Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 113 of 129
Found at i:18947254 original size:2 final size:2
Alignment explanation
Indices: 18947247--18947275 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18947237 TCAACTTTTC
18947247 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 T
18947276 TGTGGATTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18962194 original size:8 final size:9
Alignment explanation
Indices: 18962171--18962212 Score: 68
Period size: 9 Copynumber: 4.7 Consensus size: 9
18962161 ATTTAAAAGT
18962171 TTTAAATAA
1 TTTAAATAA
18962180 TTTAAATAA
1 TTTAAATAA
18962189 -TTAAATAA
1 TTTAAATAA
18962197 TTTAAATAA
1 TTTAAATAA
18962206 CTTTAAA
1 -TTTAAA
18962213 AAAAGTTAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.26
9 17 0.55
10 6 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (9 bp):
TTTAAATAA
Found at i:18962194 original size:17 final size:17
Alignment explanation
Indices: 18962172--18962205 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
18962162 TTTAAAAGTT
18962172 TTAAATAATTTAAATAA
1 TTAAATAATTTAAATAA
18962189 TTAAATAATTTAAATAA
1 TTAAATAATTTAAATAA
18962206 CTTTAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAATAATTTAAATAA
Found at i:18966231 original size:24 final size:23
Alignment explanation
Indices: 18966177--18966221 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
18966167 TTTCTTAGGA
*
18966177 ACTTTAGGCTTTTCCGATTTGGT
1 ACTTCAGGCTTTTCCGATTTGGT
18966200 ACTTCAGGCTTTTCCGATTTGG
1 ACTTCAGGCTTTTCCGATTTGG
18966222 GTAACTCAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.44
Consensus pattern (23 bp):
ACTTCAGGCTTTTCCGATTTGGT
Found at i:18970102 original size:33 final size:33
Alignment explanation
Indices: 18970041--18970170 Score: 100
Period size: 33 Copynumber: 3.9 Consensus size: 33
18970031 AGGCAACTTG
* * * *
18970041 GGCAATTCTGGCTTGGGTAGCTCTGGAACCTTC
1 GGCAATTCAGGCTTTGGTAACTCGGGAACCTTC
* * *
18970074 GGCAATTCAGGCTTTGGCAACTCGGGAACTTTG
1 GGCAATTCAGGCTTTGGTAACTCGGGAACCTTC
*** * * * *
18970107 GGTTCTTCAGGTTTTGGTAAGTCAGGCAA-CTTT
1 GGCAATTCAGGCTTTGGTAACTC-GGGAACCTTC
* *
18970140 GGTAATTCAGGCTTTGGTAGCTCGGGAACCT
1 GGCAATTCAGGCTTTGGTAACTCGGGAACCT
18970171 CGGGTTCTTT
Statistics
Matches: 73, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
32 4 0.05
33 65 0.89
34 4 0.05
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.32
Consensus pattern (33 bp):
GGCAATTCAGGCTTTGGTAACTCGGGAACCTTC
Found at i:18970149 original size:66 final size:66
Alignment explanation
Indices: 18970074--18970451 Score: 235
Period size: 66 Copynumber: 5.5 Consensus size: 66
18970064 TGGAACCTTC
*
18970074 GGCAATTCAGGCTTTGGCAACTCGGGAACTTTGGGTTCTTCAGGTTTTGGTAAGTCAGGCAACTT
1 GGCAATTCAGGCTTTGGCAACTCGGGAACTTTGGGTTCTTCAGGTTTTGGCAAGTCAGGCAACTT
18970139 T
66 T
* ** *
18970140 GGTAATTCAGGCTTTGGTAGCTCGGGAACCTCGGGTTCTTTGGGTTCTTCAGGTTTTGGCATGTC
1 GGCAATTCAGGCTTT-G--G--C---AA-CTCGGGAACTTTGGGTTCTTCAGGTTTTGGCAAGTC
*
18970205 AGGCAACTTA
57 AGGCAACTTT
* * * *** * * * *
18970215 GGCAATACAGGCTTCGGTAACTCGGGAACTTTTGGCAAC-TCAGGAGCTTTGGGAAATTCTGG-A
1 GGCAATTCAGGCTTTGGCAACTCGGGAAC-TTTGGGTTCTTCA-G-G-TTTTGGCAAGTCAGGCA
18970278 ACTTT
62 ACTTT
* * * * * *
18970283 AGGCAATTCAGGCTTCGGCAACTTTGGG-ACTTTTGCTTCTTCAGGTTTT-TCTAATTCAGGCAA
1 -GGCAATTCAGGCTTTGGCAAC-TCGGGAACTTTGGGTTCTTCAGGTTTTGGC-AAGTCAGGCAA
*
18970346 CTTG
63 CTTT
* * * * *** * * *
18970350 GGCAACTCTGGCTTTGGCAACTCTGGAACTTGGGGCAATTCAGGCTTTGGCAACTCCGG-AACTT
1 GGCAATTCAGGCTTTGGCAACTCGGGAACTTTGGGTTCTTCAGGTTTTGGCAAGTCAGGCAACTT
18970414 T
66 T
* * * *
18970415 AGGCAATTCTGGCTTTGGTAACTCAGGAATTTTGGGT
1 -GGCAATTCAGGCTTTGGCAACTCGGGAACTTTGGGT
18970452 ATTTCTGGCT
Statistics
Matches: 237, Mismatches: 54, Indels: 42
0.71 0.16 0.13
Matches are distributed among these distances:
65 8 0.03
66 102 0.43
67 17 0.07
68 13 0.05
69 35 0.15
70 4 0.02
71 1 0.00
72 1 0.00
74 3 0.01
75 53 0.22
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (66 bp):
GGCAATTCAGGCTTTGGCAACTCGGGAACTTTGGGTTCTTCAGGTTTTGGCAAGTCAGGCAACTT
T
Found at i:18970226 original size:75 final size:75
Alignment explanation
Indices: 18970102--18970243 Score: 221
Period size: 75 Copynumber: 1.9 Consensus size: 75
18970092 AACTCGGGAA
* * * * * *
18970102 CTTTGGGTTCTTCAGGTTTTGGTAAGTCAGGCAACTTTGGTAATTCAGGCTTTGGTAGCTCGGGA
1 CTTTGGGTTCTTCAGGTTTTGGCAAGTCAGGCAACTTAGGCAATACAGGCTTCGGTAACTCGGGA
18970167 ACCTCGGGTT
66 ACCTCGGGTT
*
18970177 CTTTGGGTTCTTCAGGTTTTGGCATGTCAGGCAACTTAGGCAATACAGGCTTCGGTAACTCGGGA
1 CTTTGGGTTCTTCAGGTTTTGGCAAGTCAGGCAACTTAGGCAATACAGGCTTCGGTAACTCGGGA
18970242 AC
66 AC
18970244 TTTTGGCAAC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 60 1.00
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.33
Consensus pattern (75 bp):
CTTTGGGTTCTTCAGGTTTTGGCAAGTCAGGCAACTTAGGCAATACAGGCTTCGGTAACTCGGGA
ACCTCGGGTT
Found at i:18970290 original size:18 final size:18
Alignment explanation
Indices: 18970239--18970294 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
18970229 CGGTAACTCG
* *
18970239 GGAACTTTTGGCAACTCA
1 GGAACTTTAGGCAATTCA
* * * *
18970257 GGAGCTTTGGGAAATTCT
1 GGAACTTTAGGCAATTCA
18970275 GGAACTTTAGGCAATTCA
1 GGAACTTTAGGCAATTCA
18970293 GG
1 GG
18970295 CTTCGGCAAC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (18 bp):
GGAACTTTAGGCAATTCA
Found at i:18970370 original size:15 final size:15
Alignment explanation
Indices: 18970350--18970438 Score: 70
Period size: 15 Copynumber: 5.5 Consensus size: 15
18970340 AGGCAACTTG
18970350 GGCAACTCTGGCTTT
1 GGCAACTCTGGCTTT
*
18970365 GGCAACTCTGGAACTTGG
1 GGCAACTCTGG--CTT-T
* *
18970383 GGCAATTCAGGCTTT
1 GGCAACTCTGGCTTT
*
18970398 GGCAACTCCGGAACTTT
1 GGCAACTCTGG--CTTT
*
18970415 AGGCAATTCTGGCTTT
1 -GGCAACTCTGGCTTT
*
18970431 GGTAACTC
1 GGCAACTC
18970439 AGGAATTTTG
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
15 26 0.45
16 7 0.12
17 7 0.12
18 18 0.31
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (15 bp):
GGCAACTCTGGCTTT
Found at i:18970396 original size:33 final size:32
Alignment explanation
Indices: 18970338--18970462 Score: 133
Period size: 33 Copynumber: 3.8 Consensus size: 32
18970328 TTTTTCTAAT
*
18970338 TCAGGCAACTTGGGCAACTCTGGCTTTGGCAAC
1 TCAGG-AACTTGGGCAATTCTGGCTTTGGCAAC
* *
18970371 TCTGGAACTTGGGGCAATTCAGGCTTTGGCAAC
1 TCAGGAACTT-GGGCAATTCTGGCTTTGGCAAC
* * *
18970404 TCCGGAACTTTAGGCAATTCTGGCTTTGGTAAC
1 TCAGGAAC-TTGGGCAATTCTGGCTTTGGCAAC
* * *
18970437 TCAGGAATTTTGGGTATTTCTGGCTT
1 TCAGGAA-CTTGGGCAATTCTGGCTT
18970463 AGGAACATCT
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
32 5 0.06
33 70 0.91
34 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (32 bp):
TCAGGAACTTGGGCAATTCTGGCTTTGGCAAC
Found at i:18978807 original size:119 final size:119
Alignment explanation
Indices: 18978595--18978833 Score: 397
Period size: 119 Copynumber: 2.0 Consensus size: 119
18978585 GAGCCAGCCC
* * *
18978595 TATACCGTTCGATCCACGTCAAGCACCTCGAGGGAGGTAGGCAGAGCGGTCGGCCTCCGTGACGA
1 TATACCGTTCGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAGAGCGATCGGCCTCCGTAACGA
* *
18978660 AGGCGTCACGAGGTTGGGTGCGGGAGAATATCACGGACCTAAGGAATAGGAGGG
66 AGGCGTCACGAGGTTGGGTGAGGAAGAATATCACGGACCTAAGGAATAGGAGGG
*
18978714 TATACCGTTCGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAGGGCGATCGGCCTCCGTAACGA
1 TATACCGTTCGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAGAGCGATCGGCCTCCGTAACGA
* * *
18978779 GGGCGTCACGAGGTTGGGTGATGAAGAATGTCACGGACCTAAGGAATAGGAGGG
66 AGGCGTCACGAGGTTGGGTGAGGAAGAATATCACGGACCTAAGGAATAGGAGGG
18978833 T
1 T
18978834 CAGTGAGGTA
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
119 111 1.00
ACGTcount: A:0.25, C:0.23, G:0.36, T:0.16
Consensus pattern (119 bp):
TATACCGTTCGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAGAGCGATCGGCCTCCGTAACGA
AGGCGTCACGAGGTTGGGTGAGGAAGAATATCACGGACCTAAGGAATAGGAGGG
Found at i:18980046 original size:2 final size:2
