Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 22 of 135
Found at i:8876099 original size:3 final size:3
Alignment explanation
Indices: 8876091--8876116 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8876081 CGAGGATCCC
8876091 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
8876117 TCCCACAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:8879677 original size:5 final size:5
Alignment explanation
Indices: 8879667--8879691 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
8879657 GCATTGGAAC
8879667 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
8879692 CTTTGTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:8884708 original size:44 final size:42
Alignment explanation
Indices: 8884660--8885117 Score: 225
Period size: 44 Copynumber: 10.7 Consensus size: 42
8884650 ATTTTAATCC
*
8884660 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-GT-GCTTCAGTCT
* * *
8884704 GCTCCACTGCAACTTCA-GGAGATAAGACTG-GATGC-GATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGTGCTTCAG-TCT
* * * * * * *
8884744 GCTCTACTGCCACTTCAGAGAGATAAGATATGTAGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TGT-GCTTCAGTCT
* * * *
8884788 GCTCCACTGAAACTTCAGGGAGATAGGATTGATTTCTTTC-GTAT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTG--TGC-TTCAGTCT
* * * *
8884832 GCTCCACTACAACTTCAGGGAGATAAGACTG-GATGTGA-TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGTGCT-TCAGTCT
* ** * * * * *
8884873 GCTCTACTAAAACTTCAGAGAGATAAGATCTGTGGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TGT-GCTTCAGTCT
* * * *
8884917 GCTCCACTGTAACTTCAGGAAGATAGGATTGATTTCTTTC-GTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTG--TGC-TTCAGTCT
* * *
8884961 GCTCCACTGCAACTTCAGGGAGATAAGACTG-GATGTGA-TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGTGCT-TCAGTCT
* * * * * * *
8885002 GCTCTACTGTAACTTCAGAGAGATAAGATCTGTGTTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAT-TGTG-CTTCAGTCT
* * * * *
8885046 ACTCCACTGTAACTTCAGGAAGATAGGATTGATTTCTTTC-GTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTG--TGC-TTCAGTCT
* * *
8885090 GCTCCACTGTAACCTCAGGAAGATAAGA
1 GCTCCACTGCAACTTCAGGGAGATAAGA
8885118 CCTAATGCGA
Statistics
Matches: 310, Mismatches: 77, Indels: 54
0.70 0.17 0.12
Matches are distributed among these distances:
39 1 0.00
40 23 0.07
41 66 0.21
42 7 0.02
43 21 0.07
44 183 0.59
45 9 0.03
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (42 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGTGCTTCAGTCT
Found at i:8884915 original size:129 final size:129
Alignment explanation
Indices: 8884651--8885199 Score: 767
Period size: 129 Copynumber: 4.3 Consensus size: 129
8884641 TGATTTATCA
* **
8884651 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT-AGTAGC-TTCAGTCTGCTCCACTGC
1 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGA-TTTCTTTC-GTCTGCTCCACTGC
** *
8884714 AACTTCA-GGAGATAAGACTGGATGCGATCTGCTCTACTGCCACTTCAGAGAGATAAGATATGTA
64 AACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTA
8884778 G
129 G
* * *
8884779 TTTTAATCCGCTCCACTGAAACTTCAGGGAGATAGGATTGATTTCTTTCGTATGCTCCACTACAA
1 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTGCAA
* ** *
8884844 CTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTAAAACTTCAGAGAGATAAGATCTGTGG
66 CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTAG
*
8884908 TTTTAATCCGCTCCACTGTAACTTCAGGAAGATAGGATTGATTTCTTTCGTCTGCTCCACTGCAA
1 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTGCAA
*
8884973 CTTCAGGGAGATAAGACTGGATGTGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGT-G
66 CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTAG
* * *
8885036 TTTTTAATCCACTCCACTGTAACTTCAGGAAGATAGGATTGATTTCTTTCGTCTGCTCCACTGTA
1 -TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTGCA
* * * *
8885101 ACCTCAGGAAGATAAGACCT-AATGCGATCTACTCTACTGTAACTTC--AGAG---AGATCTGTA
65 ACTTCAGGGAGATAAGA-CTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTA
*
8885160 A
129 G
* *
8885161 TTTTAATCCACTCCACTGTAACTTCAGGGAGACAGGATT
1 TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATT
8885200 ATCGGCTTCA
Statistics
Matches: 388, Mismatches: 27, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
124 45 0.12
127 4 0.01
128 60 0.15
129 277 0.71
130 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (129 bp):
TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTGCTCCACTGCAA
CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTAG
Found at i:8885052 original size:85 final size:84
Alignment explanation
Indices: 8884660--8885070 Score: 278
Period size: 85 Copynumber: 4.8 Consensus size: 84
8884650 ATTTTAATCC
* * * * * * *
8884660 GCTCCACTGCAACTTCAGGGAGATAGGAT-TAGTAGCTTCAGTCTGCTCCACTGCAACTTCA-GG
1 GCTCCACTGCAACTTCAGAGAGATAAGATCT-GT-GTTTTAATCCGCTCCACTGAAACTTCAGGG
*
8884723 AGATAAGACTGGATGCGATCT
64 AGATAAGACTGGATGTGATCT
* * *
8884744 GCTCTACTGCCACTTCAGAGAGATAAGATATGTAGTTTTAATCCGCTCCACTGAAACTTCAGGGA
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGT-GTTTTAATCCGCTCCACTGAAACTTCAGGGA
* * * **
8884809 GATAGGA-TTGATTTCTTTCGTAT
65 GATAAGACTGGATGT-GATC---T
* * * * * * * * *
8884832 GCTCCACTACAACTTCAGGGAGATAAGA-CTG-GATGTGATCTGCTCTACTAAAACTTCAGAGAG
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGTGTTTTAATCCGCTCCACTGAAACTTCAGGGAG
* * * *
8884895 ATAAGATCTGTGGTTTTAATCC
66 ATAAGA-C--TGGATGTGATCT
* * * ** * *
8884917 GCTCCACTGTAACTTCAG-GAAGATAGGAT-TGATTTCTTTCGTCTGCTCCACTGCAACTTCAGG
1 GCTCCACTGCAACTTCAGAG-AGATAAGATCTG-TGT-TTTAATCCGCTCCACTGAAACTTCAGG
8884980 GAGATAAGACTGGATGTGATCT
63 GAGATAAGACTGGATGTGATCT
* * * * *
8885002 GCTCTACTGTAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCACTCCACTGTAACTTCAGGAA
1 GCTCCACTGCAACTTCAGAGAGATAAGATCTGTG-TTTTAATCCGCTCCACTGAAACTTCAGGGA
8885067 GATA
65 GATA
8885071 GGATTGATTT
Statistics
Matches: 251, Mismatches: 58, Indels: 35
0.73 0.17 0.10
Matches are distributed among these distances:
84 55 0.22
85 128 0.51
86 4 0.02
87 3 0.01
88 56 0.22
89 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (84 bp):
GCTCCACTGCAACTTCAGAGAGATAAGATCTGTGTTTTAATCCGCTCCACTGAAACTTCAGGGAG
ATAAGACTGGATGTGATCT
Found at i:8885243 original size:222 final size:224
Alignment explanation
Indices: 8884992--8885425 Score: 693
Period size: 222 Copynumber: 1.9 Consensus size: 224
8884982 GATAAGACTG
*
8884992 GATGTGATCTGCTCTACTGTAACTTCAGAGAGATAAGAT-CTGTGT-TTTTAATCCACTCCACTG
1 GATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-T-TATTTTAATCCACTCCACTG
*
8885055 TAACTTCAG-GAAGATAGGATTGA-TTTCTTTCGTCTGCTCCACTGTAACCTC-AGGAAGATAAG
64 TAACTTCAGAG-AGATAGGATT-ACTTTCTTTCGTCTACTCCACTGTAACCTCAAGG-AGATAAG
8885117 ACCTAATGCGATCTACTCTACTGTAACTTC-AGAG-AGATCTGTAATTTTAATCCACTCCACTGT
126 ACCTAATGCGATCTACTCTACTGTAACTTCAAGAGAAGATCTGTAATTTTAATCCACTCCACTGT
8885180 AACTTCAGGGAGACAGGATTATCGGCTTCAACCT
191 AACTTCAGGGAGACAGGATTATCGGCTTCAACCT
8885214 GATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTA
1 GATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTA
* *
8885279 ACTTCAGAGAGATAGGATTACTTTCTTTCTTCTACTCCACTGTAACCTCAAGGAGATAAGACCTG
66 ACTTCAGAGAGATAGGATTACTTTCTTTCGTCTACTCCACTGTAACCTCAAGGAGATAAGACCTA
*
8885344 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAA
131 ATGCGATCTACTCTACTGTAACTTCA-AGAG--AAGATCTGTAATTTTAATCCACTCCACTGTAA
*
8885409 CTTCAGGGAGATAGGAT
193 CTTCAGGGAGACAGGAT
8885426 AGTGTCTTTG
Statistics
Matches: 196, Mismatches: 6, Indels: 15
0.90 0.03 0.07
Matches are distributed among these distances:
221 2 0.01
222 138 0.70
223 6 0.03
224 4 0.02
227 46 0.23
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (224 bp):
GATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTA
ACTTCAGAGAGATAGGATTACTTTCTTTCGTCTACTCCACTGTAACCTCAAGGAGATAAGACCTA
ATGCGATCTACTCTACTGTAACTTCAAGAGAAGATCTGTAATTTTAATCCACTCCACTGTAACTT
CAGGGAGACAGGATTATCGGCTTCAACCT
Found at i:8885292 original size:44 final size:44
Alignment explanation
Indices: 8885220--8885776 Score: 319
Period size: 44 Copynumber: 12.8 Consensus size: 44
8885210 ACCTGATGTG
* * *
8885220 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTGATTTTA
* * * * *
8885264 ATCCACTCCACTGTAACTTCAGAGAGATAGGATTACTT--TCTTTC
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGA-TCCTTGAT-TTTA
* * * ***
8885308 TTCTACTCCACTGTAACCTCAAGGAGATAAGA-CC-TGA-TGCG
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTGATTTTA
* *
8885349 ATCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTGTGATTTTA
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCT-TGATTTTA
* * ** *
8885393 ATCCACTCCACTGTAACTTCAGGGAGATAGGAT-AGTG-TCTTTG
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTGAT-TTTA
* * ** *
8885436 ATCTACCCCGCTGTAA-TCTCAGGGAGATAAGATCC-TGGCTTCA
1 ATCTACTCCACTGTAACT-TCAGGGAGATAAGATCCTTGATTTTA
* * * *
8885479 ATCTGCTCCACTGTAACCTCAGGGAGACAAGAT-C-TGAAATTCTTCG
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTG--ATT-TT-A
* *
8885525 GTCTACTCCACTGTAACCTCAGGGAGATAAGAT--TTGAAATTCTTCA
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTG--ATT-TT-A
* * ***
8885571 GTCTACTCCACTGTAACCTCAGGGAGATAAGA-CC-TGA-TGCG
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTGATTTTA
* * * *
8885612 ATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTGATTTTA
** * * ** *
8885656 ATCCGCTCCACCGTAACTTCAGGGAGATAGGAT-AGTG-TCTTCA
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTGAT-TTTA
* * ** *
8885699 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGAT-CTCTGGCTTCA
1 ATCTACTCCACTGTAACT-TCAGGGAGATAAGATCCT-TGATTTTA
* * *
8885743 ATTTACTCCACTGTGACCTCAGGGAGATAAGATC
1 ATCTACTCCACTGTAACTTCAGGGAGATAAGATC
8885777 TGAAATATTC
Statistics
