation
Indices: 18460736--18460765 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18460726 TTTAATCCTT
*
18460736 TATAAATTATAAAGA
1 TATAAATTATAAAAA
18460751 TATAAATTATAAAAA
1 TATAAATTATAAAAA
18460766 ATTAAAATTT
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:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
TATAAATTATAAAAA
Found at i:18461330 original size:2 final size:2
Alignment explanation
Indices: 18461319--18461347 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18461309 ATATTTTATT
18461319 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18461348 AAAGTACGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:18462598 original size:23 final size:23
Alignment explanation
Indices: 18462535--18462599 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
18462525 ATATATGCCT
* *
18462535 AATATGTGAACTCATATATTAGC
1 AATATGTGAACTCATATGTTAAC
18462558 AATATGTGAACTCATATGTTAAC
1 AATATGTGAACTCATATGTTAAC
* *
18462581 AGTATGTGAACTTATATGT
1 AATATGTGAACTCATATGT
18462600 CTGTAAATGC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (23 bp):
AATATGTGAACTCATATGTTAAC
Found at i:18463811 original size:25 final size:27
Alignment explanation
Indices: 18463774--18463826 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
18463764 TCAAACATGC
18463774 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
18463800 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
18463826 A
1 A
18463827 ACAGTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:18465348 original size:26 final size:26
Alignment explanation
Indices: 18465312--18465473 Score: 254
Period size: 26 Copynumber: 6.2 Consensus size: 26
18465302 CATGGAATTC
18465312 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGAAACATTTACCTAACCT-A
*
18465338 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
18465364 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
18465390 TTATCATGAAGCATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
18465416 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
18465442 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
18465468 TTATCA
1 TTATCA
18465474 ATTTGTATCA
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
26 125 0.99
27 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:18465445 original size:78 final size:78
Alignment explanation
Indices: 18465312--18465473 Score: 288
Period size: 78 Copynumber: 2.1 Consensus size: 78
18465302 CATGGAATTC
*
18465312 TTATCATGAAACATTTACCTAACTCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
18465377 TTTACCTAACCTA
66 TTTACCTAACCTA
* * *
18465390 TTATCATGAAGCATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
18465455 TTTACCTAACCTA
66 TTTACCTAACCTA
18465468 TTATCA
1 TTATCA
18465474 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
TTTACCTAACCTA
Found at i:18468046 original size:2 final size:2
Alignment explanation
Indices: 18468039--18468069 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18468029 ATATAGTTTG
18468039 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
18468070 AGGTCTTAAT
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:18469001 original size:29 final size:29
Alignment explanation
Indices: 18468967--18469084 Score: 110
Period size: 29 Copynumber: 4.1 Consensus size: 29
18468957 CTTAGGATTT
* *
18468967 TGCGAGCCTATGTACAGACCCTAGGTACA
1 TGCGAGCCTATGTACAAACCCTAGGAACA
* *
18468996 TGCGAGCCTATGTACAAATCCTAGGAACT
1 TGCGAGCCTATGTACAAACCCTAGGAACA
* *** * *
18469025 TGCAAGCCTATGTGTGAACCCTAGGGACT
1 TGCGAGCCTATGTACAAACCCTAGGAACA
* ***
18469054 TACGAGCCTATGTGTGAACCCTAGGAACA
1 TGCGAGCCTATGTACAAACCCTAGGAACA
18469083 TG
1 TG
18469085 AAATCCTATA
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 74 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (29 bp):
TGCGAGCCTATGTACAAACCCTAGGAACA
Found at i:18469010 original size:16 final size:16
Alignment explanation
Indices: 18468967--18469011 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 16
18468957 CTTAGGATTT
18468967 TGCGAGCCTATGTACA
1 TGCGAGCCTATGTACA
* *
18468983 ---GACCCTAGGTACA
1 TGCGAGCCTATGTACA
18468996 TGCGAGCCTATGTACA
1 TGCGAGCCTATGTACA
18469012 AATCCTAGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 6
0.69 0.12 0.19
Matches are distributed among these distances:
13 11 0.50
16 11 0.50
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (16 bp):
TGCGAGCCTATGTACA
Found at i:18469092 original size:29 final size:28
Alignment explanation
Indices: 18469015--18469093 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 28