Alignment explanation
Indices: 18980039--18980081 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
18980029 TGGTGTGATA
18980039 AT AT AT AT AT 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 AT AT AT AT AT
18980081 A
1 A
18980082 AAACCATTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18985051 original size:53 final size:53
Alignment explanation
Indices: 18984966--18985077 Score: 179
Period size: 53 Copynumber: 2.1 Consensus size: 53
18984956 ATACTGTTCA
*
18984966 TAGGCATTATTGTCATTTAAGACGGAATGGAGTTTAAGTAGCGAAGTGGGAAG
1 TAGGAATTATTGTCATTTAAGACGGAATGGAGTTTAAGTAGCGAAGTGGGAAG
* * * *
18985019 TCGGAATTATTGTCATTTAAGAGGGAATGGAGTTTAAGTAGTGAAGTGTGAAG
1 TAGGAATTATTGTCATTTAAGACGGAATGGAGTTTAAGTAGCGAAGTGGGAAG
18985072 TAGGAA
1 TAGGAA
18985078 GTATGGCTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.33, C:0.05, G:0.32, T:0.29
Consensus pattern (53 bp):
TAGGAATTATTGTCATTTAAGACGGAATGGAGTTTAAGTAGCGAAGTGGGAAG
Found at i:18986107 original size:16 final size:17
Alignment explanation
Indices: 18986068--18986107 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
18986058 AATAATTTTT
18986068 TTATATTTTATAAAAATA
1 TTAT-TTTTATAAAAATA
*
18986086 TCATTTTTATAAAAA-A
1 TTATTTTTATAAAAATA
18986102 TTATTT
1 TTATTT
18986108 AAAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 11 0.55
18 3 0.15
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATTTTTATAAAAATA
Found at i:18986633 original size:27 final size:26
Alignment explanation
Indices: 18986581--18986634 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
18986571 AATAACTAAT
*
18986581 TTAAATAATATTTCAAATTTTATTAA
1 TTAAATAATATTTCAAAATTTATTAA
*
18986607 TTAAATAAATATTAT-AAAATTTGTTAA
1 TTAAAT-AATATT-TCAAAATTTATTAA
18986634 T
1 T
18986635 ATTCAATCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.25
27 17 0.71
28 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
TTAAATAATATTTCAAAATTTATTAA
Found at i:18987355 original size:14 final size:14
Alignment explanation
Indices: 18987316--18987366 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
18987306 AATACTTATA
18987316 AAAATATCAAAAATT
1 AAAATAT-AAAAATT
*
18987331 AAAAAAT-AAAATT
1 AAAATATAAAAATT
* *
18987344 TAAATATAAAAATA
1 AAAATATAAAAATT
18987358 AAAATATAA
1 AAAATATAA
18987367 GGTGTTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 11 0.37
14 13 0.43
15 6 0.20
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:18989173 original size:357 final size:359
Alignment explanation
Indices: 18988741--18989392 Score: 1069
Period size: 357 Copynumber: 1.8 Consensus size: 359
18988731 AAATAGGCTA
* * ** *
18988741 AAAATATAAGAAAGCCTCTAAATTTTATCACTTTATTTAAAATTTTTTTTTATGTTTTTATTTTA
1 AAAACATAAGAAAGCCTCTAAAATTTATCACTTTATTTAAAATAATTCTTTATGTTTTTATTTTA
* * * * *
18988806 TTACAACTAAATAAATTCTTAGCTTTTATTTTGCATTCAAATAAATATTTAAATTTTAA-ATTGT
66 TTACAACTAAATAAATTCTTAACCTTTACTTTGAATTCAAATAAACATTTAAATTTTAATA-TGT
*
18988870 ATTAAAATAAATTTTTATTCTTTAATTTGTACATAAATAAA-CCATTAATGTAAATCAATCTTTT
130 ATTAAAATAAAATTTTATTCTTTAATTTGTACATAAATAAATCC-TTAATGTAAATCAATCTTTT
** *
18988934 ATTTTAAATAAAATATT-TATCACTTTATTTAAATAATTCTTTATGTTTTTATTTTATTACAACT
194 ATTAGAAATAAAAGATTATATCACTTTATTTAAATAATTCTTTATGTTTTTATTTTATTACAACT
*
18988998 AAATAAATTCTTAGCCTTTACTTTGCATTCAAATAAAAATTTGTATTAAAATTAATTATATGAAC
259 AAATAAATTCTTAACCTTTACTTTGCATTCAAATAAAAATTTGTATTAAAATTAATTATATGAAC
18989063 TAACTAAATTAAGTCTTAGATCAAAATATCAAAGCT
324 TAACTAAATTAAGTCTTAGATCAAAATATCAAAGCT
* *
18989099 AAAACATAAGAAAGCCTCTAAAATTTGTCACTTTATTT-TAATAATTCTTTATGTTTTTATTTTA
1 AAAACATAAGAAAGCCTCTAAAATTTATCACTTTATTTAAAATAATTCTTTATGTTTTTATTTTA
*
18989163 TTACAACTAAATAAATTCTTAACCTTTACTTTGAATTCAAATAAACCTTTAAATTTTAATATGTA
66 TTACAACTAAATAAATTCTTAACCTTTACTTTGAATTCAAATAAACATTTAAATTTTAATATGTA
*
18989228 TTAAAATAAAATTTTATTCTTTAATTTGTATATAAATAAATCCTTAATGTAAATCAATCTTTTAT
131 TTAAAATAAAATTTTATTCTTTAATTTGTACATAAATAAATCCTTAATGTAAATCAATCTTTTAT
*
18989293 TAGAAATAAAGGATTATATCACTTTATTTAAATAATTCTTTATGTTTTTATTTTATTACAACTAA
196 TAGAAATAAAAGATTATATCACTTTATTTAAATAATTCTTTATGTTTTTATTTTATTACAACTAA
*
18989358 ATAAATTCTTAACCTTTACTTTGTATTCAAATAAA
261 ATAAATTCTTAACCTTTACTTTGCATTCAAATAAA
18989393 CTTTTAAATT
Statistics
Matches: 270, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
357 150 0.56
358 120 0.44
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (359 bp):
AAAACATAAGAAAGCCTCTAAAATTTATCACTTTATTTAAAATAATTCTTTATGTTTTTATTTTA
TTACAACTAAATAAATTCTTAACCTTTACTTTGAATTCAAATAAACATTTAAATTTTAATATGTA
TTAAAATAAAATTTTATTCTTTAATTTGTACATAAATAAATCCTTAATGTAAATCAATCTTTTAT
TAGAAATAAAAGATTATATCACTTTATTTAAATAATTCTTTATGTTTTTATTTTATTACAACTAA
ATAAATTCTTAACCTTTACTTTGCATTCAAATAAAAATTTGTATTAAAATTAATTATATGAACTA
ACTAAATTAAGTCTTAGATCAAAATATCAAAGCT
Found at i:18989351 original size:185 final size:185
Alignment explanation
Indices: 18989126--18989478 Score: 598
Period size: 185 Copynumber: 1.9 Consensus size: 185
18989116 CTAAAATTTG
*
18989126 TCACTTTATTTTAATAATTCTTTATGTTTTTATTTTATTACAACTAAATAAATTCTTAACCTTTA
1 TCACTTTATTTAAATAATTCTTTATGTTTTTATTTTATTACAACTAAATAAATTCTTAACCTTTA
* *
18989191 CTTTGAATTCAAATAAACCTTTAAATTTTAATATGTATTAAAATAAAATTTTATTCTTTAATTTG
66 CTTTGAATTCAAATAAACCTTTAAATTTTAATATGTATCAAAATAAAATTTTATTCTTTAATATG
* *
18989256 TATATAAATAAATCCTTAATGTAAATCAATCTTTTATTAGAAATAAAGGATTATA
131 TACATAAATAAATCATTAATGTAAATCAATCTTTTATTAGAAATAAAGGATTATA
18989311 TCACTTTATTTAAATAATTCTTTATGTTTTTATTTTATTACAACTAAATAAATTCTTAACCTTTA
1 TCACTTTATTTAAATAATTCTTTATGTTTTTATTTTATTACAACTAAATAAATTCTTAACCTTTA
* * * * * *
18989376 CTTTGTATTCAAATAAACTTTTAAATTTTAATTTGTATCGAAATAAATTTTTATTTTTTAATATG
66 CTTTGAATTCAAATAAACCTTTAAATTTTAATATGTATCAAAATAAAATTTTATTCTTTAATATG
*
18989441 TACATAAATAAATCATTAATGTAAATCATTCTTTTATT
131 TACATAAATAAATCATTAATGTAAATCAATCTTTTATT
18989479 TGATAAGGAC
Statistics
Matches: 156, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
185 156 1.00
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (185 bp):
TCACTTTATTTAAATAATTCTTTATGTTTTTATTTTATTACAACTAAATAAATTCTTAACCTTTA
CTTTGAATTCAAATAAACCTTTAAATTTTAATATGTATCAAAATAAAATTTTATTCTTTAATATG
TACATAAATAAATCATTAATGTAAATCAATCTTTTATTAGAAATAAAGGATTATA
Found at i:18989428 original size:30 final size:30
Alignment explanation
Indices: 18989356--18989442 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
18989346 TATTACAACT
* ** *
18989356 AAATAAATTCTTAACCTTTACTTTGTATTC
1 AAATAAATTTTTAAATTTTAATTTGTATTC
*
18989386 AAATAAACTTTTAAATTTTAATTTGTA-TC
1 AAATAAATTTTTAAATTTTAATTTGTATTC
** *
18989415 GAAATAAATTTTTATTTTTTAATATGTA
1 -AAATAAATTTTTAAATTTTAATTTGTA
18989443 CATAAATAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 2 0.04
30 45 0.96
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (30 bp):
AAATAAATTTTTAAATTTTAATTTGTATTC
Found at i:18989560 original size:29 final size:28
Alignment explanation
Indices: 18989481--18989564 Score: 82
Period size: 29 Copynumber: 3.0 Consensus size: 28
18989471 CTTTTATTTG
* *
18989481 ATAAGGACATATTGAATATAAATTAAAAA
1 ATAAGGATATATTGAA-ATAAAATAAAAA
* *
18989510 ATAAGAAT-TCATTGAAACAAAATAAAAA
1 ATAAGGATAT-ATTGAAATAAAATAAAAA
*
18989538 TATAAGGATATATTTAAATAAAA-AAAA
1 -ATAAGGATATATTGAAATAAAATAAAA
18989565 TTAAGAAACT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
28 15 0.33
29 29 0.64
30 1 0.02
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.26
Consensus pattern (28 bp):
ATAAGGATATATTGAAATAAAATAAAAA
Found at i:18990107 original size:20 final size:20
Alignment explanation
Indices: 18990084--18990121 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18990074 AATTTTAATT
18990084 AAAATCAAATTTAT-TAATAA
1 AAAAT-AAATTTATCTAATAA
*
18990104 AAAATATATTTATCTAAT
1 AAAATAAATTTATCTAAT
18990122 TGAAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATAAATTTATCTAATAA
Found at i:18990412 original size:19 final size:19
Alignment explanation