Matches: 398, Mismatches: 86, Indels: 57
0.74 0.16 0.11
Matches are distributed among these distances:
41 57 0.14
42 10 0.03
43 101 0.25
44 150 0.38
45 5 0.01
46 75 0.19
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
ATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTGATTTTA
Found at i:8885296 original size:98 final size:93
Alignment explanation
Indices: 8885117--8885298 Score: 258
Period size: 98 Copynumber: 1.9 Consensus size: 93
8885107 GGAAGATAAG
8885117 ACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATCTGTAATTTTAATCCACTCCACTGTAA
1 ACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATCTGTAATTTTAATCCACTCCACTGTAA
*
8885182 CTTCAGGGAGACAGGATTATCGGCTTCA
66 CTTCAGAGAGACAGGATTATCGGCTTCA
* * *
8885210 ACCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTAATCCACTCCA
1 ACCTAATGCGATCTACTCTACTGTAACTTC--AGAG---AGAT-CTGTAATTTTAATCCACTCCA
*
8885274 CTGTAACTTCAGAGAGATAGGATTA
60 CTGTAACTTCAGAGAGACAGGATTA
8885299 CTTTCTTTCT
Statistics
Matches: 78, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
93 28 0.36
95 4 0.05
98 44 0.56
99 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (93 bp):
ACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATCTGTAATTTTAATCCACTCCACTGTAA
CTTCAGAGAGACAGGATTATCGGCTTCA
Found at i:8885465 original size:87 final size:86
Alignment explanation
Indices: 8885309--8885775 Score: 365
Period size: 87 Copynumber: 5.4 Consensus size: 86
8885299 CTTTCTTTCT
* * * * * *
8885309 TCTACTCCACTGTAACCTCAAGGAGATAAGA-CCTG-ATGCGATCTACTCTACTGTAACTTCAGA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATACTGTCTTCGATCTACTCCACTGTAAC-TCAGG
8885372 GAGATAAGATCTGTGATTTTAA
65 GAGATAAGATCTGTGATTTTAA
* * * * * * *
8885394 TCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTTGATCTACCCCGCTGTAATCTCAGG
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATACTGTCTTCGATCTACTCCACTGTAA-CTCAGG
* *
8885459 GAGATAAGATCCTG-G-CTTCAA
65 GAGATAAGAT-CTGTGATTTTAA
* * *
8885480 TCTGCTCCACTGTAACCTCAGGGAGACAAGAT-CTGAAATTCTTCGGTCTACTCCACTGTAACCT
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATACTG----TCTTCGATCTACTCCACTGTAA-CT
* ** *
8885544 CAGGGAGATAAGATTTGAAATTCTTCAG
61 CAGGGAGATAAGATCTGTGATT-TT-AA
* * * * * *
8885572 TCTACTCCACTGTAACCTCAGGGAGATAAGA-CCTG-ATGCGATCTACTCTATTGTAACTTCAGA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATACTGTCTTCGATCTACTCCACTGTAAC-TCAGG
*
8885635 GAGATAAGATCCT-TTATTTTAA
65 GAGATAAGAT-CTGTGATTTTAA
** * * * * * * *
8885657 TCCGCTCCACCGTAACTTCAGGGAGATAGGATAGTGTCTTCAATCTGCTCCGCTGTAATCTCAGG
1 TCTACTCCACTGTAACCTCAGGGAGATAAGATACTGTCTTCGATCTACTCCACTGTAA-CTCAGG
* ** *
8885722 GAGATAAGATCTCTGGCTTCAA
65 GAGATAAGATCTGTGATTTTAA
* *
8885744 TTTACTCCACTGTGACCTCAGGGAGATAAGAT
1 TCTACTCCACTGTAACCTCAGGGAGATAAGAT
8885776 CTGAAATATT
Statistics
Matches: 294, Mismatches: 69, Indels: 36
0.74 0.17 0.09
Matches are distributed among these distances:
85 56 0.19
86 40 0.14
87 121 0.41
88 8 0.03
89 34 0.12
90 1 0.00
91 1 0.00
92 33 0.11
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (86 bp):
TCTACTCCACTGTAACCTCAGGGAGATAAGATACTGTCTTCGATCTACTCCACTGTAACTCAGGG
AGATAAGATCTGTGATTTTAA
Found at i:8885578 original size:351 final size:347
Alignment explanation
Indices: 8884868--8885602 Score: 835
Period size: 351 Copynumber: 2.1 Consensus size: 347
8884858 GACTGGATGT
* ** * *
8884868 GATCTGCTCTACTAAAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGTAACTTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAACTTC
* * * *
8884933 AGGAAGATAGGATTGATTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTG
66 AGGAAGATAGGATTGATTTCTTTCGTCTACTCCACTGCAACCTCAAGGAGATAAGACTGGATGCG
* *
8884998 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTGTTTTTAATCCACTCCACTGTAACTTCA
131 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAACTTCA
* * * * *
8885063 GGAAGATAGGATTGATTTCTTTCGTCTGCTCCACTGTAACCTCAGGAAGATAAGACCTAATGCGA
196 GGAAGATAGGATAGATGTCTTTCGTCTACCCCACTGTAACCTCAGGAAGATAAGACCTAATGCAA
* * * *
8885128 TCTACTCTACTGTAACTTCAGAGAGATCTGTAATTTTAATCCACTCCACTGTAACTTCAGGGAGA
261 TCTACTCCACTGTAACCTCAGAGAGATCTGAAATTTTAATCCACTCCACTGTAACCTCAGGGAGA
* * **
8885193 CAGGATTATCGGCTTCAACCTGATGT
326 CAAGATTATC-G--TAAACCT-ATCA
*
8885219 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTTAATCCACTCCACTGTAACTT
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGAT-CTGTGATTTTAATCCACTCCACTGTAACTT
* *
8885283 CA-GAGAGATAGGATT-ACTTTCTTTCTTCTACTCCACTGTAACCTCAAGGAGATAAGACCT-GA
65 CAGGA-AGATAGGATTGA-TTTCTTTCGTCTACTCCACTGCAACCTCAAGGAGATAAGA-CTGGA
8885345 TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAAC
127 TGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAAC
* * * *
8885410 TTCAGGGAGATAGGATAG-TGTCTTT-GATCTACCCCGCTGTAATCTCAGGGAGATAAGATCCTG
192 TTCAGGAAGATAGGATAGATGTCTTTCG-TCTACCCCACTGTAACCTCAGGAAGATAAGA-CCT-
** * * ** *
8885473 GCTTCAATCTGCTCCACTGTAACCTCAGGGAGACAAGATCTGAAATTCTTCGGTCTACTCCACTG
254 AATGCAATCTACTCCACTGTAACCTCA--GAG---AGATCTGAAATT-TT-AATCCACTCCACTG
* *
8885538 TAACCTCAGGGAGATAAGATT-T-G-AAATTCT-TCA
312 TAACCTCAGGGAGACAAGATTATCGTAAA-CCTATCA
* * *
8885571 G-TCTACTCCACTGTAACCTCAGGGAGATAAGA
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGA
8885603 CCTGATGCGA
Statistics
Matches: 326, Mismatches: 43, Indels: 30
0.82 0.11 0.08
Matches are distributed among these distances:
349 1 0.00
350 35 0.11
351 213 0.65
352 26 0.08
353 2 0.01
354 5 0.02
356 1 0.00
357 11 0.03
358 3 0.01
359 29 0.09
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (347 bp):
GATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAACTTC
AGGAAGATAGGATTGATTTCTTTCGTCTACTCCACTGCAACCTCAAGGAGATAAGACTGGATGCG
ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAACTTCA
GGAAGATAGGATAGATGTCTTTCGTCTACCCCACTGTAACCTCAGGAAGATAAGACCTAATGCAA
TCTACTCCACTGTAACCTCAGAGAGATCTGAAATTTTAATCCACTCCACTGTAACCTCAGGGAGA
CAAGATTATCGTAAACCTATCA
Found at i:8887023 original size:13 final size:14
Alignment explanation
Indices: 8887005--8887033 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
8886995 AGCCTCTCCT
8887005 TTTTTCATTT-TCA
1 TTTTTCATTTCTCA
8887018 TTTTTCATTTCTCA
1 TTTTTCATTTCTCA
8887032 TT
1 TT
8887034 CTCTTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTCATTTCTCA
Found at i:8887977 original size:16 final size:16
Alignment explanation
Indices: 8887956--8887988 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8887946 TTTTCTTCTA
8887956 TTTTTTACTTTGATTT
1 TTTTTTACTTTGATTT
*
8887972 TTTTTTATTTTGATTT
1 TTTTTTACTTTGATTT
8887988 T
1 T
8887989 CCTCTTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.79
Consensus pattern (16 bp):
TTTTTTACTTTGATTT
Found at i:8887988 original size:28 final size:28
Alignment explanation
Indices: 8887958--8888010 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
8887948 TTCTTCTATT
*
8887958 TTTTACT-TTGATTTTTTTTTATTTTGA
1 TTTTACTCTTGATTTTGTTTTATTTTGA
* *
8887985 TTTTCCTCTTGATTTTGTTTTGTTTT
1 TTTTACTCTTGATTTTGTTTTATTTT
8888011 TTTTGTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.09, C:0.08, G:0.09, T:0.74
Consensus pattern (28 bp):
TTTTACTCTTGATTTTGTTTTATTTTGA
Found at i:8888016 original size:14 final size:14
Alignment explanation
Indices: 8887997--8888029 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8887987 TTCCTCTTGA
8887997 TTTTGTT-TTGTTTT
1 TTTTGTTGTT-TTTT
8888011 TTTTGTTGTTTTTT
1 TTTTGTTGTTTTTT
8888025 TTTTG
1 TTTTG
8888030 AATTGGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (14 bp):
TTTTGTTGTTTTTT
Found at i:8892309 original size:2 final size:2
Alignment explanation
Indices: 8892262--8892298 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8892252 AAAATGTACG
8892262 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8892299 TAGAAATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8892418 original size:25 final size:25
Alignment explanation
Indices: 8892362--8892428 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
8892352 TTACGACTTT
* *
8892362 AAAATGTACGTATATATATATTAGC
1 AAAATATATGTATATATATATTAGC
*
8892387 AAAATATGTGTATATATAT-TGTAG-
1 AAAATATATGTATATATATAT-TAGC
*
8892411 AAACATATATATATATAT
1 AAA-ATATATGTATATAT
8892429 TTAATGTACA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 4 0.11
25 31 0.89
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.39
Consensus pattern (25 bp):
AAAATATATGTATATATATATTAGC
Found at i:8892420 original size:111 final size:111
Alignment explanation
Indices: 8892218--8892418 Score: 284
Period size: 111 Copynumber: 1.8 Consensus size: 111
8892208 TGTATGTACA
* *
8892218 AAAAATGAAATATAAAAATATATTTACAACTTCAAAAATGTACGTATATATATATATATATATAT
1 AAAAATGAAATATAAAAATATATTTACAACTTCAAAAATGTACGTATATATATATATACATAAAT
8892283 ATATATATATATATATTAGAAATATATGTTGTATGCATGCACACAC
66 ATATATATATATATATTAGAAATATATGTTGTATGCATGCACACAC
* * *
8892329 AAAAATGAAATATAAAAATGTATTTACGACTT-TAAAATGTACGTATATATATAT-TAGCA-AAA
1 AAAAATGAAATATAAAAATATATTTACAACTTCAAAAATGTACGTATATATATATATA-CATAAA
* * *
8892391 TATGTGTATATATAT-TGTAGAAACATAT
65 TATATATATATATATAT-TAGAAATATAT
8892419 ATATATATAT
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
108 1 0.01
109 27 0.34
110 22 0.28
111 30 0.38
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (111 bp):
AAAAATGAAATATAAAAATATATTTACAACTTCAAAAATGTACGTATATATATATATACATAAAT
ATATATATATATATATTAGAAATATATGTTGTATGCATGCACACAC
Found at i:8892488 original size:3 final size:3
Alignment explanation
Indices: 8892473--8892513 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
8892463 GTTATGAGTA
*
8892473 AAT AAT AAC AAT AAT AATT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT A
8892514 GCATTAGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8897829 original size:20 final size:20