18469005 ATGTACAAAT
*
18469015 CCTAGGAACTTGCAAGCCTATGTGTGAAC
1 CCTAGGAAC-TGAAAGCCTATGTGTGAAC
* * *
18469044 CCTAGGGACTTACGAGCCTATGTGTGAAC
1 CCTAGGAACTGA-AAGCCTATGTGTGAAC
*
18469073 CCTAGGAACATGAAATCCTAT
1 CCTAGGAAC-TGAAAGCCTAT
18469094 ATGCCATGCG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
28 1 0.03
29 37 0.93
30 2 0.05
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (28 bp):
CCTAGGAACTGAAAGCCTATGTGTGAAC
Found at i:18469124 original size:63 final size:63
Alignment explanation
Indices: 18469040--18469177 Score: 156
Period size: 63 Copynumber: 2.2 Consensus size: 63
18469030 GCCTATGTGT
* * * *
18469040 GAACCCTAGGGA-CTTACGAGCCTATGTGTGAACCCTAGGAACATG-AAATCCTATATGCC-ATG
1 GAACCCTA-GGATCATACGAGCCTATATGCGAACCCTAGGAACATGTAAA-CATATAT-CCTATG
18469102 C
63 C
* * * *
18469103 GTACCCTAGGATCATACGAGCCTATATGCGAATCTTAGGAACATGTGAACATATATCCTATGC
1 GAACCCTAGGATCATACGAGCCTATATGCGAACCCTAGGAACATGTAAACATATATCCTATGC
18469166 GAACCCTAGGAT
1 GAACCCTAGGAT
18469178 TGTGCAACCC
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
62 5 0.08
63 56 0.89
64 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (63 bp):
GAACCCTAGGATCATACGAGCCTATATGCGAACCCTAGGAACATGTAAACATATATCCTATGC
Found at i:18470081 original size:11 final size:12
Alignment explanation
Indices: 18470058--18470087 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18470048 GTTATTATTG
18470058 TTTTAAAGTTTT
1 TTTTAAAGTTTT
18470070 TTTTAAAGTTTT
1 TTTTAAAGTTTT
*
18470082 CTTTAA
1 TTTTAA
18470088 TCATTCTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.03, G:0.07, T:0.63
Consensus pattern (12 bp):
TTTTAAAGTTTT
Found at i:18473999 original size:47 final size:47
Alignment explanation
Indices: 18473935--18474045 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
18473925 GACATTGAGT
*
18473935 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
18473982 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
18474029 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
18474046 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:18481256 original size:47 final size:47
Alignment explanation
Indices: 18481192--18481302 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
18481182 GACATTGAGT
*
18481192 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
18481239 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
18481286 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
18481303 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:18484527 original size:12 final size:12
Alignment explanation
Indices: 18484509--18484563 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
18484499 AACACATATG
18484509 TATTTTTATGTA
1 TATTTTTATGTA
* *
18484521 CATTTTTATGGA
1 TATTTTTATGTA
18484533 TATTTTTATGTA
1 TATTTTTATGTA
**
18484545 TATAATTATGTA
1 TATTTTTATGTA
*
18484557 AATTTTT
1 TATTTTT
18484564 CACTTATAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.60
Consensus pattern (12 bp):
TATTTTTATGTA
Found at i:18485837 original size:31 final size:31
Alignment explanation
Indices: 18485802--18485862 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
18485792 AAAAATACAA
18485802 ACAAAAACTTCTTATATCTTTCAAA-CCATTG
1 ACAAAAACTTCTTATATCTTT-AAAGCCATTG
**
18485833 ACAAAATTTTCTTATATCTTTAAAGCCATT
1 ACAAAAACTTCTTATATCTTTAAAGCCATT
18485863 AATGACAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 3 0.11
31 24 0.89
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.39
Consensus pattern (31 bp):
ACAAAAACTTCTTATATCTTTAAAGCCATTG
Found at i:18487425 original size:14 final size:14
Alignment explanation
Indices: 18487406--18487444 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
18487396 TAACTGATCG
18487406 ATTAATTTAATTAA
1 ATTAATTTAATTAA
*
18487420 ATTAATTTGATTAA
1 ATTAATTTAATTAA
*
18487434 A-TAATTCAATT
1 ATTAATTTAATT
18487445 TTAACCTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (14 bp):
ATTAATTTAATTAA
Found at i:18487944 original size:31 final size:30
Alignment explanation
Indices: 18487900--18487958 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
18487890 AAACCAAATT
*
18487900 AGTTGAAAGTG-AAATTCAATAGTTGATTTA
1 AGTTGAAAGTGAAAATCCAA-AGTTGATTTA
*
18487930 AGTTGGAAGATGAAAATCCAAAGTTGATT
1 AGTTGAAAG-TGAAAATCCAAAGTTGATT
18487959 ATATGGTGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 8 0.32
31 10 0.40
32 7 0.28
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (30 bp):
AGTTGAAAGTGAAAATCCAAAGTTGATTTA
Found at i:18490683 original size:21 final size:21
Alignment explanation