Indices: 18990388--18990431 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
18990378 CAAACAACCT
*
18990388 TAAATCTCTCATTCCACTA
1 TAAATCTCCCATTCCACTA
18990407 TAAATCTCCCATTCCACTA
1 TAAATCTCCCATTCCACTA
18990426 TAAATC
1 TAAATC
18990432 ATTTTACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAATCTCCCATTCCACTA
Found at i:18990588 original size:18 final size:17
Alignment explanation
Indices: 18990555--18990588 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
18990545 ATAAATTAAA
*
18990555 ATTTTAATTATTTTTTT
1 ATTTTAATTATCTTTTT
18990572 ATTTTAACTTATCTTTT
1 ATTTTAA-TTATCTTTT
18990589 CCACTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTAATTATCTTTTT
Found at i:18990835 original size:17 final size:16
Alignment explanation
Indices: 18990801--18990831 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18990791 AAATTATATA
18990801 AATTTTAAAAAATAAT
1 AATTTTAAAAAATAAT
*
18990817 AATTTTAATAAATAA
1 AATTTTAAAAAATAA
18990832 ATAAATTCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTTTAAAAAATAAT
Found at i:18990897 original size:15 final size:16
Alignment explanation
Indices: 18990875--18990911 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
18990865 AAATATAAAA
18990875 TAAA-ATAATATT-TT
1 TAAATATAATATTATT
18990889 TAAATATAATATTATT
1 TAAATATAATATTATT
*
18990905 TTAATAT
1 TAAATAT
18990912 TATTTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 4 0.20
15 8 0.40
16 8 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TAAATATAATATTATT
Found at i:18990899 original size:18 final size:18
Alignment explanation
Indices: 18990872--18990906 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18990862 ATTAAATATA
18990872 AAATAAAATAATATTTTT
1 AAATAAAATAATATTTTT
* *
18990890 AAATATAATATTATTTT
1 AAATAAAATAATATTTT
18990907 AATATTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATAAAATAATATTTTT
Found at i:18990911 original size:11 final size:12
Alignment explanation
Indices: 18990893--18990931 Score: 62
Period size: 11 Copynumber: 3.2 Consensus size: 12
18990883 TATTTTTAAA
18990893 TATAATATTATT
1 TATAATATTATT
18990905 T-TAATATTATT
1 TATAATATTATT
18990916 TATAATATTATAT
1 TATAATATTAT-T
18990929 TAT
1 TAT
18990932 TTTATCTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.44
12 10 0.40
13 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TATAATATTATT
Found at i:18990928 original size:28 final size:26
Alignment explanation
Indices: 18990880--18990935 Score: 85
Period size: 28 Copynumber: 2.1 Consensus size: 26
18990870 TAAAATAAAA
18990880 TAATATTTTTAAATATAATATTATTT
1 TAATATTTTTAAATATAATATTATTT
*
18990906 TAATATTATTTATAATATTATATTATTT
1 TAATATT-TTTA-AATATAATATTATTT
18990934 TA
1 TA
18990936 TCTTATCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 7 0.26
27 4 0.15
28 16 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
TAATATTTTTAAATATAATATTATTT
Found at i:18998398 original size:368 final size:370
Alignment explanation
Indices: 18997682--18998416 Score: 1237
Period size: 368 Copynumber: 2.0 Consensus size: 370
18997672 TTTTAGGTTC
* * *
18997682 AAGTCTCATCATTTGTGGATTTCATTCAATTTTATATTGAATTTTTCTAGTTATGTACTAATGGG
1 AAGTCTCATCATTCGTGGATTTCATTCAATTTTATATGGAATTTATCTAG-T-TGTACTAATGGG
* *
18997747 TTTGGTGGTTTGTTTGTTTCATTTAATTCATTGATTTCTTATATGAAATGTAATACTTGATTATA
64 TTCGGTGGTTTGTTTGTTTCATTTAATTCATTGATTTCTTATATGAAATGTAATACTTGAATATA
*
18997812 ATTTTTTTACTAGTAATTTCATAAAAAAATGAAAACATAAAATGGGACATGGATAAAACAAAATT
129 AATTTTTTACTAGTAATTTCATAAAAAAATGAAAACATAAAATGGGACATGGATAAAACAAAATT
* * *
18997877 CAATCTGATCCTCACATTCAAACTGTGAAACAAAAAGGGGCCATGCATGGTAGAGACATTTATGT
194 CAATCTGATCCTAACATTCAAACTGTGAAACAAAAAGGGGCCATGCATAGCAGAGACATTTATGT
* *
18997942 TTGGCATCCCTAAGTTAATTAAGAATATTTAAGATTAATCTAAAATCAATAAAGGTAATTACTTT
259 TTGGCATCCCTAAGTTAATTAAGAATATTTAAGATTAATCTAAAATCAAGAAAGGTAATTACCTT
18998007 TTAGAAACTTTTTAATTGTGCATAAAACAGGTTCAAGTAATGGATAA
324 TTAGAAACTTTTTAATTGTGCATAAAACAGGTTCAAGTAATGGATAA
*
18998054 AAGTCTCATCATTCGTGGATTTGATTCAATTTTATATGGAATTTATCTAG-T-TA-T-ATGGGTT
1 AAGTCTCATCATTCGTGGATTTCATTCAATTTTATATGGAATTTATCTAGTTGTACTAATGGGTT
18998115 CGGTGGTTTGTTTGTTTCATTTAATTCATTGATTTCTTATATGAAATGTAATACTTGAATATAAA
66 CGGTGGTTTGTTTGTTTCATTTAATTCATTGATTTCTTATATGAAATGTAATACTTGAATATAAA
*
18998180 TTTTTTACTAGTAATTTCATAAAAAAATG-AAGCTATAAAATGGGACATGGATAAAACAAAATTC
131 TTTTTTACTAGTAATTTCATAAAAAAATGAAAAC-ATAAAATGGGACATGGATAAAACAAAATTC
* * *
18998244 AATTTGATTCTTAAACATTCAAACTGTGAAACAAAATGGGGCCATGCATAGCAGAGACATTTATG
195 AATCTGA-TCCT-AACATTCAAACTGTGAAACAAAAAGGGGCCATGCATAGCAGAGACATTTATG
18998309 TTTGGCATCCCTAAGTTAATTAAGAATATTTAAGATTAATCTAAAATCAAGAAAGGTAATTACCT
258 TTTGGCATCCCTAAGTTAATTAAGAATATTTAAGATTAATCTAAAATCAAGAAAGGTAATTACCT
*
18998374 TTTAGGAACTTTTTAATTGTGCATAAAACAGGTTCAAGTAATG
323 TTTAGAAACTTTTTAATTGTGCATAAAACAGGTTCAAGTAATG
18998417 TTTTAAAATT
Statistics
Matches: 343, Mismatches: 17, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
365 3 0.01
366 134 0.39
367 4 0.01
368 155 0.45
369 1 0.00
372 46 0.13
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (370 bp):
AAGTCTCATCATTCGTGGATTTCATTCAATTTTATATGGAATTTATCTAGTTGTACTAATGGGTT
CGGTGGTTTGTTTGTTTCATTTAATTCATTGATTTCTTATATGAAATGTAATACTTGAATATAAA
TTTTTTACTAGTAATTTCATAAAAAAATGAAAACATAAAATGGGACATGGATAAAACAAAATTCA
ATCTGATCCTAACATTCAAACTGTGAAACAAAAAGGGGCCATGCATAGCAGAGACATTTATGTTT
GGCATCCCTAAGTTAATTAAGAATATTTAAGATTAATCTAAAATCAAGAAAGGTAATTACCTTTT
AGAAACTTTTTAATTGTGCATAAAACAGGTTCAAGTAATGGATAA
Found at i:19005546 original size:11 final size:11
Alignment explanation
Indices: 19005530--19005554 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19005520 CATTCTAAAC
19005530 ATGTAACATTT
1 ATGTAACATTT
19005541 ATGTAACATTT
1 ATGTAACATTT
19005552 ATG
1 ATG
19005555 AGATATGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (11 bp):
ATGTAACATTT
Found at i:19005939 original size:18 final size:18
Alignment explanation
Indices: 19005916--19005951 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19005906 AACGATAGTC
19005916 TAATTCATGATTCTCGCA
1 TAATTCATGATTCTCGCA
19005934 TAATTCATGATTCTCGCA
1 TAATTCATGATTCTCGCA
19005952 CTGACAAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (18 bp):
TAATTCATGATTCTCGCA
Found at i:19009651 original size:11 final size:11
Alignment explanation
Indices: 19009637--19009710 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
19009627 AATATTCTAG
19009637 ATTGATTTGAT
1 ATTGATTTGAT
*
19009648 ATTGATTTAGAG
1 ATTGATTT-GAT
* *
19009660 AAT-ATTAGAT
1 ATTGATTTGAT
*
19009670 ATTGATTTGAA
1 ATTGATTTGAT
*
19009681 ATTGATTTAGAG
1 ATTGATTT-GAT
* *
19009693 AAT-ATTAGAT
1 ATTGATTTGAT
19009703 ATTGATTT
1 ATTGATTT
19009711 AGTTGATAAT
Statistics
Matches: 46, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
10 8 0.17
11 30 0.65
12 8 0.17
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (11 bp):
ATTGATTTGAT
Found at i:19009664 original size:33 final size:33
Alignment explanation
Indices: 19009635--19009710 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
19009625 GTAATATTCT
*
19009635 AGATTGATTTGATATTGATTTAGAGAATATTAG
1 AGATTGATTTGAAATTGATTTAGAGAATATTAG
*
19009668 ATATTGATTTGAAATTGATTTAGAGAATATTAG
1 AGATTGATTTGAAATTGATTTAGAGAATATTAG
*
19009701 ATATTGATTT
1 AGATTGATTT
19009711 AGTTGATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (33 bp):
AGATTGATTTGAAATTGATTTAGAGAATATTAG
Found at i:19015509 original size:29 final size:30
Alignment explanation
Indices: 19015452--19015523 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
19015442 ATATATATTT
*
19015452 TATTATTTATATTTATTATATTAATAAAAA
1 TATTATTTATATTTATAATATTAATAAAAA
19015482 TATTATTTAATATTT-TAAT-TTAATAAAAA
1 TATTATTT-ATATTTATAATATTAATAAAAA
19015511 -ACTATATTTATAT
1 TA-T-TATTTATAT
19015524 ATAATTAAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
28 1 0.03
29 15 0.39
30 16 0.42
31 6 0.16
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (30 bp):