Alignment explanation
Indices: 8897795--8897832 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8897785 TGAAATTGTA
**
8897795 GCAAAACAATGACAAAAAGT
1 GCAAAACAACAACAAAAAGT
8897815 GCAAAACAACAACAAAAA
1 GCAAAACAACAACAAAAA
8897833 TAGCAGTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.18, G:0.11, T:0.05
Consensus pattern (20 bp):
GCAAAACAACAACAAAAAGT
Found at i:8898312 original size:73 final size:73
Alignment explanation
Indices: 8898225--8898371 Score: 267
Period size: 73 Copynumber: 2.0 Consensus size: 73
8898215 ATAGATTTCA
*
8898225 TTTATAGTCTAGGTAGGGGGTGAGTATTATTTTAAACCTATCGGCACAGCAAATTAAAAGAATGA
1 TTTATAGGCTAGGTAGGGGGTGAGTATTATTTTAAACCTATCGGCACAGCAAATTAAAAGAATGA
8898290 TATAGTGG
66 TATAGTGG
* *
8898298 TTTATAGGCTAGGTAGGGGGTGAGTATTATTTTAAACCTATTGGCACAGCAAATTAAACGAATGA
1 TTTATAGGCTAGGTAGGGGGTGAGTATTATTTTAAACCTATCGGCACAGCAAATTAAAAGAATGA
8898363 TATAGTGG
66 TATAGTGG
8898371 T
1 T
8898372 AGCTGCTTCA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (73 bp):
TTTATAGGCTAGGTAGGGGGTGAGTATTATTTTAAACCTATCGGCACAGCAAATTAAAAGAATGA
TATAGTGG
Found at i:8902614 original size:21 final size:22
Alignment explanation
Indices: 8902578--8902619 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
8902568 ATTTAACATC
8902578 TTGGGTTTAAAAGTTTAGGGTA
1 TTGGGTTTAAAAGTTTAGGGTA
* *
8902600 TTGGG-TTAAAGGTTTGGGGT
1 TTGGGTTTAAAAGTTTAGGGT
8902620 CTAAGATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.40
Consensus pattern (22 bp):
TTGGGTTTAAAAGTTTAGGGTA
Found at i:8902875 original size:21 final size:21
Alignment explanation
Indices: 8902846--8902888 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8902836 CTATTTTAAC
*
8902846 ATTAGTATTTATTTATAATTA
1 ATTAGTATTTAATTATAATTA
* *
8902867 ATTATTATTTAATTATATTTA
1 ATTAGTATTTAATTATAATTA
8902888 A
1 A
8902889 ATAAAGTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTAGTATTTAATTATAATTA
Found at i:8902880 original size:11 final size:10
Alignment explanation
Indices: 8902846--8902888 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
8902836 CTATTTTAAC
8902846 ATTAGTATTTA
1 ATTA-TATTTA
* *
8902857 TTTATAATTA
1 ATTATATTTA
8902867 ATTATTATTTA
1 ATTA-TATTTA
8902878 ATTATATTTA
1 ATTATATTTA
8902888 A
1 A
8902889 ATAAAGTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 15 0.56
11 12 0.44
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
ATTATATTTA
Found at i:8903053 original size:222 final size:223
Alignment explanation
Indices: 8902652--8903068 Score: 595
Period size: 222 Copynumber: 1.9 Consensus size: 223
8902642 TTATTTCTAA
* ** * *
8902652 TTAATCATGTTTAAATAAAGTTGTTAGTATTTATTTATAAGTCTCCCAATGTTTTTTGTTTTATT
1 TTAATCATATTTAAATAAAGTAATTAGTATTTATTTATAAATCTCCCAATATTTTTTGTTTTATT
* * * * * *
8902717 TAATGATAAAATGTCATGCTATTATTCATCGATTATGTGTGAGACTTATACACTAACAGTGCATC
66 TAATGATAAAATGCCATGCTATTATTCATCGATGATGCGTGAGACTTATACACCAACAATGAATC
* *
8902782 AAATATTTTCTCATATTTAAAACTTAAAAAATTAAATAAATGAGACATTTGTCACTATTTTAACA
131 AAATATTTTCTCAAATTTAAAACTTAAAAAATTAAATAAATGAGACATTTATCACTATTTTAACA
8902847 TTAGTATTTATTTATAATTAATTATTAT
196 TTAGTATTTATTTATAATTAATTATTAT
* * *
8902875 TTAATTATATTTAAATAAAGTAATTAGTATTTATTTATAAATCTCTCACTATTTTTTGTTTT-TT
1 TTAATCATATTTAAATAAAGTAATTAGTATTTATTTATAAATCTCCCAATATTTTTTGTTTTATT
* * * * *
8902939 TAACT-ATGAGATGCCATGTTATTATTTATCGATGGTGCGTGAGACTTATACACCAACAATGAAT
66 TAA-TGATAAAATGCCATGCTATTATTCATCGATGATGCGTGAGACTTATACACCAACAATGAAT
* * *
8903003 CGAATATTTTCTCAAATTTAAAAGTTAAAAAATTAAATAAATGGGACATTTATCACTATTTTAAC
130 CAAATATTTTCTCAAATTTAAAACTTAAAAAATTAAATAAATGAGACATTTATCACTATTTTAAC
8903068 A
195 A
8903069 CTTTGAAGTG
Statistics
Matches: 169, Mismatches: 24, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
222 114 0.67
223 55 0.33
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.43
Consensus pattern (223 bp):
TTAATCATATTTAAATAAAGTAATTAGTATTTATTTATAAATCTCCCAATATTTTTTGTTTTATT
TAATGATAAAATGCCATGCTATTATTCATCGATGATGCGTGAGACTTATACACCAACAATGAATC
AAATATTTTCTCAAATTTAAAACTTAAAAAATTAAATAAATGAGACATTTATCACTATTTTAACA
TTAGTATTTATTTATAATTAATTATTAT
Found at i:8903340 original size:25 final size:25
Alignment explanation
Indices: 8903312--8903360 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
8903302 AATATGTTGT
* *
8903312 TTTTGAAAAATAATTAAGAAAATAA
1 TTTTGAAAAAAAAATAAGAAAATAA
* *
8903337 TTTTTAAAAAAAAATAGGAAAATA
1 TTTTGAAAAAAAAATAAGAAAATA
8903361 GGTCATTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (25 bp):
TTTTGAAAAAAAAATAAGAAAATAA
Found at i:8904579 original size:103 final size:103
Alignment explanation
Indices: 8904444--8904659 Score: 378
Period size: 103 Copynumber: 2.1 Consensus size: 103
8904434 TTTAGTTTTA
* *
8904444 TCTCCATCTTTTGTACTATTCATTTTTTTGCCATTATAGTAAAATTATCTTTGCTCGTGGTTTTT
1 TCTCCATCTTTTGTACTATTCATTCTTTTGCCATTATAGTAAAATTATCTTTGCCCGTGGTTTTT
8904509 TATCCTCTTTGGAGGGGTTTTTCCACGTTAAATTTGTG
66 TATCCTCTTTGGAGGGGTTTTTCCACGTTAAATTTGTG
*
8904547 TCTCCATCTTTTGTACTCTTCATTCTTTTGCCATTATAGTAAAATTATCTTTGCCCGTGGTTTTT
1 TCTCCATCTTTTGTACTATTCATTCTTTTGCCATTATAGTAAAATTATCTTTGCCCGTGGTTTTT
*
8904612 TATCCTCTTTGGAGGGGTTTTTCCACGTTCAATTTGTG
66 TATCCTCTTTGGAGGGGTTTTTCCACGTTAAATTTGTG
* *
8904650 TGTTCATCTT
1 TCTCCATCTT
8904660 CTCAATTTCT
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.16, C:0.19, G:0.15, T:0.50
Consensus pattern (103 bp):
TCTCCATCTTTTGTACTATTCATTCTTTTGCCATTATAGTAAAATTATCTTTGCCCGTGGTTTTT
TATCCTCTTTGGAGGGGTTTTTCCACGTTAAATTTGTG
Found at i:8907681 original size:18 final size:18
Alignment explanation
Indices: 8907641--8907683 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
8907631 AAGGTAACGT
8907641 TGGAGATAAAGATGGAAA
1 TGGAGATAAAGATGGAAA
* * *
8907659 CGGAGATAGAGATGGAGA
1 TGGAGATAAAGATGGAAA
8907677 TGGAGAT
1 TGGAGAT
8907684 GATGATAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.40, T:0.16
Consensus pattern (18 bp):
TGGAGATAAAGATGGAAA
Found at i:8909023 original size:41 final size:41
Alignment explanation
Indices: 8908967--8909200 Score: 387
Period size: 41 Copynumber: 5.7 Consensus size: 41
8908957 TTAAATAAAT
* * *
8908967 TCACTGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGT
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGA
* * *
8909008 TCACCGGCGCTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGA
*
8909049 TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGT
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGA
8909090 TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGA
8909131 TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGA
**
8909172 TCACCGGTGCTTAGCCTGCTAGGCTTATA
1 TCACCGGCACTTAGCCTGCTAGGCTTATA
8909201 GCCTGATAAT
Statistics
Matches: 182, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 182 1.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCCGATTCAGA
Found at i:8909443 original size:64 final size:63
Alignment explanation
Indices: 8909319--8909499 Score: 244
Period size: 64 Copynumber: 2.9 Consensus size: 63
8909309 GCAAACAAAC
* *
8909319 ATTCGAACCACATATGTA-T-AATTTACA-ACATTAAAATTCAGTTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTATTAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
8909380 T
63 T
8909381 ATTCGAACCACATATGTATGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* * *
8909445 ATTTGAACCACATATGTATATAAAATTCATACATTAAATGCAACTCAAGAACTTT
1 ATTCGAACCACATATGTAT-TAAAATTCATACATTAAATTCAGCTCAAGAACTTT
8909500 AAATATATAT
Statistics
Matches: 108, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
62 18 0.17
63 5 0.05
64 76 0.70
65 9 0.08
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.33
Consensus pattern (63 bp):
ATTCGAACCACATATGTATTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:8913145 original size:18 final size:18
Alignment explanation
Indices: 8913109--8913167 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
8913099 ATCATTGGTT
* **
8913109 TCAACTTTCTCTTTGTTC
1 TCAACTTCCTCTTCATTC
*
8913127 TCAGCTTCCTCTTCATTC
1 TCAACTTCCTCTTCATTC
* *
8913145 TCAACTTCCTTTTCATTA
1 TCAACTTCCTCTTCATTC
8913163 TCAAC
1 TCAAC
8913168 CCTAGTTGCG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.17, C:0.32, G:0.03, T:0.47
Consensus pattern (18 bp):
TCAACTTCCTCTTCATTC
Found at i:8917224 original size:27 final size:28
Alignment explanation
Indices: 8917194--8917249 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
8917184 GTTATAAAGT
** *
8917194 TATTAAATTTTAATAAAA-ATATAAAAA
1 TATTAAAACTTAAAAAAATATATAAAAA
8917221 TATTAAAACTTAAAAAAATATATAAAAA
1 TATTAAAACTTAAAAAAATATATAAAAA
8917249 T
1 T
8917250 CGTAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (28 bp):
TATTAAAACTTAAAAAAATATATAAAAA
Found at i:8917247 original size:10 final size:10
Alignment explanation
Indices: 8917208--8917299 Score: 52
Period size: 10 Copynumber: 9.4 Consensus size: 10
8917198 AAATTTTAAT
8917208 AAAA-ATATA
1 AAAATATATA
8917217 AAAATAT-TA
1 AAAATATATA
* *
8917226 AAACT-TAAA
1 AAAATATATA
8917235 AAAATATATA
1 AAAATATATA
*
8917245 AAAATCGTA-A
1 AAAAT-ATATA
8917255 AAAAT-TATA
1 AAAATATATA
*
8917264 AAAA-ATTGTA
1 AAAATA-TATA
*
8917274 AAAAGTTTATA
1 AAAA-TATATA
*
8917285 AAAAAATCATA
1 AAAATAT-ATA
8917296 AAAA
1 AAAA
8917300 GGCCATTTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
8 3 0.05
9 20 0.32
10 24 0.38
11 16 0.25
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (10 bp):
AAAATATATA
Found at i:8917248 original size:20 final size:20
Alignment explanation
Indices: 8917233--8917288 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
8917223 TTAAAACTTA
8917233 AAAAAATATATAAAAATCGT
1 AAAAAATATATAAAAATCGT
*
8917253 AAAAAAT-TATAAAAAATTGT
1 AAAAAATATAT-AAAAATCGT