Indices: 18490657--18490698 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18490647 TTTAAAAACT
*
18490657 TAAAAATAAATATTAAAACAAA
1 TAAAAAT-AATACTAAAACAAA
18490679 TAAAAATAATACTAAAACAA
1 TAAAAATAATACTAAAACAA
18490699 TTCTTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAAAATAATACTAAAACAAA
Found at i:18492261 original size:21 final size:22
Alignment explanation
Indices: 18492235--18492275 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
18492225 GGTACTTTAC
*
18492235 GGTTTAGGGTATAT-AGTTAAG
1 GGTTTACGGTATATAAGTTAAG
*
18492256 GGTTTACGGTTTATAAGTTA
1 GGTTTACGGTATATAAGTTA
18492276 TTATTTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.27, C:0.02, G:0.29, T:0.41
Consensus pattern (22 bp):
GGTTTACGGTATATAAGTTAAG
Found at i:18492683 original size:35 final size:36
Alignment explanation
Indices: 18492642--18492741 Score: 118
Period size: 35 Copynumber: 2.8 Consensus size: 36
18492632 ACGTGTTAGG
* *
18492642 GGTTTAGGGTTTAGAGTTTATGTG-TAA-GATTTAT
1 GGTTTAGGGTTTAGAGTTTATGTGTTAATAAATTAT
18492676 GGTTTTAGGGTTTA-AGGTTTA-GTGTTAATAAATTAT
1 GG-TTTAGGGTTTAGA-GTTTATGTGTTAATAAATTAT
*
18492712 GGTTTAGGGTTTAGGGTTTATGTGGTTAAT
1 GGTTTAGGGTTTAGAGTTTATGT-GTTAAT
18492742 GGTTACATGT
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
34 6 0.11
35 35 0.62
36 9 0.16
37 6 0.11
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (36 bp):
GGTTTAGGGTTTAGAGTTTATGTGTTAATAAATTAT
Found at i:18492960 original size:14 final size:14
Alignment explanation
Indices: 18492941--18492978 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
18492931 GAAAAAAATG
18492941 AAATTATTTAGATT
1 AAATTATTTAGATT
18492955 AAATTATTTAGATT
1 AAATTATTTAGATT
18492969 AAATTATTTA
1 AAATTATTTA
18492979 AGAGATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (14 bp):
AAATTATTTAGATT
Found at i:18493067 original size:16 final size:16
Alignment explanation
Indices: 18493021--18493072 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
18493011 ATTAGATTTT
18493021 AAAAAAATTG-ATAACA
1 AAAAAAATTGAAT-ACA
*
18493037 AATAAAAATTAAATACA
1 AA-AAAAATTGAATACA
* *
18493054 AAAAAAAATGAATATA
1 AAAAAAATTGAATACA
18493070 AAA
1 AAA
18493073 TGGAGGTTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 16 0.53
17 12 0.40
18 2 0.07
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (16 bp):
AAAAAAATTGAATACA
Found at i:18496852 original size:2 final size:2
Alignment explanation
Indices: 18496845--18496886 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
18496835 TTATTGTCAT
18496845 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18496887 AGAACAAAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18497710 original size:2 final size:2
Alignment explanation
Indices: 18497693--18497738 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
18497683 TAAATTGAAT
*
18497693 TA TA TA T- TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18497734 TA TA T
1 TA TA T
18497739 GTGTGTGTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18497743 original size:2 final size:2
Alignment explanation
Indices: 18497738--18497767 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18497728 TATATATATA
18497738 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
18497768 AATGAGATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:18497914 original size:15 final size:15
Alignment explanation
Indices: 18497894--18497950 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
18497884 CGATGAATTT
18497894 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
18497909 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
18497924 ATTGAATTTATATTG
1 ATTGAATTTATATTG
18497939 ATTGAA-TTATAT
1 ATTGAATTTATAT
18497951 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:18498373 original size:21 final size:21
Alignment explanation
Indices: 18498333--18498406 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
18498323 AGGCACTTTA
18498333 TGTGTCGTATTTCA-GCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
18498355 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
18498376 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
18498397 TGTGTCGTAT
1 TGTGTCGTAT
18498407 ACTGATCAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
20 3 0.07
21 33 0.73
22 9 0.20
ACGTcount: A:0.14, C:0.22, G:0.26, T:0.39
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:18498589 original size:18 final size:19
Alignment explanation
Indices: 18498568--18498608 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
18498558 AATGAAATGA
18498568 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATGTGAG-ATT