TATTATTTATATTTATAATATTAATAAAAA
Found at i:19016156 original size:23 final size:24
Alignment explanation
Indices: 19016130--19016174 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
19016120 TTTGCCTTTA
*
19016130 ATTTGTATTTG-TATTTTTAAAAT
1 ATTTGTATTAGTTATTTTTAAAAT
*
19016153 ATTTTTATTAGTTATTTTTAAA
1 ATTTGTATTAGTTATTTTTAAA
19016175 GAAATAGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (24 bp):
ATTTGTATTAGTTATTTTTAAAAT
Found at i:19020451 original size:227 final size:227
Alignment explanation
Indices: 19020050--19020505 Score: 849
Period size: 227 Copynumber: 2.0 Consensus size: 227
19020040 GTAAATGAAC
* * *
19020050 TCTAACTAAATTATGTCACCCTTTATAGCTGACTGTTTGCCTCATAACCTCGTATCTGTGTCGAT
1 TCTAACTAAATTATATCACCCTTTATAGCTGACTGCTTGCCTCATAACCTCGTATCTGTGTCAAT
*
19020115 TTTTTATTGTGCCATCTCAAAGAAATTGTCTTCAACTTCTATGTTTCCGATAGGAATTGTTTTAG
66 TTTTTATTGTGCCATCTCAAAGAAATTGTCTTCAACTTCTATGTTTCCAATAGGAATTGTTTTAG
*
19020180 AGGAAGCTCTGATCTCGTTTACTGATTGTTCTTTCTCATCAATAAATTTTGAACTAGGATATTCT
131 AGGAAGCTCTGATCTCATTTACTGATTGTTCTTTCTCATCAATAAATTTTGAACTAGGATATTCT
19020245 TAATTGCTGCAGCCATTGAGTTGTTGAAGTTT
196 TAATTGCTGCAGCCATTGAGTTGTTGAAGTTT
*
19020277 TCTAATTAAATTATATCACCCTTTATAGCTGACTGCTTGCCTCATAACCTCGTATCTGTGTCAAT
1 TCTAACTAAATTATATCACCCTTTATAGCTGACTGCTTGCCTCATAACCTCGTATCTGTGTCAAT
*
19020342 TTTTTATTGTGCCATCTCAAAGAAATTGTCTTCAACTTCTCTGTTTCCAATAGGAATTGTTTTAG
66 TTTTTATTGTGCCATCTCAAAGAAATTGTCTTCAACTTCTATGTTTCCAATAGGAATTGTTTTAG
19020407 AGGAAGCTCTGATCTCATTTACTGATTGTTCTTTCTCATCAATAAATTTTGAACTAGGATATTCT
131 AGGAAGCTCTGATCTCATTTACTGATTGTTCTTTCTCATCAATAAATTTTGAACTAGGATATTCT
19020472 TAATTGCTGCAGCCATTGAGTTGTTGAAGTTT
196 TAATTGCTGCAGCCATTGAGTTGTTGAAGTTT
19020504 TC
1 TC
19020506 AGTTTGTGAT
Statistics
Matches: 222, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
227 222 1.00
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.41
Consensus pattern (227 bp):
TCTAACTAAATTATATCACCCTTTATAGCTGACTGCTTGCCTCATAACCTCGTATCTGTGTCAAT
TTTTTATTGTGCCATCTCAAAGAAATTGTCTTCAACTTCTATGTTTCCAATAGGAATTGTTTTAG
AGGAAGCTCTGATCTCATTTACTGATTGTTCTTTCTCATCAATAAATTTTGAACTAGGATATTCT
TAATTGCTGCAGCCATTGAGTTGTTGAAGTTT
Found at i:19036562 original size:28 final size:30
Alignment explanation
Indices: 19036524--19036599 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 30
19036514 TAATAAAATA
*
19036524 TTTAATTTAATATTTAAATTA-AAAGTT-T
1 TTTAATATAATATTTAAATTATAAAGTTAT
* *
19036552 TTTAATATAATATTTTAATTATAAATTTAT
1 TTTAATATAATATTTAAATTATAAAGTTAT
*
19036582 TGATTAATGTAATATTTA
1 T--TTAATATAATATTTA
19036600 TAAAATTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 19 0.49
29 5 0.13
30 2 0.05
32 13 0.33
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (30 bp):
TTTAATATAATATTTAAATTATAAAGTTAT
Found at i:19042219 original size:38 final size:38
Alignment explanation
Indices: 19042158--19042234 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
19042148 TATGAAAGTC
* * *
19042158 TTACTTTGGAATTTTAGAGGTGCAGGAAGTGAGGATTT
1 TTACCTTGGAATTTTAGAAGTGCAGGAAGCGAGGATTT
19042196 TTACCTTGGAATTTTAGAAGTGCAGGAAGCGAGGATTT
1 TTACCTTGGAATTTTAGAAGTGCAGGAAGCGAGGATTT
19042234 T
1 T
19042235 GTAAGAACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.27, C:0.08, G:0.30, T:0.35
Consensus pattern (38 bp):
TTACCTTGGAATTTTAGAAGTGCAGGAAGCGAGGATTT
Found at i:19051895 original size:12 final size:12
Alignment explanation
Indices: 19051878--19051903 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19051868 GAAGCATTCA
19051878 AAATTTTGAATT
1 AAATTTTGAATT
19051890 AAATTTTGAATT
1 AAATTTTGAATT
19051902 AA
1 AA
19051904 CTCCATAAAA
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (12 bp):
AAATTTTGAATT
Found at i:19055303 original size:13 final size:13
Alignment explanation
Indices: 19055285--19055309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19055275 TTTGGTACAA
19055285 TTTCAATAATATC
1 TTTCAATAATATC
19055298 TTTCAATAATAT
1 TTTCAATAATAT
19055310 TTTAGCAAAT
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:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTCAATAATATC
Found at i:19060818 original size:2 final size:2
Alignment explanation
Indices: 19060811--19060840 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19060801 AATTTATTTA
19060811 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
19060841 TTGAGGGTTT
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:19062595 original size:60 final size:59
Alignment explanation
Indices: 19062404--19062940 Score: 503
Period size: 61 Copynumber: 9.0 Consensus size: 59
19062394 TGCTTTTGTA
* * * *
19062404 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAAAAACCTTTTTT-AGAAAA-TTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTC-T-CAAAAATA-TTTTTTTGA-AAAACTTATTTT
* * * *
19062465 CAA-AGAAAATTGATAATTTCAACTTTTCCTCGAAAATA-TTTTTTAAAAAACTTATTTT
1 CAAGA-AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAAACTTATTTT
*
19062523 CAAGAAAAATTGATATTTTCAACTTTTTCTCAAAAATATTTTTTTGGAAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTT-GAAAAACTTATTTT
* * * *
19062583 CAAGAAAAATTGATACTTTCAACTTATCCTTAAAAAATATTTTTTCG-AAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTC-TCAAAAATATTTTTTTGAAAAACTTATTTT
19062642 CAA-AGAAAATTGATACTTTCAAC-TTTTCTTCAAAAAT-TTTTTTTGGAAAAACTTATTTT
1 CAAGA-AAAATTGATACTTTCAACTTTTTC-TCAAAAATATTTTTTT-GAAAAACTTATTTT
* * * *
19062701 CAAGAAAAATTGATACTTTTAACTTCTCCTCAAAAAAATATTTTTT-AGAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATAT-TTTTTTGA-AAAACTTATTTT
* * *
19062761 CAAGGAAAATTGATACTTTCAAC-TTTTCTTCAAAAATA-TTTTTT-AAAAATTTTTATTT
1 CAAGAAAAATTGATACTTTCAACTTTTTC-TCAAAAATATTTTTTTGAAAAACTTAT-TTT
* * * * ** *
19062819 AAAAAAAAATTGATACTTTCAATTTTTTTTTTTCAAAAATA-TTTTTT-AAAATTTTTACTTT
1 CAAGAAAAATTGATACTTTCAA---CTTTTTCTCAAAAATATTTTTTTGAAAA-ACTTATTTT
* *
19062880 CAA-AGAAAATTGATACTTTCAAC-TTTTCTTCAAAAATATATATTTTTTAAAAATTTATTTT
1 CAAGA-AAAATTGATACTTTCAACTTTTTC-TCAAAAATAT-T-TTTTTGAAAAACTTATTTT
19062941 AAAAGAATCA
Statistics
Matches: 407, Mismatches: 41, Indels: 56
0.81 0.08 0.11
Matches are distributed among these distances:
57 27 0.07
58 92 0.23
59 88 0.22
60 90 0.22
61 99 0.24
62 11 0.03
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (59 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGAAAAACTTATTTT
Found at i:19062604 original size:118 final size:117
Alignment explanation
Indices: 19062404--19062940 Score: 597
Period size: 119 Copynumber: 4.5 Consensus size: 117
19062394 TGCTTTTGTA
* * *
19062404 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAAAAACCTTTTTT-AGAAAA-TTATTTTCA
1 CAAGAAAAATTGATACTTTCAACTTTT-CTT-CAAAAATA-TTTTTTTGA-AAAACTTATTTTCA
* *
19062467 A-AGAAAATTGATAATTTCAACTTTTCCTCGAAAATATTTTTTAAAAAACTTATTTT
62 AGA-AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTT
*
19062523 CAAGAAAAATTGATATTTTCAACTTTT-TCTCAAAAATATTTTTTTGGAAAAACTTATTTTCAAG
1 CAAGAAAAATTGATACTTTCAACTTTTCT-TCAAAAATATTTTTTT-GAAAAACTTATTTTCAAG
* * **
19062587 AAAAATTGATACTTTCAACTTATCCTTAAAAAATATTTTTTCGAAAACTTATTTT
64 AAAAATTGATACTTTCAACTTTTCC-TCAAAAATATTTTTTAAAAAACTTATTTT
19062642 CAA-AGAAAATTGATACTTTCAACTTTTCTTCAAAAAT-TTTTTTTGGAAAAACTTATTTTCAAG
1 CAAGA-AAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTT-GAAAAACTTATTTTCAAG
* * *
19062705 AAAAATTGATACTTTTAACTTCTCCTCAAAAAAATATTTTTTAGAAAACTTATTTT
64 AAAAATTGATACTTTCAACTTTTCCTC--AAAAATATTTTTTAAAAAACTTATTTT
* * * * *
19062761 CAAGGAAAATTGATACTTTCAACTTTTCTTCAAAAATA-TTTTTT-AAAAATTTTTATTTAAAAA
1 CAAGAAAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTGAAAAACTTAT-TTTCAAGA
* ** *** *
19062824 AAAATTGATACTTTCAATTTTTTTTTTTCAAAAATATTTTTTAAAATTTTTACTTT
65 AAAATTGATACTTTCAA---CTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTT
* *
19062880 CAA-AGAAAATTGATACTTTCAACTTTTCTTCAAAAATATATATTTTTTAAAAATTTATTTT
1 CAAGA-AAAATTGATACTTTCAACTTTTCTTCAAAAATAT-T-TTTTTGAAAAACTTATTTT
19062941 AAAAGAATCA