* *
8917273 AAAAAGTTTATAAAAA
1 AAAAAATATATAAAAA
8917289 AATCATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAAATATATAAAAATCGT
Found at i:8917255 original size:28 final size:27
Alignment explanation
Indices: 8917203--8917256 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
8917193 TTATTAAATT
* *
8917203 TTAATAAAAATATAAAAATATTAAAAC
1 TTAAAAAAAATATAAAAATAGTAAAAC
*
8917230 TTAAAAAAATATATAAAAATCGTAAAA
1 TTAAAAAAA-ATATAAAAATAGTAAAA
8917257 AATTATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (27 bp):
TTAAAAAAAATATAAAAATAGTAAAAC
Found at i:8917267 original size:11 final size:11
Alignment explanation
Indices: 8917231--8917299 Score: 54
Period size: 10 Copynumber: 6.5 Consensus size: 11
8917221 TATTAAAACT
8917231 TAAAAAAA-TA
1 TAAAAAAATTA
* **
8917241 TATAAAAATCG
1 TAAAAAAATTA
8917252 T-AAAAAATTA
1 TAAAAAAATTA
*
8917262 T-AAAAAATTG
1 TAAAAAAATTA
**
8917272 TAAAAAGTTTA
1 TAAAAAAATTA
*
8917283 TAAAAAAATCA
1 TAAAAAAATTA
8917294 TAAAAA
1 TAAAAA
8917300 GGCCATTTAA
Statistics
Matches: 44, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
10 23 0.52
11 21 0.48
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (11 bp):
TAAAAAAATTA
Found at i:8917283 original size:21 final size:20
Alignment explanation
Indices: 8917231--8917299 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 20
8917221 TATTAAAACT
*
8917231 TAAAAAAATATATAAAAATCG
1 TAAAAAATTATA-AAAAATCG
*
8917252 TAAAAAATTATAAAAAATTG
1 TAAAAAATTATAAAAAATCG
* *
8917272 TAAAAAGTTTATAAAAAAATCA
1 TAAAAA-ATTAT-AAAAAATCG
8917294 TAAAAA
1 TAAAAA
8917300 GGCCATTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 13 0.32
21 15 0.37
22 13 0.32
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (20 bp):
TAAAAAATTATAAAAAATCG
Found at i:8917536 original size:21 final size:19
Alignment explanation
Indices: 8917475--8917523 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
8917465 GGTATGATAA
*
8917475 TTTTTATAACTT-TTTACAA
1 TTTTTATAA-TTCTTTACAT
* *
8917494 CTTTTATAATTCTTTACTT
1 TTTTTATAATTCTTTACAT
8917513 TTTTTATAATT
1 TTTTTATAATT
8917524 TTCTTACGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 2 0.08
19 23 0.92
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTTATAATTCTTTACAT
Found at i:8929854 original size:2 final size:2
Alignment explanation
Indices: 8929847--8929898 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
8929837 TGGTATTATA
8929847 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
8929889 GT GT GT GT GT
1 GT GT GT GT GT
8929899 TAATGGTGCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:8931283 original size:27 final size:27
Alignment explanation
Indices: 8931212--8931295 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
8931202 CATTGTAGAT
* *
8931212 GTCCGATGGGACATTAAACACGAGATA
1 GTCCAATGGGACATTAAACACGGGATA
* *
8931239 TTCCAATGGGACAATAAACACGGGATA
1 GTCCAATGGGACATTAAACACGGGATA
* ** *
8931266 GTCCAATGTGATGTTAAATACGGGATA
1 GTCCAATGGGACATTAAACACGGGATA
8931293 GTC
1 GTC
8931296 TGACAGGACG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (27 bp):
GTCCAATGGGACATTAAACACGGGATA
Found at i:8931308 original size:27 final size:26
Alignment explanation
Indices: 8931278--8931350 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
8931268 CCAATGTGAT
8931278 GTTAAATACGGGATAGTCTGACAGGAC
1 GTTAAATA-GGGATAGTCTGACAGGAC
* * *
8931305 GTTAAACATGGGATAGTTTGATAGGAC
1 GTTAAATA-GGGATAGTCTGACAGGAC
8931332 GTTGAACATAGGGA-AGTCT
1 GTT-AA-ATAGGGATAGTCT
8931351 ATCAAGACGG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
27 30 0.79
28 6 0.16
29 2 0.05
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (26 bp):
GTTAAATAGGGATAGTCTGACAGGAC
Found at i:8934058 original size:45 final size:45
Alignment explanation
Indices: 8933981--8934071 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
8933971 AGATACTCGT
* *
8933981 TGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
* *
8934026 TGGAATCAGCACATAGCAACCACTTTACTAATCAATGATGTTCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
8934071 T
1 T
8934072 TCACATAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (45 bp):
TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
Found at i:8934153 original size:51 final size:50
Alignment explanation
Indices: 8934073--8934211 Score: 152
Period size: 51 Copynumber: 2.7 Consensus size: 50
8934063 ATGTTCGGTT
* * * *
8934073 CACATAGTAGCCTGCATATAGTACTACACATGTGACCATTACCATTATATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCA-AACCATCAGATA
* * * * * * *
8934124 CACGTAGTATCCTGCACATAGTACTACACACGTGATCGAAACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGA-CCAAACCATCAGATA
*
8934175 CGCATAGTAGCCTGCACATAGTACTACACATGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACC
8934212 TTTCATTCCT
Statistics
Matches: 71, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
50 1 0.01
51 68 0.96
52 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCAAACCATCAGATA
Found at i:8947965 original size:31 final size:31
Alignment explanation
Indices: 8947927--8947994 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
8947917 TCATCGCAGG
* *
8947927 TTGCCCAGCAAC-ATTGTCCTGCCACCCTAGA
1 TTGCCCAGCAACGA-TGGCCTACCACCCTAGA
*
8947958 TTGCCCAGCAACGATGGCTTACCACCCTAGA
1 TTGCCCAGCAACGATGGCCTACCACCCTAGA
8947989 TTGCCC
1 TTGCCC
8947995 GAAAATGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.22, C:0.38, G:0.18, T:0.22
Consensus pattern (31 bp):
TTGCCCAGCAACGATGGCCTACCACCCTAGA
Found at i:8969512 original size:31 final size:32
Alignment explanation
Indices: 8969421--8969499 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 32
8969411 CACTTAACTA
* * * *
8969421 AAAAAATTCTAATTTAATC-ATTAAATTATTC
1 AAAAAATTTTCATTTAAGCTATTAAACTATTC
*
8969452 -GAAAATTTTCATTTAAGCTATTAAACTATTC
1 AAAAAATTTTCATTTAAGCTATTAAACTATTC
8969483 AAAAAATTTT-ATTTAAG
1 AAAAAATTTTCATTTAAG
8969500 TCATTGGACT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 14 0.35
31 18 0.45
32 8 0.20
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.42
Consensus pattern (32 bp):
AAAAAATTTTCATTTAAGCTATTAAACTATTC
Found at i:8976644 original size:15 final size:17
Alignment explanation
Indices: 8976624--8976656 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
8976614 GAGCAAGTAC
8976624 TGGAATC-GGA-AGAGA
1 TGGAATCTGGAGAGAGA
8976639 TGGAATCTGGAGAGAGA
1 TGGAATCTGGAGAGAGA
8976656 T
1 T
8976657 AAGGAGGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 3 0.19
17 6 0.38
ACGTcount: A:0.36, C:0.06, G:0.39, T:0.18
Consensus pattern (17 bp):
TGGAATCTGGAGAGAGA
Found at i:8989013 original size:15 final size:15
Alignment explanation
Indices: 8988964--8989014 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
8988954 TTACCCCAGT
8988964 TTACATTTTAGTCAC
1 TTACATTTTAGTCAC
** * **
8988979 TTATGTTTTAAT-TG
1 TTACATTTTAGTCAC
8988993 TTACATTTTAGTCAC
1 TTACATTTTAGTCAC
8989008 TTACATT
1 TTACATT
8989015 ATCTTATCGC
Statistics
Matches: 25, Mismatches: 10, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.25, C:0.14, G:0.08, T:0.53
Consensus pattern (15 bp):
TTACATTTTAGTCAC
Found at i:8989792 original size:2 final size:2
Alignment explanation
Indices: 8989785--8989809 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8989775 ATAAAATTGG
8989785 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
8989810 TTTACTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8989942 original size:16 final size:16
Alignment explanation
Indices: 8989923--8989958 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
8989913 ATAAAGTAAG
8989923 AATTAAATTAT-AAATT
1 AATTAAA-TATCAAATT
8989939 AATTAAATATCAAATT
1 AATTAAATATCAAATT
8989955 AATT
1 AATT
8989959 TAACTAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTAAATATCAAATT
Found at i:8990030 original size:119 final size:120
Alignment explanation
Indices: 8989887--8990126 Score: 473
Period size: 119 Copynumber: 2.0 Consensus size: 120
8989877 GTGAAAAAAA
8989887 ATTGTAAACTTAAATTAGTTATAAAAATAAAGTAAGAATTAAATTATAAATTAATTAAATATCAA
1 ATTGTAAACTTAAATTAGTTATAAAAATAAAGTAAGAATTAAATTATAAATTAATTAAATATCAA
8989952 ATTAATTTAACTAATTCAACACTAATTTAAATAAAATAACTAAAAATCTATTCTT
66 ATTAATTTAACTAATTCAACACTAATTTAAATAAAATAACTAAAAATCTATTCTT
8990007 ATTGTAAACTT-AATTAGTTATAAAAATAAAGTAAGAATTAAATTATAAATTAATTAAATATCAA
1 ATTGTAAACTTAAATTAGTTATAAAAATAAAGTAAGAATTAAATTATAAATTAATTAAATATCAA
8990071 ATTAATTTAACTAATTCAACACTAATTTAAATAAAATAACTAAAAATCTATTCTT
66 ATTAATTTAACTAATTCAACACTAATTTAAATAAAATAACTAAAAATCTATTCTT
8990126 A
1 A
8990127 GAAAAAGTAT
Statistics
Matches: 120, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
119 109 0.91
120 11 0.09
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (120 bp):
ATTGTAAACTTAAATTAGTTATAAAAATAAAGTAAGAATTAAATTATAAATTAATTAAATATCAA
ATTAATTTAACTAATTCAACACTAATTTAAATAAAATAACTAAAAATCTATTCTT
Found at i:8990061 original size:16 final size:16
Alignment explanation
Indices: 8990042--8990077 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
8990032 ATAAAGTAAG
8990042 AATTAAATTAT-AAATT
1 AATTAAA-TATCAAATT
8990058 AATTAAATATCAAATT
1 AATTAAATATCAAATT
8990074 AATT
1 AATT
8990078 TAACTAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTAAATATCAAATT
Found at i:8993558 original size:61 final size:61
Alignment explanation
Indices: 8993483--8993604 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
8993473 TGGTTCAATG
* *
8993483 GTAAATATTAGAAAATATAAGCATTTTGGATATAGGGACTAAAATGAATAAAATACAAATT
1 GTAAATATCAGAAAATATAAGCATTTTGGATATAGGGACTAAAATGAATAAAATAAAAATT
*
8993544 GTAAATATCAGAAAATATGAGCATTTTGGATATAGGGACTAAAATGAATAAAATAAAAATT
1 GTAAATATCAGAAAATATAAGCATTTTGGATATAGGGACTAAAATGAATAAAATAAAAATT