18498586 GAAATTGAGATGTGAGATT
1 GAAATTGAGATGTGAGATT
18498605 GAAA
1 GAAA
18498609 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATGTGAGATT
Found at i:18498723 original size:17 final size:17
Alignment explanation
Indices: 18498703--18498744 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
18498693 AGAAGTAAAG
18498703 TGTGAATACAAGTGAAT
1 TGTGAATACAAGTGAAT
18498720 TGTGAATACAAGTGAAT
1 TGTGAATACAAGTGAAT
18498737 TGTGAATA
1 TGTGAATA
18498745 TATTGAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (17 bp):
TGTGAATACAAGTGAAT
Found at i:18500642 original size:241 final size:241
Alignment explanation
Indices: 18499925--18500872 Score: 1745
Period size: 241 Copynumber: 3.9 Consensus size: 241
18499915 TAAAATAGTT
* *
18499925 AAAGTTCTATCGAGCTCATTTACTAATGAATATTTATTACCACGTAGCTTGTTTGTCCATTAAAA
1 AAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCACGTAGCTTGCTTGTCCATTAAAA
*
18499990 TTACAACAATAGCTGACCTTTTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAG
66 TTACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAG
*
18500055 GCTGGAAACCTGACGAGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAA
131 GCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAA
18500120 CAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAA
196 CAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAA
*
18500166 AAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCACATAGCTTGCTTGTCCATTAAAA
1 AAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCACGTAGCTTGCTTGTCCATTAAAA
*
18500231 TTACAACAATAGCTGACCTTCTCTCCAA-CTTTTTTTAAATATTTTAAAGATTCAAAGTATCTAG
66 TTACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAG
18500295 GCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAA
131 GCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAA
*
18500360 CAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGGAA
196 CAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAA
*
18500406 AAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCACGTAGCTTGCTTTTCCATTAAAA
1 AAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCACGTAGCTTGCTTGTCCATTAAAA
18500471 TTACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAG
66 TTACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAG
*
18500536 GTTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAA
131 GCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAA
18500601 CAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAA
196 CAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAA
** *
18500647 AAAGTTCTATTAAGCTCATTTACTATTGAATATTTATTATCACGTAGCTTGCTTGTCCATTAAAA
1 AAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCACGTAGCTTGCTTGTCCATTAAAA
* *
18500712 TTACAACAATAACTGACCTTCTCTCTAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAG
66 TTACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAG
*
18500777 GCTGGAAACCTGATGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAA
131 GCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAA
*
18500842 CAATGCCACGTATGATGAATCTTAAAAAATT
196 CAACGCCACGTATGATGAATCTTAAAAAATT
18500873 ACTATATTCA
Statistics
Matches: 685, Mismatches: 21, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
240 235 0.34
241 450 0.66
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (241 bp):
AAAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCACGTAGCTTGCTTGTCCATTAAAA
TTACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAG
GCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAA
CAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAA
Found at i:18501015 original size:9 final size:9
Alignment explanation
Indices: 18500992--18501119 Score: 112
Period size: 9 Copynumber: 13.6 Consensus size: 9
18500982 ATTGATCATT
*
18500992 ACTTAAATA
1 ACTTACATA
*
18501001 AATTACATA
1 ACTTACATA
18501010 ACTTACATA
1 ACTTACATA
* *
18501019 ACTCATATA
1 ACTTACATA
18501028 ACTTACATA
1 ACTTACATA
*
18501037 ATTTACATAACA
1 ACTTACAT---A
18501049 ACTTACATA
1 ACTTACATA
*
18501058 ACTCACATA
1 ACTTACATA
*
18501067 ACTTACTTA
1 ACTTACATA
*
18501076 ATTTACATA
1 ACTTACATA
*
18501085 ACTCACATA
1 ACTTACATA
*
18501094 ACGTACATAACA
1 ACTTACAT---A
18501106 ACTTACATA
1 ACTTACATA
18501115 ACTTA
1 ACTTA
18501120 ACTAATACAT
Statistics
Matches: 94, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
9 78 0.83
12 16 0.17
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:18501061 original size:39 final size:39
Alignment explanation
Indices: 18501009--18501086 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
18500999 TAAATTACAT
*