Statistics
Matches: 365, Mismatches: 32, Indels: 39
0.84 0.07 0.09
Matches are distributed among these distances:
116 6 0.02
117 20 0.05
118 106 0.29
119 209 0.57
120 1 0.00
121 6 0.02
122 8 0.02
123 9 0.02
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (117 bp):
CAAGAAAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTTGAAAAACTTATTTTCAAGAA
AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTT
Found at i:19062857 original size:33 final size:33
Alignment explanation
Indices: 19062810--19062906 Score: 80
Period size: 33 Copynumber: 3.1 Consensus size: 33
19062800 TTTTTAAAAA
* *
19062810 TTTTTATTTAAAAAAAAATTGATACTTTCAATT
1 TTTTTATTTCAAAAAAAATTGATACTTTCAAAT
* * *
19062843 TTTTTTTTTC-AAAAATATT--T--TTT-AAAA
1 TTTTTATTTCAAAAAAAATTGATACTTTCAAAT
* *
19062870 TTTTTACTTTCAAAGAAAATTGATACTTTCAACT
1 TTTTTA-TTTCAAAAAAAATTGATACTTTCAAAT
19062904 TTT
1 TTT
19062907 CTTCAAAAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 13
0.67 0.14 0.19
Matches are distributed among these distances:
27 7 0.15
28 7 0.15
29 7 0.15
30 1 0.02
31 1 0.02
32 8 0.17
33 11 0.23
34 5 0.11
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (33 bp):
TTTTTATTTCAAAAAAAATTGATACTTTCAAAT
Found at i:19064929 original size:42 final size:42
Alignment explanation
Indices: 19064868--19065292 Score: 325
Period size: 42 Copynumber: 10.0 Consensus size: 42
19064858 AAACAAAGGT
* *
19064868 TCCTCTAAGCAGAGGCTCAACGACTTTGAAAAAATAAATTGC
1 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATAGC
* * * ** * *
19064910 TTCTCTAAATAGAGGCTCAACAACTTAAAAAAAACAAACAAAGC
1 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAAA-TAA-ATAGC
19064954 TCCTCTAAACAGAGGCTCAACGACTTTGGAAAAAATAAATAAAGC
1 TCCTCTAAACAGAGGCTCAACGACTTT-GAAAAAATAAAT--AGC
* *
19064999 TCCTCTAAACAGAGACTCAACGACTTTG-AAAAATAAACAAAGC
1 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAAAT-AA-ATAGC
* * * *
19065042 TCCTCTAAACAAAGGCTCAACGACTTTG-GAAAATAAATGGT
1 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATAGC
* * *
19065083 TCTTCTAATA-AAAGGCTTAACGACTTTG-AAAAATAAATAAAGC
1 TCCTCTAA-ACAGAGGCTCAACGACTTTGAAAAAATAAAT--AGC
*
19065126 TCCTCT-AACAGAGGCTCAACAACTTTG-AAAAATAAAT-GC
1 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATAGC
* * * * * * * *
19065165 TCTTTTAAACAGAGGCACCACAACTTT-AGAAATTAAATTGC
1 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATAGC
* * * * *
19065206 TCTTCTAAATAGAGG-T-AATAGAACTTTTAAAAAATAAATGGC
1 TCCTCTAAACAGAGGCTCAA-CG-ACTTTGAAAAAATAAATAGC
* *
19065248 TCCTCTAAATAGAGG--CAACAGAACTTTTGAAAAAATAAATGGC
1 TCCTCTAAACAGAGGCTCAAC-G-AC-TTTGAAAAAATAAATAGC
19065291 TC
1 TC
19065293 ATTAACAATC
Statistics
Matches: 312, Mismatches: 51, Indels: 39
0.78 0.13 0.10
Matches are distributed among these distances:
39 7 0.02
40 26 0.08
41 56 0.18
42 88 0.28
43 68 0.22
44 31 0.10
45 36 0.12
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.24
Consensus pattern (42 bp):
TCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATAGC
Found at i:19065032 original size:43 final size:43
Alignment explanation
Indices: 19064838--19065162 Score: 338
Period size: 45 Copynumber: 7.5 Consensus size: 43
19064828 ACGATAAAGA
* * * * *
19064838 CTCAACAACTTTAAAAAAATAAACAAAGGTTCCTCTAAGCAGAGG
1 CTCAACGACTTT-GAAAAATAAATAAA-GCTCCTCTAAACAGAGG
* * *
19064883 CTCAACGACTTTGAAAAAATAAAT--TGCTTCTCTAAATAGAGG
1 CTCAACGACTTTG-AAAAATAAATAAAGCTCCTCTAAACAGAGG
* ** * *
19064925 CTCAACAACTTAAAAAAAACAAACAAAGCTCCTCTAAACAGAGG
1 CTCAACGACTT-TGAAAAATAAATAAAGCTCCTCTAAACAGAGG
*
19064969 CTCAACGACTTTGGAAAAAATAAATAAAGCTCCTCTAAACAGAGA
1 CTCAACGACTTT-G-AAAAATAAATAAAGCTCCTCTAAACAGAGG
* *
19065014 CTCAACGACTTTGAAAAATAAACAAAGCTCCTCTAAACAAAGG
1 CTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAAACAGAGG
* * * * *
19065057 CTCAACGACTTTGGAAAATAAAT--GGTTCTTCTAATA-AAAGG
1 CTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAA-ACAGAGG
*
19065098 CTTAACGACTTTGAAAAATAAATAAAGCTCCTCT-AACAGAGG
1 CTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAAACAGAGG
*
19065140 CTCAACAACTTTGAAAAATAAAT
1 CTCAACGACTTTGAAAAATAAAT
19065163 GCTCTTTTAA
Statistics
Matches: 232, Mismatches: 38, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
41 35 0.15
42 58 0.25
43 54 0.23
44 26 0.11
45 59 0.25
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.22
Consensus pattern (43 bp):
CTCAACGACTTTGAAAAATAAATAAAGCTCCTCTAAACAGAGG
Found at i:19065210 original size:123 final size:128
Alignment explanation
Indices: 19064833--19065213 Score: 328
Period size: 131 Copynumber: 3.0 Consensus size: 128
19064823 GCTCAACGAT
* * * * * * * *
19064833 AAAGACTCAACAACTTT-AAAAAAATAAACAAAGGTTCCTCTAAGCAGAGGCTCAACGACTTTGA
1 AAAGGCTCAACGACTTTGGAAAAAATAAATAAA-GCTCCTCTAAACAGAGACTCAACAACTTTG-
** * * * * * * * ** *
19064897 AAAAATAA-ATTGCTTCTCTAAATAGAGGCTCAACAACTTAAAAAAAACAAACAAAGCTCCTCTA
64 AAAAATAACAAAGCTCCTCTAAACAAAGGCACAACAACTT-TAGAAAA-TAA-ATGGCTCTTCTA
19064961 A-A
126 ATA
* *
19064963 CAGAGGCTCAACGACTTTGGAAAAAATAAATAAAGCTCCTCTAAACAGAGACTCAACGACTTTGA
1 -AAAGGCTCAACGACTTTGGAAAAAATAAATAAAGCTCCTCTAAACAGAGACTCAACAACTTTGA
* * * *
19065028 AAAATAAACAAAGCTCCTCTAAACAAAGGCTCAACGACTTTGGAAAATAAATGGTTCTTCTAATA
65 AAAAT-AACAAAGCTCCTCTAAACAAAGGCACAACAACTTTAGAAAATAAATGGCTCTTCTAATA
* *
19065093 AAAGGCTTAACGACTTT-G-AAAAATAAATAAAGCTCCTCT-AACAGAGGCTCAACAACTTTGAA
1 AAAGGCTCAACGACTTTGGAAAAAATAAATAAAGCTCCTCTAAACAGAGACTCAACAACTTTGAA
* * * * * * *
19065155 AAAT-A-AATGCTCTTTTAAACAGAGGCACCACAACTTTAGAAATTAAATTGCTCTTCTAA
66 AAATAACAAAGCTCCTCTAAACAAAGGCACAACAACTTTAGAAAATAAATGGCTCTTCTAA
19065214 ATAGAGGTAA
Statistics
Matches: 209, Mismatches: 37, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
123 43 0.21
124 1 0.00
126 25 0.12
127 21 0.10
128 1 0.00
129 24 0.11
130 9 0.04
131 47 0.22
132 38 0.18
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.23
Consensus pattern (128 bp):
AAAGGCTCAACGACTTTGGAAAAAATAAATAAAGCTCCTCTAAACAGAGACTCAACAACTTTGAA
AAATAACAAAGCTCCTCTAAACAAAGGCACAACAACTTTAGAAAATAAATGGCTCTTCTAATA
Found at i:19065232 original size:123 final size:126
Alignment explanation
Indices: 19064845--19065261 Score: 296
Period size: 123 Copynumber: 3.3 Consensus size: 126
19064835 AGACTCAACA
* * * * * * **
19064845 ACTTTAAAAAAATAAACAAAGGTTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAAATAA-ATTG
1 ACTTTTAAAAAATAAATAAA-GCTCCTCTAAACAGAGACTCAACAACTTTG-AAAAATAACAAAG
* * * * * * * ** * *
19064909 CTTCTCTAAATAGAGGCTCAACAACTTAAAAAAAACAAACAAAGCTCCTCTAA-ACAGAGGCTCA
64 CTCCTCTAAACAAAGGCACAACAACTT-TAGAAAA-TAA-ATGGCTCTTCTAATA-AAAGGCT-A
*
19064973 ACG
124 AAG
* *
19064976 ACTTTGGAAAAAATAAATAAAGCTCCTCTAAACAGAGACTCAACGACTTTGAAAAATAAACAAAG
1 ACTTT-TAAAAAATAAATAAAGCTCCTCTAAACAGAGACTCAACAACTTTGAAAAAT-AACAAAG
* * * * *
19065041 CTCCTCTAAACAAAGGCTCAACGACTTTGGAAAATAAATGGTTCTTCTAATAAAAGGCTTAACG
64 CTCCTCTAAACAAAGGCACAACAACTTTAGAAAATAAATGGCTCTTCTAATAAAAGGC-TAAAG
* * *
19065105 AC-TTTGAAAAATAAATAAAGCTCCTCT-AACAGAGGCTCAACAACTTTGAAAAAT-A-AATGCT
1 ACTTTTAAAAAATAAATAAAGCTCCTCTAAACAGAGACTCAACAACTTTGAAAAATAACAAAGCT
* * * * * * *
19065166 CTTTTAAACAGAGGCACCACAACTTTAGAAATTAAATTGCTCTTCTAA-ATAGAGG-TAATAG
66 CCTCTAAACAAAGGCACAACAACTTTAGAAAATAAATGGCTCTTCTAATA-AAAGGCTAA-AG
* *
19065227 AACTTTTAAAAAATAAAT--GGCTCCTCTAAATAGAG
1 -ACTTTTAAAAAATAAATAAAGCTCCTCTAAACAGAG
19065262 GCAACAGAAC
Statistics
Matches: 236, Mismatches: 40, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
121 3 0.01
122 10 0.04
123 55 0.23
124 14 0.06
126 25 0.11
127 21 0.09
128 2 0.01
129 20 0.08
130 10 0.04
131 38 0.16
132 38 0.16
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.24
Consensus pattern (126 bp):
ACTTTTAAAAAATAAATAAAGCTCCTCTAAACAGAGACTCAACAACTTTGAAAAATAACAAAGCT
CCTCTAAACAAAGGCACAACAACTTTAGAAAATAAATGGCTCTTCTAATAAAAGGCTAAAG
Found at i:19065583 original size:20 final size:20
Alignment explanation
Indices: 19065555--19065610 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