8993605 ATATTAAATT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.29
Consensus pattern (61 bp):
GTAAATATCAGAAAATATAAGCATTTTGGATATAGGGACTAAAATGAATAAAATAAAAATT
Found at i:8995469 original size:18 final size:17
Alignment explanation
Indices: 8995446--8995486 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
8995436 CCAAAAATCT
8995446 CACACGCCCGTGTGGGCC
1 CACACGCCCGTGT-GGCC
**
8995464 CACACGCTTGTGTGGCC
1 CACACGCCCGTGTGGCC
8995481 CACACG
1 CACACG
8995487 ACCCAATTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.15, C:0.41, G:0.29, T:0.15
Consensus pattern (17 bp):
CACACGCCCGTGTGGCC
Found at i:9000992 original size:25 final size:25
Alignment explanation
Indices: 9000964--9001011 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
9000954 ACAGTTTATC
* *
9000964 TATAGTAGTCTCAGTATATACTACA
1 TATAGCAGTCTCAGGATATACTACA
*
9000989 TATAGCAGTTTCAGGATATACTA
1 TATAGCAGTCTCAGGATATACTA
9001012 TCAAAAACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (25 bp):
TATAGCAGTCTCAGGATATACTACA
Found at i:9002320 original size:18 final size:17
Alignment explanation
Indices: 9002297--9002332 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9002287 CATGATATTC
9002297 GCCCGTATGGGCCCACAT
1 GCCCGTAT-GGCCCACAT
*
9002315 GCCCGTGTGGCCCACAT
1 GCCCGTATGGCCCACAT
9002332 G
1 G
9002333 GCCTAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.14, C:0.39, G:0.31, T:0.17
Consensus pattern (17 bp):
GCCCGTATGGCCCACAT
Found at i:9009784 original size:57 final size:59
Alignment explanation
Indices: 9009672--9009819 Score: 185
Period size: 57 Copynumber: 2.5 Consensus size: 59
9009662 AATTGACGGT
9009672 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCCTCCCAAAGAATATGTG-G
* *
9009735 AAAAAGATCTAGCCCGGACTGGTGAT-C-T-TGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCAAAGAATATGTGG
* * *
9009791 AAAATGGATTTAGCCCGGACGGGTAATCC
1 AAAA-AGATCTAGCCCGGACGGGTGATCC
9009820 CGACAATACT
Statistics
Matches: 77, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
56 5 0.06
57 44 0.57
58 1 0.01
59 1 0.01
61 1 0.01
62 20 0.26
63 5 0.06
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (59 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCAAAGAATATGTGG
Found at i:9009953 original size:67 final size:67
Alignment explanation
Indices: 9009845--9009976 Score: 219
Period size: 67 Copynumber: 2.0 Consensus size: 67
9009835 GTTTATATTA
* **
9009845 CAGGGGATTTAGCCTGGACTGGTAATCTTGCTGTAAGAAATGAGGTTCGCGAGAGTGTGCTCTCT
1 CAGGGGATTTAGCCTGGACTGGCAATCCCGCTGTAAGAAATGAGGTTCGCGAGAGTGTGCTCTCT
9009910 TG
66 TG
* *
9009912 CAGGGGATTTAGCCTGGACTGGCAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTTCTCTCT
1 CAGGGGATTTAGCCTGGACTGGCAATCCCGCTGTAAGAAATGAGGTTCGCGAGAGTGTGCTCTCT
9009977 GAATTGGAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (67 bp):
CAGGGGATTTAGCCTGGACTGGCAATCCCGCTGTAAGAAATGAGGTTCGCGAGAGTGTGCTCTCT
TG
Found at i:9018921 original size:12 final size:12
Alignment explanation
Indices: 9018904--9018943 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
9018894 GTGGAGAAAG
9018904 AAAAGAAAGAGA
1 AAAAGAAAGAGA
9018916 AAAAGAAAAGAGA
1 AAAAG-AAAGAGA
9018929 AAAGAGAAAG-GA
1 AAA-AGAAAGAGA
9018941 AAA
1 AAA
9018944 GAGAGAGACG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 10 0.38
13 14 0.54
14 2 0.08
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (12 bp):
AAAAGAAAGAGA
Found at i:9018929 original size:19 final size:19
Alignment explanation
Indices: 9018900--9018947 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
9018890 AAAGGTGGAG
*
9018900 AAAGAAAAGA-AAGAGA-A
1 AAAGAAAAGAGAAAAGAGA
9018917 AAAGAAAAGAGAAAAGAGA
1 AAAGAAAAGAGAAAAGAGA
*
9018936 AAGGAAAAGAGA
1 AAAGAAAAGAGA
9018948 GAGACGACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 10 0.37
18 5 0.19
19 12 0.44
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (19 bp):
AAAGAAAAGAGAAAAGAGA
Found at i:9018931 original size:7 final size:7
Alignment explanation
Indices: 9018909--9018947 Score: 57
Period size: 6 Copynumber: 6.0 Consensus size: 7
9018899 GAAAGAAAAG
9018909 AAAGAGA
1 AAAGAGA
9018916 AAA-AGA
1 AAAGAGA
9018922 AAAGAGA
1 AAAGAGA
9018929 AAAGAG-
1 AAAGAGA
9018935 AAAG-GA
1 AAAGAGA
9018941 AAAGAGA
1 AAAGAGA
9018948 GAGACGACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 1 0.03
6 14 0.48
7 14 0.48
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
AAAGAGA
Found at i:9018944 original size:12 final size:12
Alignment explanation
Indices: 9018897--9018947 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
9018887 AGGAAAGGTG
9018897 GAGAAA-GAAAA
1 GAGAAAGGAAAA
*
9018908 GA-AAGAGAAAAA
1 GAGAA-AGGAAAA
9018920 GA-AAAGAGAAAA
1 GAGAAAG-GAAAA
9018932 GAGAAAGGAAAA
1 GAGAAAGGAAAA
9018944 GAGA
1 GAGA
9018948 GAGACGACAC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
10 2 0.06
11 5 0.15
12 23 0.68
13 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
GAGAAAGGAAAA
Found at i:9022019 original size:12 final size:12
Alignment explanation
Indices: 9022002--9022031 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9021992 AGCCACACGT
9022002 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
9022014 CCGTGTGCTAGG
1 CCGTGTGCCAGG
9022026 CCGTGT
1 CCGTGT
9022032 AACTGCCTGA
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:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:9033705 original size:16 final size:17
Alignment explanation
Indices: 9033684--9033715 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9033674 GCCATGTCAG
9033684 AATTTTTTTA-ATTTTA
1 AATTTTTTTATATTTTA
9033700 AATTTTTTTATATTTT
1 AATTTTTTTATATTTT
9033716 TATACTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
AATTTTTTTATATTTTA
Found at i:9034060 original size:27 final size:27
Alignment explanation
Indices: 9034030--9034083 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
9034020 CACTTAATTG
*
9034030 TTTTCTAAAAAAGTTAAAACATAGTTA
1 TTTTCTAAAAAACTTAAAACATAGTTA
* ** *
9034057 TTTTTTAGTACACTTAAAACATAGTTA
1 TTTTCTAAAAAACTTAAAACATAGTTA
9034084 ATTAAATAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (27 bp):
TTTTCTAAAAAACTTAAAACATAGTTA
Found at i:9034258 original size:11 final size:12
Alignment explanation
Indices: 9034242--9034272 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
9034232 TCCATTTGAT
9034242 TTATTTATA-TA
1 TTATTTATATTA
9034253 TTATTTATATTA
1 TTATTTATATTA
9034265 TTATTTAT
1 TTATTTAT
9034273 TTTAAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTTATATTA
Found at i:9040572 original size:2 final size:2
Alignment explanation
Indices: 9040567--9040591 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9040557 TCTCTCTTTC
9040567 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9040592 TTAGCTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9043138 original size:15 final size:15
Alignment explanation
Indices: 9043114--9043143 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9043104 AAATTATATA
9043114 TGTTTATTTATTATT
1 TGTTTATTTATTATT
*
9043129 TGTTTGTTTATTATT
1 TGTTTATTTATTATT
9043144 CATGAACATT
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:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTTTATTTATTATT
Found at i:9044324 original size:107 final size:107
Alignment explanation
Indices: 9043828--9045291 Score: 2725
Period size: 107 Copynumber: 13.6 Consensus size: 107
9043818 AATTTGGCTA
* * * * * * *
9043828 AACGTGAAATC-AAACCCAGCACCTTAGGGCACGTTTCTCAAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
* **
9043892 TTATTTTTGAAAAGTTTTTTTTGAAAAGGATATTTAG-CTATTTGGTCA
66 TTA-TTTTGAAAA----TTTTTGAAAAGG-TATTAAGTC-ATTTGGTGG
9043940 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
*
9044005 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
66 TTATTTTGAAAATTTTTGAAAAGG-TATTAAGTCATTTGGTGG
9044048 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
*
9044113 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
66 TTATTTTGAAAATTTTTGAAAAGG-TATTAAGTCATTTGGTGG
9044156 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
9044221 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
9044263 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
9044328 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
9044370 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
9044435 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
9044477 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
9044542 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
9044584 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
9044649 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
9044691 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
9044756 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
9044798 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
9044863 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
9044905 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
9044970 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
9045012 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
9045077 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
9045119 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
9045184 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
9045226 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
9045291 T
66 T
9045292 CGCCGGCGCC
Statistics
Matches: 1340, Mismatches: 10, Indels: 9
0.99 0.01 0.01
Matches are distributed among these distances:
107 1046 0.78
108 224 0.17
109 1 0.00
112 19 0.01
113 50 0.04
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (107 bp):