18501009 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
*
18501048 AACTTACATAACTCACATAACTTACTTAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
18501087 TCACATAACG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:18501086 original size:57 final size:57
Alignment explanation
Indices: 18501005--18501117 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
18500995 TAAATAAATT
* * **
18501005 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* * *
18501062 ACATAACTTACTTAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
18501118 TAACTAATAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:18501109 original size:39 final size:36
Alignment explanation
Indices: 18501003--18501115 Score: 122
Period size: 39 Copynumber: 3.0 Consensus size: 36
18500993 CTTAAATAAA
18501003 TTACATAACTTACATAACT-CATATAACTTACATAAT
1 TTACATAACTTACATAACTACATA-AACTTACATAAT
*
18501039 TTACATAACAACTTACATAACTCACAT-AACTTACTTAAT
1 TTACAT---AACTTACATAACT-ACATAAACTTACATAAT
*
18501078 TTACATAACTCACATAACGTACATAACAACTTACATAA
1 TTACATAACTTACATAAC-TACAT-A-AACTTACATAA
18501116 CTTAACTAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
36 21 0.32
37 1 0.02
39 40 0.62
41 3 0.05
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (36 bp):
TTACATAACTTACATAACTACATAAACTTACATAAT
Found at i:18507175 original size:43 final size:43
Alignment explanation
Indices: 18507114--18507251 Score: 222
Period size: 43 Copynumber: 3.2 Consensus size: 43
18507104 TCTGCCAAAA
* *
18507114 TTAGCGGCACTTTTCCCACAAACACCCTTAAAAGCCTTGACTT
1 TTAGCGGCGCTTTTCCCACAAACGCCCTTAAAAGCCTTGACTT
*
18507157 TTAGCGGCGCTTTTCCCACAAACGCCCTTAAAAGTCTTGACTT
1 TTAGCGGCGCTTTTCCCACAAACGCCCTTAAAAGCCTTGACTT
* * *
18507200 TTAGCGGCGCTTTTCTCACAAACGCCGTTAAAAGCCGTGACTT
1 TTAGCGGCGCTTTTCCCACAAACGCCCTTAAAAGCCTTGACTT
18507243 TTAGCGGCG
1 TTAGCGGCG
18507252 TATTTTTTTT
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (43 bp):
TTAGCGGCGCTTTTCCCACAAACGCCCTTAAAAGCCTTGACTT
Found at i:18514351 original size:29 final size:30
Alignment explanation
Indices: 18514304--18514371 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
18514294 TGGCACAAGA
* * *
18514304 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
18514334 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
18514364 GCAAATAT
1 GTAAATAT
18514372 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:18518562 original size:39 final size:39
Alignment explanation
Indices: 18518516--18518655 Score: 244
Period size: 39 Copynumber: 3.6 Consensus size: 39
18518506 GCTCTGATGA
18518516 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
18518555 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
18518594 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* **
18518633 GCTTCAGCTAGATTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
18518656 AGATCACAAT
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 96 1.00
ACGTcount: A:0.13, C:0.26, G:0.24, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:18523974 original size:27 final size:27
Alignment explanation
Indices: 18523817--18523973 Score: 215
Period size: 27 Copynumber: 5.8 Consensus size: 27
18523807 ATTACCAAAG
* *
18523817 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
18523844 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
18523871 TACCCTCGATTTACAGAAGTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
18523898 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
18523925 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
18523952 TACCCTCAATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
18523974 TAAAATACCC
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:18523982 original size:27 final size:27
Alignment explanation
Indices: 18523952--18524144 Score: 187
Period size: 27 Copynumber: 7.2 Consensus size: 27
18523942 ATTACTGTTT
** *
18523952 TACCCTCAATTTACAAAATTACTAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
* * * *
18523979 TACCCT-AGTCTGTAAAATTGCTAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
***
18524005 TACCCTTGGTTTGTAAAATTA-CAGAAA
1 TACCCTCAATTTGTAAAATTACCA-AAA
*
18524032 TACCTTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
*
18524059 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTGTAAAATTACCAAAA
** * *
18524086 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCAATTTGTAAAATTACCAAAA
18524113 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
18524140 TACCC
1 TACCC
18524145 CTGATTTACA
Statistics
Matches: 137, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