19065545 CCAAAAATTC
19065555 AAAGCTTCTCATTCAAGCTCA
1 AAAG-TTCTCATTCAAGCTCA
19065576 AAAGTTCTCATTCAAGCTCA
1 AAAGTTCTCATTCAAGCTCA
19065596 AAAGTTCTCATTCAA
1 AAAGTTCTCATTCAA
19065611 TAAACTTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 31 0.89
21 4 0.11
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (20 bp):
AAAGTTCTCATTCAAGCTCA
Found at i:19065931 original size:21 final size:22
Alignment explanation
Indices: 19065905--19065954 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
19065895 TTAAAACTTT
*
19065905 AAGATTTTTC-TTTGAAATTCA
1 AAGATTTTTCATTTAAAATTCA
*
19065926 AAGA-TTCTCATTTAAAATTCA
1 AAGATTTTTCATTTAAAATTCA
*
19065947 AAAATTTT
1 AAGATTTT
19065955 ATCAAAAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 4 0.17
21 17 0.74
22 2 0.09
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (22 bp):
AAGATTTTTCATTTAAAATTCA
Found at i:19066451 original size:63 final size:63
Alignment explanation
Indices: 19066356--19066542 Score: 284
Period size: 63 Copynumber: 3.0 Consensus size: 63
19066346 GCTTATCAGC
* * * *
19066356 ACTAACCATTTCAAAATAAGTTTAATCTTCTGTCACTTGGTCATCGTTCATAAGCTTCTCAAT
1 ACTAGCCATTTCAAAATAAATTTCATCATCTGTCACTTGGTCATCGTTCATAAGCTTCTCAAT
* * *
19066419 ACTAGTCATTTTAAAATAAATTTCATCATCTGTCGCTTGGTCATCGTTCATAAGCTTCTCAAT
1 ACTAGCCATTTCAAAATAAATTTCATCATCTGTCACTTGGTCATCGTTCATAAGCTTCTCAAT
* * *
19066482 ACTAGCCATTTCAAAATAAATTTCATCATCTATCACTTGGTTATCTTTCATAAGCTTCTCA
1 ACTAGCCATTTCAAAATAAATTTCATCATCTGTCACTTGGTCATCGTTCATAAGCTTCTCA
19066543 GCACCAGTTT
Statistics
Matches: 111, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 111 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (63 bp):
ACTAGCCATTTCAAAATAAATTTCATCATCTGTCACTTGGTCATCGTTCATAAGCTTCTCAAT
Found at i:19067253 original size:21 final size:20
Alignment explanation
Indices: 19067229--19067282 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
19067219 AATTTGAATC
19067229 TTTTTTTTTTTAATTTTCTTA
1 TTTTTTTTTTT-ATTTTCTTA
* * *
19067250 TTTTTTTCCTCTATTTTTTTA
1 TTTTTTT-TTTTATTTTCTTA
19067271 TTTTTTATTTTT
1 TTTTTT-TTTTT
19067283 TCATCATCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTTTTTTATTTTCTTA
Found at i:19067297 original size:28 final size:28
Alignment explanation
Indices: 19067233--19067304 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 28
19067223 TGAATCTTTT
*
19067233 TTTTTTTAATTTTCTTATTTTTTTCCTCTA
1 TTTTTTT-ATTTT-TTATTTTTTTCATCTA
19067263 TTTTTTTATTTTTTA-TTTTTTCATC-A
1 TTTTTTTATTTTTTATTTTTTTCATCTA
*
19067289 TCTTCTTTTCTTTTTT
1 T-TT-TTTTATTTTTT
19067305 CTCATTTGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 2 0.05
27 11 0.29
28 13 0.34
29 5 0.13
30 7 0.18
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.76
Consensus pattern (28 bp):
TTTTTTTATTTTTTATTTTTTTCATCTA
Found at i:19070406 original size:20 final size:21
Alignment explanation
Indices: 19070383--19070428 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
19070373 TTTTTATTCC
*
19070383 TTTTTTATATAT-TTTTTTAT
1 TTTTTTATATATCATTTTTAT
* *
19070403 TTTTGTATTTATCATTTTTAT
1 TTTTTTATATATCATTTTTAT
19070424 TTTTT
1 TTTTT
19070429 ATGGTCTATC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (21 bp):
TTTTTTATATATCATTTTTAT
Found at i:19072038 original size:14 final size:14
Alignment explanation
Indices: 19072017--19072065 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
19072007 AACATTCTTC
19072017 AATTTTTTTT-AAT
1 AATTTTTTTTAAAT
* *
19072030 GATTTTTTTAAAAT
1 AATTTTTTTTAAAT
19072044 AATTTTTTTTAAA-
1 AATTTTTTTTAAAT
19072057 AATATTTTT
1 AAT-TTTTT
19072066 AAAGGAAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 11 0.37
14 19 0.63
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (14 bp):
AATTTTTTTTAAAT
Found at i:19072051 original size:16 final size:15
Alignment explanation
Indices: 19072032--19072065 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
19072022 TTTTTAATGA
19072032 TTTTTTT-AAAATAAT
1 TTTTTTTAAAAAT-AT
19072047 TTTTTTTAAAAATAT
1 TTTTTTTAAAAATAT
19072062 TTTT
1 TTTT
19072066 AAAGGAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTTTTAAAAATAT
Found at i:19072064 original size:27 final size:27
Alignment explanation
Indices: 19072017--19072068 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
19072007 AACATTCTTC
** *
19072017 AATTTTTTTTAATGATTTTTTTAAAAT
1 AATTTTTTTTAAAAATATTTTTAAAAT
19072044 AATTTTTTTTAAAAATATTTTTAAA
1 AATTTTTTTTAAAAATATTTTTAAA
19072069 GGAAAGTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (27 bp):
AATTTTTTTTAAAAATATTTTTAAAAT
Found at i:19072276 original size:118 final size:119
Alignment explanation
Indices: 19072054--19072621 Score: 547
Period size: 118 Copynumber: 4.8 Consensus size: 119
19072044 AATTTTTTTT
* * *
19072054 AAAAATATTTTTAA-AGGAAAGTTGAAAGTATCAA-TTTCCTTTGAAAGTAAAAATTT-TAAAAA
1 AAAAATATTTTTAAGA-AAAAGTTGAAAGTATCAATTTTCC-TTGAAA-TTAAATTTTCTAAAAA
* * * *
19072116 AT-GTTTTTGAAAAAAAATTGAAAGTATTAATTTTCTTTGAAAATAAAAATTTTT-A
63 ATATTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAATTTTTAA
*
19072171 AAAAATATTTTT-AGAAAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAGTTTTCTAAAAAAT
1 AAAAATATTTTTAAG-AAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAATTTTCTAAAAAAT
* *
19072235 ATTTTTTGAAGAGAAGTTGAAAGTATCAATTTT-TCTTGAAAAT--AAGTTTTTCCAA
65 ATTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCT-TTGAAAATAAAAATTTTT--AA
* * *
19072290 AAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAA-TGAGTTTTCTAAAAAATA
1 AAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAATTTTCTAAAAAATA
* * * ***
19072354 TTTTTTGAGGAGAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTTAA
66 TTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAATTTTTAA
* * * * * *
19072408 AAAAATATTTTTGAGAAAAAGTTGAAAGTTTTAATTTTCTTTAAAAATAAATTTTCTAAAAAATA
1 AAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAATTTTCTAAAAAATA
* *
19072473 -TTTTCGAAGAAAAGTTGAAAGTATTAATTTTCTTTGAAAAT---AATTTTCTAA
66 TTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAATTTT-TAA
** * * * * * * * * *
19072524 AAACGGTTTTTTTTTAGGAAAAGTTGAAAATATCGATTTTTCTCGAAGTTAAAGTTTC-AAGAAA
1 AAA--AATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAATTTTCTAA-AAA
* * * *
19072588 ATA-TTTTCGAGGAAAAGTTGAAAGAATTAATTTT
63 ATATTTTTTGAAGAAAAGTTGAAAGTATCAATTTT
19072622 TCTTGTACAA
Statistics
Matches: 385, Mismatches: 48, Indels: 35
0.82 0.10 0.07
Matches are distributed among these distances:
115 4 0.01
116 20 0.05
117 46 0.12
118 249 0.65
119 59 0.15
120 7 0.02
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (119 bp):
AAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAATTTTCTAAAAAATA
TTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAAATTTTTAA
Found at i:19072471 original size:16 final size:17
Alignment explanation
Indices: 19072440--19072472 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
19072430 TGAAAGTTTT
*
19072440 AATTTTCTTTAAAAATA
1 AATTTTCTTAAAAAATA
19072457 AATTTTC-TAAAAAATA
1 AATTTTCTTAAAAAATA
19072473 TTTTCGAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTTTCTTAAAAAATA
Found at i:19072563 original size:60 final size:59
Alignment explanation
Indices: 19072054--19072621 Score: 509
Period size: 58 Copynumber: 9.6 Consensus size: 59
19072044 AATTTTTTTT
* * * **
19072054 AAAAATATTTTTAAAGG-AAAGTTGAAAGTATCAATTTCCTTTGAAAGTAAAAATTT-T-A
1 AAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAT-AAGTTTTCTAA
* ** * * *
19072112 AAAAATGTTTTTGAAAAAAAATTGAAAGTATTAATTTTCTTTGAAAATAAAAATTTT-T-A
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAT--AAGTTTTCTAA
* * *
19072171 AAAAATATTTTT-AGAAAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAGTTTTCT-A
1 AAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTCTAA
* * *
19072229 AAAAATATTTTTTGAAGAGAAGTTGAAAGTATCAATTTT-TCTTGAAAATAAGTTTTTCCAA