AACGAGAAATCGAAACCCAGTACCTTAGGGCACATTCCTCGAATTTCCAAACGTAAAATATTGCC
TTATTTTGAAAATTTTTGAAAAGGTATTAAGTCATTTGGTGG
Found at i:9046433 original size:25 final size:25
Alignment explanation
Indices: 9046405--9046453 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
9046395 ACACTCATAG
9046405 ATCCCTCACATTTTATTACATCACC
1 ATCCCTCACATTTTATTACATCACC
9046430 ATCCCTCACATTTTATTACATCAC
1 ATCCCTCACATTTTATTACATCAC
9046454 TCATACTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.37
Consensus pattern (25 bp):
ATCCCTCACATTTTATTACATCACC
Found at i:9049397 original size:4 final size:4
Alignment explanation
Indices: 9049388--9049433 Score: 92
Period size: 4 Copynumber: 11.5 Consensus size: 4
9049378 ATCTTTTACG
9049388 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
9049434 AGATTTTCTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:9057322 original size:2 final size:2
Alignment explanation
Indices: 9057310--9057340 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9057300 NNNNNNATTT
*
9057310 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9057341 TAAAGAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9057920 original size:13 final size:13
Alignment explanation
Indices: 9057902--9057942 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
9057892 CGGCCTGCCC
*
9057902 ATATTACTTTTTT
1 ATATTATTTTTTT
9057915 ATATTATTATTTTT
1 ATATTATT-TTTTT
*
9057929 ATATAATTTTTTT
1 ATATTATTTTTTT
9057942 A
1 A
9057943 AGAAATACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTATTTTTTT
Found at i:9057929 original size:14 final size:13
Alignment explanation
Indices: 9057909--9057942 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
9057899 CCCATATTAC
*
9057909 TTTTTTATATTAT
1 TTTTTTATATAAT
9057922 TATTTTTATATAAT
1 T-TTTTTATATAAT
9057936 TTTTTTA
1 TTTTTTA
9057943 AGAAATACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTTATATAAT
Found at i:9060902 original size:57 final size:58
Alignment explanation
Indices: 9060806--9060924 Score: 186
Period size: 57 Copynumber: 2.1 Consensus size: 58
9060796 ATAAAAATTG
* ** *
9060806 TGAAAATGGAAAAATGGAAAACATTTGGAAATGAGTGTGGTTTTTTCCAAAATGACAA
1 TGAAAATGGAAAAATGGAAAACATTTGGAAATGAATGTGGTTTTCCCCAAAATGAAAA
*
9060864 TGAAAATGGAGAAATGG-AAACATTTGGAAATGAATGTGGTTTTCCCCAAAATGAAAA
1 TGAAAATGGAAAAATGGAAAACATTTGGAAATGAATGTGGTTTTCCCCAAAATGAAAA
9060921 TGAA
1 TGAA
9060925 CTGGAAATGA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 40 0.71
58 16 0.29
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.26
Consensus pattern (58 bp):
TGAAAATGGAAAAATGGAAAACATTTGGAAATGAATGTGGTTTTCCCCAAAATGAAAA
Found at i:9062452 original size:2 final size:2
Alignment explanation
Indices: 9062447--9062498 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
9062437 TATATATATA
**
9062447 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG CA TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
9062489 TG TG TG TG TG
1 TG TG TG TG TG
9062499 AATCTGGTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.02, C:0.02, G:0.48, T:0.48
Consensus pattern (2 bp):
TG
Found at i:9063782 original size:184 final size:184
Alignment explanation
Indices: 9063473--9063840 Score: 664
Period size: 184 Copynumber: 2.0 Consensus size: 184
9063463 CGCCAATAGG
*
9063473 GCTAAACATAAAACTTTAAGATATTTTTACTCTGCTTGAAAATAGTGAGAGCTTATTATCAAGTA
1 GCTAAACATAAAACTTTAAGATATTGTTACTCTGCTTGAAAATAGTGAGAGCTTATTATCAAGTA
*
9063538 TTAAATCTATTTTTCGGAATAACAACTCTATTGATTTCTATTGAGAAGAGATTTTCACTTTTACA
66 TTAAATCTATTTTTCGGAATAACAACTCTATTGATTTCTATTGAGAAGAGATTTTCACTTTCACA
* *
9063603 CTAAAAGTAGAGAAAACTATTTCTAGTTTTGTGTTTGATTCGAATTGTTCAAGT
131 CTAAAACTAGAGAAAACTATCTCTAGTTTTGTGTTTGATTCGAATTGTTCAAGT
9063657 GCTAAACATAAAACTTTAAGATATTGTTACTCTGCTTGAAAATAGTGAGAGCTTATTATCAAGTA
1 GCTAAACATAAAACTTTAAGATATTGTTACTCTGCTTGAAAATAGTGAGAGCTTATTATCAAGTA
* * *
9063722 TTAAATCTATTTTTTGGAATAACAACTTTGTTGATTTCTATTGAGAAGAGATTTTCACTTTCACA
66 TTAAATCTATTTTTCGGAATAACAACTCTATTGATTTCTATTGAGAAGAGATTTTCACTTTCACA
*
9063787 TTAAAACTAGAGAAAACTATCTCTAGTTTTGTGTTTGATTCGAATTGTTCAAGT
131 CTAAAACTAGAGAAAACTATCTCTAGTTTTGTGTTTGATTCGAATTGTTCAAGT
9063841 CCACAATTGA
Statistics
Matches: 176, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
184 176 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (184 bp):
GCTAAACATAAAACTTTAAGATATTGTTACTCTGCTTGAAAATAGTGAGAGCTTATTATCAAGTA
TTAAATCTATTTTTCGGAATAACAACTCTATTGATTTCTATTGAGAAGAGATTTTCACTTTCACA
CTAAAACTAGAGAAAACTATCTCTAGTTTTGTGTTTGATTCGAATTGTTCAAGT
Found at i:9065252 original size:19 final size:20
Alignment explanation
Indices: 9065210--9065252 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
9065200 TCATGCTTTC
* *
9065210 TATTCACATTTTCATATTCA
1 TATTCACATTGTCAAATTCA
9065230 -ATTCACATTGTCAAATT-A
1 TATTCACATTGTCAAATTCA
9065248 TATTC
1 TATTC
9065253 CACAGTCACG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.47
Consensus pattern (20 bp):
TATTCACATTGTCAAATTCA
Found at i:9069628 original size:64 final size:64
Alignment explanation
Indices: 9069527--9069649 Score: 192
Period size: 64 Copynumber: 1.9 Consensus size: 64
9069517 CATGAAGAGC
* * * * *
9069527 CATATATCAGGACGCTCATAAAGAGCTGCGGTATGTCCGCAATACATGCAGGATCAATATCGAT
1 CATATAACAGGACGCTCACAAAGAGCTGCAGTATGTCCGCAACACATGCAAGATCAATATCGAT
*
9069591 CATATAACAGGACGCTCACAAAGAGTTGCAGTATGTCCGCAACACATGCAAGATCAATA
1 CATATAACAGGACGCTCACAAAGAGCTGCAGTATGTCCGCAACACATGCAAGATCAATA
9069650 CTAATCGGGA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (64 bp):
CATATAACAGGACGCTCACAAAGAGCTGCAGTATGTCCGCAACACATGCAAGATCAATATCGAT
Found at i:9072560 original size:82 final size:82
Alignment explanation
Indices: 9072459--9072621 Score: 317
Period size: 82 Copynumber: 2.0 Consensus size: 82
9072449 CAATGTTTTG
9072459 AATGCAAAATATGTCAATATTCAGTCAAAATATGCCAATACTAAGAAGAAATAGAGGCCCTTAGT
1 AATGCAAAATATGTCAATATTCAGTCAAAATATGCCAATACTAAGAAGAAATAGAGGCCCTTAGT
9072524 TGTAACCTTGAGTGATA
66 TGTAACCTTGAGTGATA
*
9072541 AATGCAAAGTATGTCAATATTCAGTCAAAATATGCCAATACTAAGAAGAAATAGAGGCCCTTAGT
1 AATGCAAAATATGTCAATATTCAGTCAAAATATGCCAATACTAAGAAGAAATAGAGGCCCTTAGT
9072606 TGTAACCTTGAGTGAT
66 TGTAACCTTGAGTGAT
9072622 GATAAGGATA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (82 bp):
AATGCAAAATATGTCAATATTCAGTCAAAATATGCCAATACTAAGAAGAAATAGAGGCCCTTAGT
TGTAACCTTGAGTGATA
Found at i:9074110 original size:22 final size:23
Alignment explanation
Indices: 9074085--9074134 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
9074075 ATTAAATAAA
9074085 ATTTATAAA-T-TAAGTTATAATT
1 ATTTATAAAGTGTAA-TTATAATT
*
9074107 ATTTTTAAATGTGTAATTATAATT
1 ATTTATAAA-GTGTAATTATAATT
9074131 ATTT
1 ATTT
9074135 CTATAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.33
24 13 0.54
25 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (23 bp):
ATTTATAAAGTGTAATTATAATT
Found at i:9075066 original size:13 final size:13
Alignment explanation
Indices: 9075044--9075081 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
9075034 TTTAGCAATG
*
9075044 CTTTTAAAAAGTA
1 CTTTTGAAAAGTA
*
9075057 CTTTTGAAAAGTG
1 CTTTTGAAAAGTA
9075070 CTTTTGAAAAGT
1 CTTTTGAAAAGT
9075082 TTGGTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:9080402 original size:24 final size:24
Alignment explanation
Indices: 9080368--9080418 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
9080358 TGATTAGAAG
*
9080368 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGTATAATAT
*
9080392 ATTTAGCATTTATTAGTATAATAT
1 ATTTAGCATTTATGAGTATAATAT
9080416 ATT
1 ATT
9080419 CGACTTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (24 bp):
ATTTAGCATTTATGAGTATAATAT
Found at i:9082768 original size:13 final size:14
Alignment explanation
Indices: 9082750--9082790 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
9082740 NNNNCAAAGA
9082750 TATGGTTTAGGA-T
1 TATGGTTTAGGACT
*
9082763 TATGGTTTATGACT
1 TATGGTTTAGGACT
*
9082777 TACGGTTTA-GACT
1 TATGGTTTAGGACT
9082790 T
1 T
9082791 TAGGGGTGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.46
Consensus pattern (14 bp):
TATGGTTTAGGACT
Found at i:9082881 original size:25 final size:26
Alignment explanation
Indices: 9082847--9082898 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
9082837 TTGTTTGTGG
** *
9082847 TTTACGGGTTTAATTTTTATGGTTAA
1 TTTACGGGTTTAAGATTTACGGTTAA
9082873 TTTA-GGGTTTAAGATTTACGGTTAA
1 TTTACGGGTTTAAGATTTACGGTTAA
9082898 T
1 T
9082899 GCGTACTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.50
Consensus pattern (26 bp):
TTTACGGGTTTAAGATTTACGGTTAA
Found at i:9086028 original size:47 final size:47
Alignment explanation
Indices: 9085959--9086052 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
9085949 TGCTTCGATT
*
9085959 CCCCTTCCAAAAGATAATTTAGGGCTTGATTAATGCATATGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
* * * *
9086006 CCCCTTCTAAAATATAATTTAGGATTTGATTAATGCATGTGGAGGTG
1 CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
9086053 GTCTAGCGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (47 bp):
CCCCTTCCAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
Found at i:9086726 original size:22 final size:22
Alignment explanation
Indices: 9086692--9086733 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9086682 CGACGCTGTT
9086692 ATATAATACATAACTTACATTA
1 ATATAATACATAACTTACATTA
* *
9086714 ATATTATATATAACTTACAT
1 ATATAATACATAACTTACAT
9086734 AACTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATAATACATAACTTACATTA
Found at i:9086735 original size:31 final size:31
Alignment explanation
Indices: 9086691--9086819 Score: 118
Period size: 31 Copynumber: 3.9 Consensus size: 31
9086681 GCGACGCTGT
9086691 TATATAA--TACATAACTTACATTAATATTA