26 25 0.18
27 109 0.80
28 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
TACCCTCAATTTGTAAAATTACCAAAA
Found at i:18523983 original size:81 final size:81
Alignment explanation
Indices: 18523804--18523984 Score: 209
Period size: 81 Copynumber: 2.2 Consensus size: 81
18523794 CACGACTTGT
* * *
18523804 AAAATTACCAAAGTACCCCCGATTTACATAATTACCGTTTTACCCTCGACTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGACTTACAGAATTACCGT
*
18523869 TTTACCCTCGATTTAC
66 TTTACCCTCAATTTAC
* * **** * * * * * *
18523885 AGAAGTACCGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGT
1 AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGACTTACAGAATTACCGT
18523950 TTTACCCTCAATTTAC
66 TTTACCCTCAATTTAC
*
18523966 AAAATTACTAAAATACCCT
1 AAAATTACCAAAATACCCT
18523985 AGTCTGTAAA
Statistics
Matches: 78, Mismatches: 22, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCCTCGACTTACAGAATTACCGT
TTTACCCTCAATTTAC
Found at i:18523984 original size:54 final size:54
Alignment explanation
Indices: 18523804--18523984 Score: 173
Period size: 54 Copynumber: 3.4 Consensus size: 54
18523794 CACGACTTGT
* * * *
18523804 AAAATTACCAAAGTACCCCCGATTTACATAATTACCGTTTTACCCTCGACTTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
* *** * * *
18523858 AGAATTACCGTTTTACCCTCGATTTACAGAAGTACCGTTTTACCCTTGATTTAT
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
* **** * * *
18523912 AGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCAATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
* *
18523966 AAAATTACTAAAATACCCT
1 AAAATTACCAAATTACCCT
18523985 AGTCTGTAAA
Statistics
Matches: 104, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 104 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (54 bp):
AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
Found at i:18524097 original size:81 final size:81
Alignment explanation
Indices: 18523952--18524146 Score: 286
Period size: 81 Copynumber: 2.4 Consensus size: 81
18523942 ATTACTGTTT
** * * *
18523952 TACCCTCAATTTACAAAATTACTAAAATA-CCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTGGTT
18524016 TGTAAAATTACAGAAA
66 TGTAAAATTACAGAAA
* *
18524032 TACCTTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACC-CTTGGT
* *
18524096 TTGTGAAATTACCGAAA
65 TTGTAAAATTACAGAAA
18524113 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
18524147 GATTTACAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
80 25 0.24
81 77 0.75
82 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTGGTT
TGTAAAATTACAGAAA
Found at i:18524161 original size:27 final size:26
Alignment explanation
Indices: 18524045--18524171 Score: 100
Period size: 27 Copynumber: 4.7 Consensus size: 26
18524035 CTTCAATTTG
*
18524045 TAAAATTACCAAAATACCCCTAGTTT
1 TAAAATTACCAAAATACCCCTAGATT
* * *
18524071 GTAAAATTACCAAAATACCACTGGTTT
1 -TAAAATTACCAAAATACCCCTAGATT
* *
18524098 GTGAAATTACCGAAATA-CCCTCA-ATTT
1 -TAAAATTACCAAAATACCCCT-AGA-TT
18524125 GTAAAATTACCAAAATACCCCT-GATT
1 -TAAAATTACCAAAATACCCCTAGATT
18524151 TACAAAGTTA-CAGAAATACCC
1 TA-AAA-TTACCA-AAATACCC
18524172 TTGACTTTCT
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
25 2 0.02
26 10 0.12
27 68 0.81
28 4 0.05
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.28
Consensus pattern (26 bp):
TAAAATTACCAAAATACCCCTAGATT
Found at i:18524167 original size:54 final size:54
Alignment explanation
Indices: 18524014--18524172 Score: 150
Period size: 54 Copynumber: 2.9 Consensus size: 54
18524004 ATACCCTTGG
* * *
18524014 TTTGTAAAATTA-CAGAAATACC-TTCAATTTGTA-AAATTACCA-AAATACCC-CTAG
1 TTTGTAAAATTACCA-AAATACCACT-GATTTG-ACAAATTA-CAGAAATACCCTC-AA
* ** *
18524068 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTGATTTGACAAATTACAGAAATACCCTCAA
*
18524122 TTTGTAAAATTACCAAAATACCCCTGATTT-ACAAAGTTACAGAAATACCCT
1 TTTGTAAAATTACCAAAATACCACTGATTTGACAAA-TTACAGAAATACCCT
18524173 TGACTTTCTA
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
53 4 0.05
54 80 0.91
55 4 0.05
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTGATTTGACAAATTACAGAAATACCCTCAA
Found at i:18524168 original size:81 final size:81
Alignment explanation
Indices: 18523952--18524199 Score: 283
Period size: 81 Copynumber: 3.0 Consensus size: 81
18523942 ATTACTGTTT
** * * *
18523952 TACCCTCAATTTACAAAATTACTAAAATA-CCCTAG-TCTGTAAAATTGCTAAAATACCCTTGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGAT-TGTAAAATTACCAAAATACCCTTGGT
18524015 TTGTAAAATTACAGAAA
65 TTGTAAAATTACAGAAA
* *
18524032 TACCTTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAATACC-CTTGGT
* *
18524096 TTGTGAAATTACCGAAA