1 AAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCT-TTGAAAATAAG-TTTTCTAA
* * *
19072290 AAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTG-AAATGAGTTTTCT-A
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTCTAA
* * *
19072347 AAAAATATTTTTTGAGGAGAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTTAA
1 AAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAG-TTTTCTAA
* * * * *
19072408 AAAAATATTTTTGAGAAAAAGTTGAAAGTTTTAATTTTCTTTAAAAATAAATTTTCT-A
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTCTAA
* * *
19072466 AAAAATATTTTCGAAGAAAAGTTGAAAGTATTAATTTTCTTTGAAAATAA-TTTTCTAA
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTCTAA
** * * * * * **
19072524 AAACGGTTTTTTTTTAGGAAAAGTTGAAAATATCGATTTT-TCTCGAAGTTAAAG-TTTC-AA
1 AAA--AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCT-TTGAAAAT-AAGTTTTCTAA
* * * *
19072584 GAAAATATTTTCGAGGAAAAGTTGAAAGAATTAATTTT
1 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
19072622 TCTTGTACAA
Statistics
Matches: 421, Mismatches: 69, Indels: 40
0.79 0.13 0.08
Matches are distributed among these distances:
57 21 0.05
58 161 0.38
59 103 0.24
60 113 0.27
61 23 0.05
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (59 bp):
AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTCTAA
Found at i:19075226 original size:41 final size:41
Alignment explanation
Indices: 19075181--19075261 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
19075171 AAATGAGTAA
19075181 ATGAAACACATATCAAAAAAATTAAAAATTATGAAAATAAG
1 ATGAAACACATATCAAAAAAATTAAAAATTATGAAAATAAG
* * *
19075222 ATGAAACACATATTAAAGAAATTAGAAATTATGAAAATAA
1 ATGAAACACATATCAAAAAAATTAAAAATTATGAAAATAA
19075262 ACAATCATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.62, C:0.06, G:0.09, T:0.23
Consensus pattern (41 bp):
ATGAAACACATATCAAAAAAATTAAAAATTATGAAAATAAG
Found at i:19078902 original size:3 final size:3
Alignment explanation
Indices: 19078894--19078934 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
19078884 GGATAATATA
19078894 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19078935 ATAAAAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:19085864 original size:11 final size:11
Alignment explanation
Indices: 19085845--19085874 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
19085835 ATTATTTTGA
19085845 ATATAAATTAT
1 ATATAAATTAT
*
19085856 ATATTAATTAT
1 ATATAAATTAT
19085867 ATATAAAT
1 ATATAAAT
19085875 GTAATGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATAAATTAT
Found at i:19086613 original size:3 final size:3
Alignment explanation
Indices: 19086605--19086648 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
19086595 GATAGAATAG
19086605 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
19086649 ATACATAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:19087335 original size:113 final size:115
Alignment explanation
Indices: 19087079--19087374 Score: 407
Period size: 116 Copynumber: 2.5 Consensus size: 115
19087069 TCCAAAATAT
* * * *
19087079 TTATTAACTTTTTTATATCTAATTTATTTGTATTTTGTGTACCCACGTCTACTTTGGCCTGGTTT
1 TTATTAACTTTTTTACATCTAATTTATTTGTATTTTGTGTACCCACATCTACTTTCGCCTGATTT
* * * * * *
19087144 CTAGGTTAGTTTGTATATTTTTTTTATTTAGCTTTGTTTGTTCTGATTGAG
66 CTAGGTTAATATG-ATATTTATTTGATTTAGCTTTGTTTGTTCTGACTCAG
*
19087195 TTATTAACTTTTTTACATCTAATTTATTTGTATTTTGTGTATCCACATCTACTTTCGCCTGATTT
1 TTATTAACTTTTTTACATCTAATTTATTTGTATTTTGTGTACCCACATCTACTTTCGCCTGATTT
* *
19087260 CTAGTTTAATATG-TA-TTATTTGATTTAGGTTTGTTTGTTCTGACTCAG
66 CTAGGTTAATATGATATTTATTTGATTTAGCTTTGTTTGTTCTGACTCAG
*
19087308 TTATTAACTTTTTTACATCTAATTTATTTGTTTGTACTTGGTGTACCCACATCTACTTTCGCCTG
1 TTATTAACTTTTTTACATCTAATTTATTTGTAT-T--TT-GTGTACCCACATCTACTTTCGCCTG
19087373 AT
62 AT
19087375 ATTAACTTTT
Statistics
Matches: 161, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
113 60 0.37
114 3 0.02
116 72 0.45
117 26 0.16
ACGTcount: A:0.20, C:0.14, G:0.13, T:0.53
Consensus pattern (115 bp):
TTATTAACTTTTTTACATCTAATTTATTTGTATTTTGTGTACCCACATCTACTTTCGCCTGATTT
CTAGGTTAATATGATATTTATTTGATTTAGCTTTGTTTGTTCTGACTCAG
Found at i:19087385 original size:65 final size:65
Alignment explanation
Indices: 19087309--19087439 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
19087299 CTGACTCAGT
19087309 TATTAACTTTTTTACATCTAATTTATTTGTTTGTACTTGGTGTACCCACATCTACTTTCGCCTGA
1 TATTAACTTTTTTACATCTAATTTATTTGTTTGTACTTGGTGTACCCACATCTACTTTCGCCTGA
* *
19087374 TATTAACTTTTTTACATCTAATTTATTTGTTTGTACTTGTTGTATCCACATCTACTTTCGCCTGA
1 TATTAACTTTTTTACATCTAATTTATTTGTTTGTACTTGGTGTACCCACATCTACTTTCGCCTGA
19087439 T
1 T
19087440 TTTTAGGTTA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.50
Consensus pattern (65 bp):
TATTAACTTTTTTACATCTAATTTATTTGTTTGTACTTGGTGTACCCACATCTACTTTCGCCTGA
Found at i:19091415 original size:23 final size:23
Alignment explanation
Indices: 19091380--19091450 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 23
19091370 TAATTTTTTA
* *
19091380 TTTTCGAATTATTTTAAAATTAT
1 TTTTTGAAATATTTTAAAATTAT
19091403 TTTTTGAAATA-TTTAAATATTTAT
1 TTTTTGAAATATTTTAAA-A-TTAT
*
19091427 TATTT---ATATTTTAAAATTAT
1 TTTTTGAAATATTTTAAAATTAT
19091447 TTTT
1 TTTT
19091451 ATTTTTTGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
20 7 0.17
21 4 0.10
22 12 0.29
23 10 0.24
24 8 0.20
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (23 bp):
TTTTTGAAATATTTTAAAATTAT
Found at i:19091452 original size:23 final size:23
Alignment explanation
Indices: 19091389--19091454 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
19091379 ATTTTCGAAT
*
19091389 TATTTTAAAATTA-TTTT-TTGA
1 TATTTTAAAATTATTTTTATTTA
*
19091410 AATATTT-AAA-TATTTATTATTTA
1 TAT-TTTAAAATTATTT-TTATTTA
19091433 TATTTTAAAATTATTTTTATTT
1 TATTTTAAAATTATTTTTATTT
19091455 TTTGATATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
20 2 0.06
21 7 0.19
22 8 0.22
23 14 0.39
24 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TATTTTAAAATTATTTTTATTTA
Found at i:19091523 original size:28 final size:28
Alignment explanation
Indices: 19091454--19091523 Score: 65
Period size: 28 Copynumber: 2.5 Consensus size: 28
19091444 TATTTTTATT
19091454 TTTTGATATTAAAAATTGTAAAACTTTAA
1 TTTT-ATATTAAAAATTGTAAAACTTTAA
**
19091483 TTTTATAAAAAAAATT-T-AAA-TTTAAA
1 TTTTATATTAAAAATTGTAAAACTTT-AA
19091509 TTTAATATATTAAAA
1 TTT--TATATTAAAA
19091524 TTATTTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
25 3 0.09
26 8 0.24
27 1 0.03
28 18 0.53
29 4 0.12
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (28 bp):
TTTTATATTAAAAATTGTAAAACTTTAA
Found at i:19093747 original size:23 final size:23
Alignment explanation
Indices: 19093721--19093764 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
19093711 GTATTTCCTC
*
19093721 AATAAAATTTGGTACATATATTA
1 AATAAAATTTGATACATATATTA
*
19093744 AATAAAATTTGATATATATAT
1 AATAAAATTTGATACATATAT
19093765 ATGTATGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (23 bp):
AATAAAATTTGATACATATATTA
Found at i:19093791 original size:4 final size:4
Alignment explanation
Indices: 19093764--19093798 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
19093754 GATATATATA
*
19093764 TATG TATG TATG TATG TATA TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
19093799 AGTTTCTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:19098320 original size:25 final size:25
Alignment explanation
Indices: 19098275--19098335 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
19098265 ATGATAGTGT
*
19098275 TTAATTGAAACAATTGAGATTGGTA
1 TTAATTGAAAAAATTGAGATTGGTA
**
19098300 TTAATTGAAAAAATT-ATGATTTTTA
1 TTAATTGAAAAAATTGA-GATTGGTA
19098325 TTAATT-AAAAA
1 TTAATTGAAAAA
19098336 CTATATATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (25 bp):
TTAATTGAAAAAATTGAGATTGGTA
Found at i:19099650 original size:13 final size:14
Alignment explanation
Indices: 19099621--19099658 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