1 TATATAACTTACATAACTTACATTAATATTA
*
9086720 TATATAACTTACATAACTTAATTAATTAATATTA
1 TATATAACTTACATAACTT-A--CATTAATATTA
9086754 TACATAACTTACAACTTACATAACTTACATTAATATTA
1 T--AT-A--T--AACTTACATAACTTACATTAATATTA
* * *
9086792 CACATAAATTACATAACTTACATTAATA
1 TATATAACTTACATAACTTACATTAATA
9086820 CGACATAACT
Statistics
Matches: 83, Mismatches: 5, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
29 7 0.08
31 32 0.39
32 1 0.01
33 1 0.01
34 11 0.13
35 1 0.01
36 3 0.04
37 1 0.01
38 10 0.12
39 1 0.01
40 1 0.01
41 14 0.17
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (31 bp):
TATATAACTTACATAACTTACATTAATATTA
Found at i:9086737 original size:9 final size:9
Alignment explanation
Indices: 9086723--9086814 Score: 61
Period size: 9 Copynumber: 10.2 Consensus size: 9
9086713 AATATTATAT
9086723 ATAACTTAC
1 ATAACTTAC
9086732 ATAACTTA-
1 ATAACTTAC
9086740 ATTAA-TTA-
1 A-TAACTTAC
*
9086748 AT-ATTATAC
1 ATAACT-TAC
9086757 ATAACTTAC
1 ATAACTTAC
9086766 --AACTTAC
1 ATAACTTAC
9086773 ATAACTTAC
1 ATAACTTAC
*
9086782 ATTAATATTACAC
1 A-TAA-CTT--AC
*
9086795 ATAAATTAC
1 ATAACTTAC
9086804 ATAACTTAC
1 ATAACTTAC
9086813 AT
1 AT
9086815 TAATACGACA
Statistics
Matches: 69, Mismatches: 3, Indels: 22
0.73 0.03 0.23
Matches are distributed among these distances:
6 1 0.01
7 9 0.13
8 7 0.10
9 36 0.52
10 5 0.07
11 5 0.07
12 3 0.04
13 3 0.04
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (9 bp):
ATAACTTAC
Found at i:9086797 original size:38 final size:41
Alignment explanation
Indices: 9086725--9086814 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 41
9086715 TATTATATAT
* *
9086725 AACTTACATAACTTAATTAATTAATATTATACATAACTTAC-
1 AACTTACATAACTTAA-TAATTAATATTACACATAAATTACA
*
9086766 AACTTACATAACTT-A-CATTAATATTACACATAAATTACA
1 AACTTACATAACTTAATAATTAATATTACACATAAATTACA
9086805 TAACTTACAT
1 -AACTTACAT
9086815 TAATACGACA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
38 20 0.45
40 10 0.23
41 14 0.32
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (41 bp):
AACTTACATAACTTAATAATTAATATTACACATAAATTACA
Found at i:9093771 original size:87 final size:87
Alignment explanation
Indices: 9093665--9093862 Score: 267
Period size: 87 Copynumber: 2.3 Consensus size: 87
9093655 ACACAACTTA
* * *
9093665 AAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTTCAGCTA-CAAC
1 AAGCAGAGGCAACAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCAG-TAGCAAC
*
9093728 TTAAAGCAGATGCGGCAGCGAGAG
64 TTAAAGCAGATGCGACAGCGAGAG
* * * *
9093752 AAGTAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGTAGCAGCTT
1 AAGCAGAGGCAACAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGTAGCAACTT
9093817 AAAGCAGATGCGACAGCGAGAG
66 AAAGCAGATGCGACAGCGAGAG
*
9093839 AAGCAGAGGCTAA-AGCGAGGGAAG
1 AAGCAGAGGC-AACAGCGAGAGAAG
9093863 TAGAGGCTGC
Statistics
Matches: 97, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
86 2 0.02
87 90 0.93
88 5 0.05
ACGTcount: A:0.39, C:0.17, G:0.32, T:0.12
Consensus pattern (87 bp):
AAGCAGAGGCAACAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAGTAGCAACTT
AAAGCAGATGCGACAGCGAGAG
Found at i:9093855 original size:21 final size:21
Alignment explanation
Indices: 9093831--9093870 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9093821 CAGATGCGAC
9093831 AGCGAGAGAAGCAGAGGCTAA
1 AGCGAGAGAAGCAGAGGCTAA
* *
9093852 AGCGAGGGAAGTAGAGGCT
1 AGCGAGAGAAGCAGAGGCT
9093871 GCGGCGAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.42, T:0.07
Consensus pattern (21 bp):
AGCGAGAGAAGCAGAGGCTAA
Found at i:9097984 original size:43 final size:41
Alignment explanation
Indices: 9097935--9098215 Score: 364
Period size: 43 Copynumber: 6.7 Consensus size: 41
9097925 ACAAGCACCA
9097935 CTAAAGACCATGGTCTATAGTGGCGTTTTTTTCCTAAGCGCCG
1 CTAAAGACCATGGTCTATAGTGGCGTTTTTTT--TAAGCGCCG
** **
9097978 GGAAAGACCATGGTCTATAGTGGCGTTTTTCGCCTAAGCGCCG
1 CTAAAGACCATGGTCTATAGTGGCGTTTTT--TTTAAGCGCCG
*
9098021 CTAAAGACCATGGTCTATAGTGGCGTTTGTTGGTTAAGCGCCG
1 CTAAAGACCATGGTCTATAGTGGCGTTT-TT-TTTAAGCGCCG
**
9098064 CTAAAGACCATGGTCTATAGTGGCGTTATTTGGTAAGCGCCG
1 CTAAAGACCATGGTCTATAGTGGCGTT-TTTTTTAAGCGCCG
* *
9098106 CTAAAGACCACGGTCTATAGTGGCATTTTTTTTAAGCGCCG
1 CTAAAGACCATGGTCTATAGTGGCGTTTTTTTTAAGCGCCG
* *
9098147 CTAAAGACCACGGTCTATAGTGGTGTTTTTATTTAAGCGCCG
1 CTAAAGACCATGGTCTATAGTGGCGTTTTT-TTTAAGCGCCG
* * *
9098189 ATAAAGACCATGGACTATAGCGGCGTT
1 CTAAAGACCATGGTCTATAGTGGCGTT
9098216 GTAAAAAAAA
Statistics
Matches: 213, Mismatches: 20, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
41 40 0.19
42 68 0.32
43 102 0.48
44 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (41 bp):
CTAAAGACCATGGTCTATAGTGGCGTTTTTTTTAAGCGCCG
Found at i:9099192 original size:2 final size:2
Alignment explanation
Indices: 9099185--9099216 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9099175 TCTTTCATGC
9099185 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9099217 GAATGAATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9099788 original size:18 final size:18
Alignment explanation
Indices: 9099752--9099798 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
9099742 TAAAAATTAT
* *
9099752 ATAAAAAATATTTTTAAAA
1 ATAAAAAA-ATTATAAAAA
9099771 ATAAAAAAATTATAAAAA
1 ATAAAAAAATTATAAAAA
*
9099789 ATTAAAAAAT
1 ATAAAAAAAT
9099799 ATTAAAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAAAAAAATTATAAAAA
Found at i:9099804 original size:18 final size:18
Alignment explanation
Indices: 9099753--9099805 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
9099743 AAAAATTATA
*
9099753 TAAAAAATATTTTTAAAAAT
1 TAAAAAATA--TTAAAAAAT
*
9099773 AAAAAAAT-TATAAAAAAT
1 TAAAAAATAT-TAAAAAAT
9099791 TAAAAAATATTAAAA
1 TAAAAAATATTAAAA
9099806 TTTATATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 1 0.04
18 19 0.68
19 1 0.04
20 7 0.25
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAAAAATATTAAAAAAT
Found at i:9099991 original size:20 final size:19
Alignment explanation
Indices: 9099966--9100018 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
9099956 TAAACAATGT
9099966 AAAAATTATAATAAATTTTA
1 AAAAATTATAA-AAATTTTA
*
9099986 AAAAA-TA-AAAACATATTA
1 AAAAATTATAAAA-ATTTTA
9100004 AAAAATT-TAAAAATT
1 AAAAATTATAAAAATT
9100019 AAAAATGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 2 0.07
18 14 0.50
19 7 0.25
20 5 0.18
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATTATAAAAATTTTA
Found at i:9099996 original size:27 final size:26
Alignment explanation
Indices: 9099938--9100023 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 26
9099928 AAACTTTTAT
* * *
9099938 AAAAATTCATAAAAATTGTAAACAATGT
1 AAAAATT-ATAAAAATTTTAAAAAAT-A
9099966 AAAAATTATAATAAATTTTAAAAAATA
1 AAAAATTATAA-AAATTTTAAAAAATA
* *
9099993 AAAACA-TATTAAAAAATTTAAAAATTA
1 AAAA-ATTA-TAAAAATTTTAAAAAATA
9100020 AAAA
1 AAAA
9100024 TGATATAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
27 27 0.54
28 23 0.46
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.29
Consensus pattern (26 bp):
AAAAATTATAAAAATTTTAAAAAATA
Found at i:9100032 original size:27 final size:26
Alignment explanation
Indices: 9099948--9100033 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 26
9099938 AAAAATTCAT
9099948 AAAAATTGTAAACAATGTAAAAAT-TATA
1 AAAAATT-TAAA-AAT-TAAAAATATATA
* * *
9099976 ATAAATTTTAAAAAATAAAAACATATTA
1 A-AAAATTTAAAAATTAAAAATATA-TA
9100004 AAAAATTTAAAAATTAAAAATGATATA
1 AAAAATTTAAAAATTAAAAAT-ATATA
9100031 AAA
1 AAA
9100034 GAGTCATTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
26 6 0.12
27 26 0.54
28 11 0.23
29 5 0.10
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (26 bp):
AAAAATTTAAAAATTAAAAATATATA
Found at i:9100428 original size:16 final size:16
Alignment explanation
Indices: 9100407--9100437 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9100397 AAATCAATCA
9100407 AAAAATATTAAAAAAT
1 AAAAATATTAAAAAAT
9100423 AAAAATATTAAAAAA
1 AAAAATATTAAAAAA
9100438 ATCGGTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAAATATTAAAAAAT
Found at i:9105166 original size:31 final size:32
Alignment explanation
Indices: 9105128--9105191 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
9105118 TTTACTTAAT
*
9105128 ATCTTGATCCGTAGAAA-TCCTAAATTATGCA
1 ATCTTGATCCATAGAAATTCCTAAATTATGCA
9105159 ATCTTGATCCATAGAAATTCCTAAATTATGCA
1 ATCTTGATCCATAGAAATTCCTAAATTATGCA
9105191 A
1 A
9105192 ATATCTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 16 0.52
32 15 0.48
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.33
Consensus pattern (32 bp):
ATCTTGATCCATAGAAATTCCTAAATTATGCA
Found at i:9106838 original size:21 final size:21
Alignment explanation
Indices: 9106812--9106851 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9106802 CCCCTCCTTT
*
9106812 CCCCTTTCTCCCTCCTTTCCC
1 CCCCTTTCCCCCTCCTTTCCC
*
9106833 CCCCTTTCCCCCTTCTTTC
1 CCCCTTTCCCCCTCCTTTC
9106852 ATTTGTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (21 bp):
CCCCTTTCCCCCTCCTTTCCC
Found at i:9106850 original size:11 final size:11
Alignment explanation
Indices: 9106814--9106851 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
9106804 CCTCCTTTCC
*
9106814 CCTTTCTCCCT
1 CCTTTCCCCCT
9106825 CCTTTCCCCC-
1 CCTTTCCCCCT
9106835 CCTTTCCCCCT
1 CCTTTCCCCCT
*
9106846 TCTTTC
1 CCTTTC
9106852 ATTTGTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (11 bp):
CCTTTCCCCCT
Found at i:9106868 original size:18 final size:18
Alignment explanation
Indices: 9106845--9106887 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9106835 CCTTTCCCCC
*
9106845 TTCTTTCATTTGTTTATT
1 TTCTTTCATTTATTTATT
*
9106863 TTCTTTCGTTTATTTATT
1 TTCTTTCATTTATTTATT
*
9106881 TGCTTTC
1 TTCTTTC