65 TTGTAAAATTACAGAAA
18524113 TACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CAGAAATACCCTTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTACCA-AAATACCCTTG
* * *
18524175 ACTTTCTAAAAATTATAGAAA
63 -GTTTGT-AAAATTACAGAAA
18524196 TACC
1 TACC
18524200 TTTGGTTTAC
Statistics
Matches: 144, Mismatches: 15, Indels: 15
0.83 0.09 0.09
Matches are distributed among these distances:
79 2 0.01
80 34 0.24
81 88 0.61
82 6 0.04
83 14 0.10
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAATACCCTTGGTT
TGTAAAATTACAGAAA
Found at i:18524318 original size:27 final size:27
Alignment explanation
Indices: 18524288--18524375 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
18524278 ACCCCTATTA
18524288 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
*
18524315 GGTAAAGTA-ACCGTAAAGCCCCTGTAG
1 GGTAAA-AAGACCGTAAAGCCCCTGTAG
** * *
18524342 GGTAAAGTGATCGTAAAGCCCCTGTAT
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
18524369 GGTAAAA
1 GGTAAAA
18524376 TCACGAATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAGCCCCTGTAG
Found at i:18525583 original size:25 final size:25
Alignment explanation
Indices: 18525536--18525583 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
18525526 CCTTAACATG
* * * *
18525536 AAAATGACCGTTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
18525561 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
18525584 GTTTGTGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:18525667 original size:11 final size:11
Alignment explanation
Indices: 18525631--18525686 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
18525621 CATGGTATGT
18525631 ATGATATGCAC
1 ATGATATGCAC
* *
18525642 ATGACATG--T
1 ATGATATGCAC
18525651 ATGATATGCAC
1 ATGATATGCAC
*
18525662 ATGATATG--T
1 ATGATATGCAC
18525671 ATGATATGCAC
1 ATGATATGCAC
18525682 ATGAT
1 ATGAT
18525687 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:18525686 original size:20 final size:20
Alignment explanation
Indices: 18525620--18525686 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
18525610 ATTTTGATAA
*
18525620 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
18525640 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
18525660 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
18525680 ACATGAT
1 ACATGAT
18525687 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:18525792 original size:24 final size:23
Alignment explanation
Indices: 18525736--18525901 Score: 235
Period size: 23 Copynumber: 7.0 Consensus size: 23
18525726 GAGGAAGTGA
18525736 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
18525759 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
18525782 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
18525806 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
18525830 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
18525853 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
18525877 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
18525901 A
1 A
18525902 TGATAAAGCA
Statistics
Matches: 130, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
23 63 0.48
24 57 0.44
25 10 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:18525852 original size:71 final size:70
Alignment explanation
Indices: 18525736--18525900 Score: 260
Period size: 71 Copynumber: 2.3 Consensus size: 70
18525726 GAGGAAGTGA
*
18525736 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCA
18525801 GTTATC
65 GTTATC
*
18525807 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTTTGCCCCAG
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAG
*
18525872 TTATT
66 TTATC
*
18525877 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
18525901 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
70 32 0.36
71 56 0.64
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (70 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAG
TTATC
Found at i:18526129 original size:31 final size:31
Alignment explanation
Indices: 18526094--18526157 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
18526084 CGTTTACAGT
18526094 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
18526125 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
18526156 AA
1 AA
18526158 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:18531524 original size:14 final size:15
Alignment explanation
Indices: 18531496--18531529 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
18531486 CAACTTAAGA
18531496 CATTTAAATATTTAT
1 CATTTAAATATTTAT
*
18531511 TATTTAAA-ATTTAT
1 CATTTAAATATTTAT
18531525 CATTT
1 CATTT
18531530 CAACTAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (15 bp):
CATTTAAATATTTAT
Found at i:18531812 original size:28 final size:29
Alignment explanation
Indices: 18531770--18531825 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
18531760 AATAATTGGA
*
18531770 TGATCATTTTGTAA-TTTTTATGATTAAG
1 TGATCATTTTATAATTTTTTATGATTAAG
* *
18531798 TGATTATTTTATAATTTTTTATTATTAA
1 TGATCATTTTATAATTTTTTATGATTAA
18531826 ATGGATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (29 bp):
TGATCATTTTATAATTTTTTATGATTAAG
Found at i:18535137 original size:17 final size:16
Alignment explanation
Indices: 18535115--18535148 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
18535105 ATTTACCTAT
18535115 TTATATTTCTATCATTA
1 TTATATTTCTAT-ATTA
18535132 TTATATTTCTATATTA
1 TTATATTTCTATATTA
18535148 T
1 T
18535149 ATCTCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATATTTCTATATTA
Found at i:18535148 original size:13 final size:13
Alignment explanation
Indices: 18535130--18535164 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
18535120 TTTCTATCAT
18535130 TATTATATTTCTA
1 TATTATATTTCTA
*
18535143 TATTATATCTCTA
1 TATTATATTTCTA
18535156 T-TTATATTT
1 TATTATATTT
18535165 ATGTATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTATATTTCTA
Found at i:18535261 original size:11 final size:12
Alignment explanation
Indices: 18535238--18535263 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18535228 ATTATGTTAG
18535238 TTTTTAAATTTT
1 TTTTTAAATTTT
18535250 TTTTTAAATTTT
1 TTTTTAAATTTT
18535262 TT
1 TT
18535264 GTTCTTGGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTAAATTTT
Found at i:18543625 original size:76 final size:74
Alignment explanation
Indices: 18543367--18543627 Score: 243
Period size: 76 Copynumber: 3.5 Consensus size: 74
18543357 ACGATCATAG
* ** ** * * ** *
18543367 CTGATAATTTTTACGGTCCGCTGATTTAAGATCACGATCCTCAGTTTTCTAACAGTTTACAGACC
1 CTGATATTTTTTACGGTCCGCTGATTTAAGATTGCGA--CTCAACTTTCAAACAGCTCGCTGACC
18543432 TACGTTCACAA
64 TACGTTCACAA
* * * * *
18543443 TTGATATTTTTTACGGTCTGCTGATTTAAGATTGCGACTCAATTTTCAAATAGCTCGTTGACCTA
1 CTGATATTTTTTACGGTCCGCTGATTTAAGATTGCGACTCAACTTTCAAACAGCTCGCTGACCTA
18543508 CGTTCACAA
66 CGTTCACAA
* * * * * *
18543517 CTGAAATTTTTTATGGTCCACTGATTTAAGATTGCGGCTCTCGACTTTCTAACAGCTCGCTGACC
1 CTGATATTTTTTACGGTCCGCTGATTTAAGATTGC-G-ACTCAACTTTCAAACAGCTCGCTGACC
* * *
18543582 TATGTTCATAG
64 TACGTTCACAA
* * *
18543593 CTGATATATTTTACGATCCGTTGATTTAAGATTGC
1 CTGATATTTTTTACGGTCCGCTGATTTAAGATTGC
18543628 TGTCCACTGA
Statistics
Matches: 150, Mismatches: 33, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
74 59 0.39
75 1 0.01
76 90 0.60
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (74 bp):
CTGATATTTTTTACGGTCCGCTGATTTAAGATTGCGACTCAACTTTCAAACAGCTCGCTGACCTA
CGTTCACAA
Found at i:18544385 original size:21 final size:21
Alignment explanation
Indices: 18544338--18544385 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
18544328 TTGAAGATTT
* *
18544338 TCTTGTACCTTATATTGTTATA
1 TCTT-TACCTTATATTATGATA
* *
18544360 ACTTTACTTTATATTATGATA
1 TCTTTACCTTATATTATGATA
18544381 TCTTT
1 TCTTT
18544386 TTAATTATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.56
Consensus pattern (21 bp):
TCTTTACCTTATATTATGATA
Found at i:18549720 original size:22 final size:21
Alignment explanation
Indices: 18549695--18549735 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
18549685 ACCATTATCA
18549695 AAATTTACAAATCATTTAACTG
1 AAATTT-CAAATCATTTAACTG
**
18549717 AAATTTCACTTCATTTAAC
1 AAATTTCAAATCATTTAAC
18549736 AATCATACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (21 bp):
AAATTTCAAATCATTTAACTG
Found at i:18553355 original size:17 final size:18
Alignment explanation
Indices: 18553335--18553382 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 18
18553325 AATACAACCC
*
18553335 AAAATAAAAAAAT-AAAA
1 AAAAAAAAAAAATGAAAA
18553352 AAAAAAAAAAAATGAAGAA
1 AAAAAAAAAAAATGAA-AA
18553371 AAAGAAAAAAAA
1 AAA-AAAAAAAA
18553383 CCTAACTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 12 0.44
18 2 0.07
19 5 0.19
20 8 0.30
ACGTcount: A:0.88, C:0.00, G:0.06, T:0.06
Consensus pattern (18 bp):
AAAAAAAAAAAATGAAAA
Found at i:18554571 original size:19 final size:19
Alignment explanation
Indices: 18554547--18554584 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18554537 TTGAGATTGC
*
18554547 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
18554566 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
18554585 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Done.