9106888 TTTTTATGCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.09, C:0.14, G:0.07, T:0.70
Consensus pattern (18 bp):
TTCTTTCATTTATTTATT
Found at i:9106971 original size:55 final size:55
Alignment explanation
Indices: 9106887--9106996 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 55
9106877 TATTTGCTTT
* ** *
9106887 CTTTTTATGCGAAACCGTTGAATTTAGTAGATATAGATACAGATTCTTATATCGA
1 CTTTTTATGCCAAAAAGATGAATTTAGTAGATATAGATACAGATTCTTATATCGA
9106942 CTTTTTATGCCAAAAAGATGAATTTAGTAGATATAGATACAGATTCTTATATCGA
1 CTTTTTATGCCAAAAAGATGAATTTAGTAGATATAGATACAGATTCTTATATCGA
9106997 AAGGTCTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (55 bp):
CTTTTTATGCCAAAAAGATGAATTTAGTAGATATAGATACAGATTCTTATATCGA
Found at i:9107483 original size:27 final size:28
Alignment explanation
Indices: 9107435--9107491 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
9107425 TAATTATTTT
* *
9107435 TTTATAGTATAATAGCTTGAACTAATTA
1 TTTATAGTATAATAACTAGAACTAATTA
*
9107463 TTTATA-TTTAATAACTAGAACTAATTA
1 TTTATAGTATAATAACTAGAACTAATTA
9107490 TT
1 TT
9107492 CCATTCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (28 bp):
TTTATAGTATAATAACTAGAACTAATTA
Found at i:9109211 original size:16 final size:15
Alignment explanation
Indices: 9109166--9109212 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
9109156 GAAGATAGAA
9109166 AAAATAAAATAA-AAC
1 AAAATAAAA-AATAAC
*
9109181 AAAATAAAGAGATAAC
1 AAAATAAA-AAATAAC
9109197 AAAATAGAAAAATAAC
1 AAAATA-AAAAATAAC
9109213 TCATAAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 9 0.33
16 16 0.59
17 2 0.07
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.13
Consensus pattern (15 bp):
AAAATAAAAAATAAC
Found at i:9109350 original size:17 final size:17
Alignment explanation
Indices: 9109310--9109350 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
9109300 AGTACAACTT
9109310 AAAAT-AAAACTAAAAA
1 AAAATAAAAACTAAAAA
*
9109326 TAAATAAAAAC-AAAAA
1 AAAATAAAAACTAAAAA
9109342 AAAACTAAA
1 AAAA-TAAA
9109351 TAAAGTCAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAATAAAAACTAAAAA
Found at i:9113772 original size:11 final size:11
Alignment explanation
Indices: 9113756--9113782 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9113746 TAGAAATTAG
9113756 TTTGTGAAACT
1 TTTGTGAAACT
9113767 TTTGTGAAACT
1 TTTGTGAAACT
9113778 TTTGT
1 TTTGT
9113783 ATTGATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:9116665 original size:45 final size:44
Alignment explanation
Indices: 9116577--9116674 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 44
9116567 CTATTACACC
*
9116577 TCCATTCCATTCAACCAAACACAATAATACTATTACGCATCTAT
1 TCCATTACATTCAACCAAACACAATAATACTATTACGCATCTAT
* * * *
9116621 TCTATTACATTCAACCAAACA-ATTGAATTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACACAAT-AA-TACTATTACGCATCTAT
9116666 TCCATTACA
1 TCCATTACA
9116675 GCGAACCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.04
44 21 0.46
45 23 0.50
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.33
Consensus pattern (44 bp):
TCCATTACATTCAACCAAACACAATAATACTATTACGCATCTAT
Found at i:9117642 original size:14 final size:14
Alignment explanation
Indices: 9117625--9117653 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9117615 TTTTCCTTGG
9117625 AATTTTTATATTTT
1 AATTTTTATATTTT
9117639 AATTTTTATATTTT
1 AATTTTTATATTTT
9117653 A
1 A
9117654 TACTTTTACA
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:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
AATTTTTATATTTT
Found at i:9119424 original size:46 final size:46
Alignment explanation
Indices: 9119353--9119550 Score: 342
Period size: 46 Copynumber: 4.3 Consensus size: 46
9119343 TGACAAGTGG
* * *
9119353 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATGAAGTGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
* *
9119399 AAAGTGATAAGTGGTACCTTTAGCTACACTTATCTGATGAAGTGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
*
9119445 AAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
9119491 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
9119537 AAAGTGATAAGTGG
1 AAAGTGATAAGTGG
9119551 NNNNNNNNNN
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 145 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
Found at i:9120907 original size:13 final size:13
Alignment explanation
Indices: 9120889--9120918 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
9120879 AAACTAGATT
9120889 TTAACTAAGAAAA
1 TTAACTAAGAAAA
9120902 TTAACTAAGAAAA
1 TTAACTAAGAAAA
9120915 TTAA
1 TTAA
9120919 AAGGTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:9121825 original size:16 final size:16
Alignment explanation
Indices: 9121804--9121837 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9121794 GTAAAAGAGA
9121804 GAGAGATGTGTGGAAT
1 GAGAGATGTGTGGAAT
*
9121820 GAGAGATGTGTTGAAT
1 GAGAGATGTGTGGAAT
9121836 GA
1 GA
9121838 ATAGGTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.41, T:0.26
Consensus pattern (16 bp):
GAGAGATGTGTGGAAT
Found at i:9123270 original size:3 final size:3
Alignment explanation
Indices: 9123219--9123251 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
9123209 AGTACTTAAG
9123219 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9123252 AGGAAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9123279 original size:9 final size:10
Alignment explanation
Indices: 9123219--9123280 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 10
9123209 AGTACTTAAG
9123219 TAAT-AATAA
1 TAATAAATAA
9123228 TAAT-AATAA
1 TAATAAATAA
9123237 TAAT-AATAA
1 TAATAAATAA
*
9123246 TAATAAAGGAA
1 TAATAAA-TAA
9123257 -ATATAAA-AA
1 TA-ATAAATAA
9123266 TAATAAATAA
1 TAATAAATAA
9123276 -AATAA
1 TAATAA
9123281 CTAAAAAGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
9 34 0.72
10 6 0.13
11 7 0.15
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (10 bp):
TAATAAATAA
Found at i:9127582 original size:166 final size:167
Alignment explanation
Indices: 9127386--9127719 Score: 661
Period size: 166 Copynumber: 2.0 Consensus size: 167
9127376 AAAATATTAG
9127386 TTAATTATTATATTATTTTTAAGTTAAGAATAAAAAATACAAAATAAGATTTTCATAAATTAGTA
1 TTAATTATTATATTATTTTTAAGTTAAGAATAAAAAATACAAAATAAGATTTTCATAAATTAGTA
9127451 GAATTATAACTTCAAAAAATATTATTTAATTGTTATATTATTTTTTAAATAGAAGCTGGATTTGT
66 GAATTATAACTTCAAAAAATATTATTTAATTGTTATATTATTTTTTAAATAGAAGCTGGATTTGT
9127516 ATTCAAGATCAAACAGTCTAAAATAAAACAACAAAGT
131 ATTCAAGATCAAACAGTCTAAAATAAAACAACAAAGT
9127553 TTAATTATTAT-TTATTTTTAAGTTAAGAATAAAAAATACAAAATAAGATTTTCATAAATTAGTA
1 TTAATTATTATATTATTTTTAAGTTAAGAATAAAAAATACAAAATAAGATTTTCATAAATTAGTA
9127617 GAATTATAACTTCAAAAAATATTATTTAATTGTTATATTATTTTTTAAATAGAAGCTGGATTTGT
66 GAATTATAACTTCAAAAAATATTATTTAATTGTTATATTATTTTTTAAATAGAAGCTGGATTTGT
9127682 ATTCAAGATCAAACAGTCTAAAATAAAACAACAAAGT
131 ATTCAAGATCAAACAGTCTAAAATAAAACAACAAAGT
9127719 T
1 T
9127720 GCAGACAAGA
Statistics
Matches: 167, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
166 156 0.93
167 11 0.07
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (167 bp):
TTAATTATTATATTATTTTTAAGTTAAGAATAAAAAATACAAAATAAGATTTTCATAAATTAGTA
GAATTATAACTTCAAAAAATATTATTTAATTGTTATATTATTTTTTAAATAGAAGCTGGATTTGT
ATTCAAGATCAAACAGTCTAAAATAAAACAACAAAGT
Found at i:9136586 original size:20 final size:20
Alignment explanation
Indices: 9136558--9136595 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9136548 TATTTTCCAA
*
9136558 TAAATCATTTTACAGAAAAG
1 TAAAACATTTTACAGAAAAG
*
9136578 TAAAACATTTTCCAGAAA
1 TAAAACATTTTACAGAAA
9136596 TCATTTTACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (20 bp):
TAAAACATTTTACAGAAAAG
Found at i:9136600 original size:34 final size:35
Alignment explanation
Indices: 9136544--9136610 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
9136534 CAAACACTAG
* *
9136544 AAAATATTTTCCAATAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAAGAAATCATTTTACAGAAAAGT
*
9136579 AAAACATTTTCC-AGAAATCATTTTACGGAAAA
1 AAAACATTTTCCAAGAAATCATTTTACAGAAAA
9136611 TATTTTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAAGAAATCATTTTACAGAAAAGT
Found at i:9151598 original size:20 final size:21
Alignment explanation
Indices: 9151561--9151600 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
9151551 TTAATCAAAG
9151561 TTTAATTATTACAAAATATTT
1 TTTAATTATTACAAAATATTT
*
9151582 TTTAATT-TTATAAAATATT
1 TTTAATTATTACAAAATATT
9151601 AAACATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTAATTATTACAAAATATTT
Found at i:9157266 original size:52 final size:53
Alignment explanation
Indices: 9157165--9157265 Score: 127
Period size: 52 Copynumber: 1.9 Consensus size: 53
9157155 CCTTTTGATG
** * * *
9157165 ATTTTAGTATAAAATTTGAGTAAATTTTTATTTGGTATATGTATTTTTTTATT
1 ATTTTAGTATAAAATACGAGTAAATTTATATATGGTATATATATTTTTTTATT
9157218 ATTTTA-TATAAAATACGATGT-AATTTATATATGGTAT-TATATTTTTTT
1 ATTTTAGTATAAAATACGA-GTAAATTTATATATGGTATATATATTTTTTT
9157266 TGAAAATATT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
51 10 0.24
52 24 0.57
53 8 0.19
ACGTcount: A:0.33, C:0.01, G:0.10, T:0.56
Consensus pattern (53 bp):
ATTTTAGTATAAAATACGAGTAAATTTATATATGGTATATATATTTTTTTATT
Found at i:9158886 original size:21 final size:21
Alignment explanation
Indices: 9158860--9158925 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
9158850 AGAACATCTT
9158860 GTTGTTTTAGATTTAAAACTG
1 GTTGTTTTAGATTTAAAACTG
* * *
9158881 GTTG-TTT-G-CTT-GAACTT
1 GTTGTTTTAGATTTAAAACTG
9158898 GTTGTTTTAGATTTAAAACTG
1 GTTGTTTTAGATTTAAAACTG
9158919 GTTGTTT
1 GTTGTTT
9158926 GCTTGAAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
17 8 0.23
18 5 0.14
19 2 0.06
20 5 0.14
21 15 0.43
ACGTcount: A:0.21, C:0.06, G:0.21, T:0.52
Consensus pattern (21 bp):
GTTGTTTTAGATTTAAAACTG
Done.