19099611 TTATTGTAAC
19099621 AAAATCAAATCATA
1 AAAATCAAATCATA
*
19099635 AAAATCAAATTA-A
1 AAAATCAAATCATA
19099648 AAAAT-AAATCA
1 AAAATCAAATCA
19099659 ATTCATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 5 0.23
13 6 0.27
14 11 0.50
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAATCAAATCATA
Found at i:19099848 original size:21 final size:21
Alignment explanation
Indices: 19099805--19099850 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
19099795 TCTAATGCAG
* *
19099805 TAAGTTGTTGTTATTGCTCAT
1 TAAGTTGTTGCTATTACTCAT
* *
19099826 TAAGTTGTTGCTCTTACTTAT
1 TAAGTTGTTGCTATTACTCAT
19099847 TAAG
1 TAAG
19099851 CCTTTACTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.11, G:0.17, T:0.50
Consensus pattern (21 bp):
TAAGTTGTTGCTATTACTCAT
Found at i:19099863 original size:30 final size:30
Alignment explanation
Indices: 19099829--19099899 Score: 133
Period size: 30 Copynumber: 2.4 Consensus size: 30
19099819 TGCTCATTAA
19099829 GTTGTTGCTCTTACTTATTAAGCCTTTACT
1 GTTGTTGCTCTTACTTATTAAGCCTTTACT
*
19099859 GTTGTTGCTCTTGCTTATTAAGCCTTTACT
1 GTTGTTGCTCTTACTTATTAAGCCTTTACT
19099889 GTTGTTGCTCT
1 GTTGTTGCTCT
19099900 ATTATGGCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.51
Consensus pattern (30 bp):
GTTGTTGCTCTTACTTATTAAGCCTTTACT
Found at i:19101263 original size:15 final size:17
Alignment explanation
Indices: 19101227--19101264 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
19101217 AGATTAGCAT
19101227 AAAATATTAGAAATACC
1 AAAATATTAGAAATACC
*
19101244 AAAATA-TATAAATA-C
1 AAAATATTAGAAATACC
19101259 AAAATA
1 AAAATA
19101265 GTAGCTGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 7 0.35
17 6 0.30
ACGTcount: A:0.66, C:0.08, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAATATTAGAAATACC
Found at i:19101495 original size:88 final size:88
Alignment explanation
Indices: 19101394--19101586 Score: 280
Period size: 88 Copynumber: 2.2 Consensus size: 88
19101384 TTGAAATAAT
*
19101394 AACAAACAGTTTGTTTTGCATATTGATGCATGATAATATGAATGATAGTTTTGCATTTTGATCAT
1 AACAAACAGTTTGTTTTGCATATTGATGCATGATAATATAAATGATAGTTTTGCATTTTGATC-T
* *
19101459 -TTGGTATAACATATAGCAAACAA
65 GTTGGCATAACACATAGCAAACAA
* ** *
19101482 AACAAACAATTTGTTTTGGGTATTGATGCATGATAATATAAATGATGGTTTTGCATTTTGATCTG
1 AACAAACAGTTTGTTTTGCATATTGATGCATGATAATATAAATGATAGTTTTGCATTTTGATCTG
*
19101547 TTGGCATAACACATAGCAAACAC
66 TTGGCATAACACATAGCAAACAA
* *
19101570 AATAAATAGTTTGTTTT
1 AACAAACAGTTTGTTTT
19101587 AATATTCATT
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
87 1 0.01
88 92 0.99
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (88 bp):
AACAAACAGTTTGTTTTGCATATTGATGCATGATAATATAAATGATAGTTTTGCATTTTGATCTG
TTGGCATAACACATAGCAAACAA
Found at i:19101669 original size:130 final size:129
Alignment explanation
Indices: 19101505--19101796 Score: 394
Period size: 130 Copynumber: 2.3 Consensus size: 129
19101495 TTTTGGGTAT
*
19101505 TGATGCATGATAATAT-AAATGATGGTTTTGCATTTTGATCTGTTGGCATAACACATAGCAAACA
1 TGATGCATGATAATATGAAA-GATGGTTTTGCATTTTGATCTGTTAGCATAACACATAGCAAACA
*
19101569 CAATAAATAGTTTGTTTT-AATATTCATTCTT-TGTTGAATTAGTAGCAAAT-GATTTGATTTGC
65 C-AGAAATAGTTTGTTTTGAATATTCATT-TTGTGTTGAATTAGTAGCAAATAGATTT--TTTGC
19101631 ATAA
126 ATAA
* * *
19101635 TGATGCATGATAGTATGAAAGATGGTTTTGCATTTTGATCTTTTAGCATAACAGATAGCAAACAC
1 TGATGCATGATAATATGAAAGATGGTTTTGCATTTTGATCTGTTAGCATAACACATAGCAAACAC
* * * *
19101700 AGCAATAGTTTGTTTTGCATATTCATTTTGTGTTGAATTAGTAGTAAATAGATTTTTTGCATAT
66 AGAAATAGTTTGTTTTGAATATTCATTTTGTGTTGAATTAGTAGCAAATAGATTTTTTGCATAA
* * * *
19101764 TGATGCATGACAATATGAATGTTGATTTTGCAT
1 TGATGCATGATAATATGAAAGATGGTTTTGCAT
19101797 CATAGCTCAA
Statistics
Matches: 144, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
129 52 0.36
130 84 0.58
131 8 0.06
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (129 bp):
TGATGCATGATAATATGAAAGATGGTTTTGCATTTTGATCTGTTAGCATAACACATAGCAAACAC
AGAAATAGTTTGTTTTGAATATTCATTTTGTGTTGAATTAGTAGCAAATAGATTTTTTGCATAA
Found at i:19107163 original size:44 final size:44
Alignment explanation
Indices: 19107100--19107188 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
19107090 AGGGTCCAGA
19107100 AAAAAAATGATAGTGTAAGTGCCACAATCTAGCCACAGTTAGTT
1 AAAAAAATGATAGTGTAAGTGCCACAATCTAGCCACAGTTAGTT
19107144 AAAAAAATGATAGTGTAAGTGCCACAATCTAGCCACAGTTAGTT
1 AAAAAAATGATAGTGTAAGTGCCACAATCTAGCCACAGTTAGTT
19107188 A
1 A
19107189 CATGCACATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.25
Consensus pattern (44 bp):
AAAAAAATGATAGTGTAAGTGCCACAATCTAGCCACAGTTAGTT
Found at i:19115007 original size:2 final size:2
Alignment explanation
Indices: 19115000--19115031 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
19114990 GATTGCTGGT
*
19115000 AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
19115032 TGTGGTGGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19129535 original size:453 final size:452
Alignment explanation
Indices: 19128643--19129547 Score: 1428
Period size: 453 Copynumber: 2.0 Consensus size: 452
19128633 AACAAATTTA
* * *
19128643 CCTTTAAATTTCTAGCATTTTTTATTTATGTATTAAATATTATTTTTCGTTAAATATCTAGCATT
1 CCTTTAAATTTCTAGCAGTTTTTATTTATGTATTAAAGATTATTTTTCATTAAATATCTAGCATT
*
19128708 TATTAGTTAATTATTTAAATTAAACCAAAAGTGTTAAAAGTGAATAGCATAAATATCCTTATGAA
66 TATTAGATAATTATTTAAATTAAACCAAAAGTGTTAAAAGTGAATAGCATAAATATCCTTATGAA
* * *
19128773 TTTTAAAAAATAACAAATTTACATTTAAATTTCTAGTATTTATTTATTTATTTAATAAAGATTAT
131 TTTTAAAAAAT---AAA-TTAAATTTAAATTTCTAGCACTTATTTATTTATTTAATAAAGATTAT
* *
19128838 TTGTCATTAAATATATATCTTTTTATTCGTTAGTTATTTAAATTTAAATCAATTAAAAATTTACC
192 TTGCCATTAAATATATAGCTTTTTATTCGTTAGTTATTTAAATTTAAATCAATTAAAAATTTACC
* * *
19128903 CATAGAATTTATATCAAATTAAACTATATTAAAAATTTATTTGTGGAATATAGTGGATGTGTTGT
257 AATAGAATTTATATCAAATTAAACTACATTAAAAATTTATTTGTGGAATATAGTGGATGTATTGT
19128968 CAAAATTAACCCAAATTTACTCTTATCCTTTTTTTTTTGTAGGATTCTTTTTTGTTCAATTTCAT
322 CAAAATTAACCCAAA--TACTCTTA-CCTTTTTTTTTTGTAGGATTCTTTTTTGTTCAATTTCAT
19129033 AAGTAATAATTCAATTAAATTCATATAAAACACATTTCTCATCCTATGGCTATGGCATACTATCA
384 AAGTAATAATTCAATTAAATTCATATAAAACACATTTCTCATCCTATGGCTATGGCATACTATCA
19129098 GTCC
449 GTCC
* * *
19129102 CCTTTAAATTTTTAGTAGTTTTTATTTATGTATTAAAGATTATTTTTCATTAAATATGTAGCATT
1 CCTTTAAATTTCTAGCAGTTTTTATTTATGTATTAAAGATTATTTTTCATTAAATATCTAGCATT
* * * *
19129167 TATTAGATAATTTTTTGAATTAATCCAAAAGTGTTAAAAGTGAATAGCATAAATATCGTTATGAA
66 TATTAGATAATTATTTAAATTAAACCAAAAGTGTTAAAAGTGAATAGCATAAATATCCTTATGAA
19129232 TTTTAAAAAAT-AA-TAAATTTAAATTTCTAGCACTTATTTATTTATTTAATAAAGATTATTTGC
131 TTTTAAAAAATAAATTAAATTTAAATTTCTAGCACTTATTTATTTATTTAATAAAGATTATTTGC
* *
19129295 CATTAAATATATAGCTTTTTATTTGTTAGTTATTTAAATTTAAATCAATTAAAAATTTACTAATA
196 CATTAAATATATAGCTTTTTATTCGTTAGTTATTTAAATTTAAATCAATTAAAAATTTACCAATA
* *
19129360 GAATTTATATCAAATTAAACTACATTAAAAATTTATTTGTGGGATATGGTGGATGTATTGTCAAA
261 GAATTTATATCAAATTAAACTACATTAAAAATTTATTTGTGGAATATAGTGGATGTATTGTC-AA
19129425 AATTAACCC-AA-A-T-TTA-CTTTTTTTTTTGTAGGATTCTTTTTTGTTCAATTTCATAAGTAA
325 AATTAACCCAAATACTCTTACCTTTTTTTTTTGTAGGATTCTTTTTTGTTCAATTTCATAAGTAA
* * ** *
19129485 TAATTTAATTATATTTGTATAAAACACATTTCTCATCCTATGAGCTATGGCATACTATGAGTC
390 TAATTCAATTAAATTCATATAAAACACATTTCTCATCCTATG-GCTATGGCATACTATCAGTC
19129548 TGTGATATTG
Statistics
Matches: 416, Mismatches: 28, Indels: 16
0.90 0.06 0.03
Matches are distributed among these distances:
446 82 0.20
447 19 0.05
448 3 0.01
449 1 0.00
450 1 0.00
453 167 0.40
454 11 0.03
455 2 0.00
459 130 0.31
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.45
Consensus pattern (452 bp):
CCTTTAAATTTCTAGCAGTTTTTATTTATGTATTAAAGATTATTTTTCATTAAATATCTAGCATT
TATTAGATAATTATTTAAATTAAACCAAAAGTGTTAAAAGTGAATAGCATAAATATCCTTATGAA
TTTTAAAAAATAAATTAAATTTAAATTTCTAGCACTTATTTATTTATTTAATAAAGATTATTTGC
CATTAAATATATAGCTTTTTATTCGTTAGTTATTTAAATTTAAATCAATTAAAAATTTACCAATA
GAATTTATATCAAATTAAACTACATTAAAAATTTATTTGTGGAATATAGTGGATGTATTGTCAAA
ATTAACCCAAATACTCTTACCTTTTTTTTTTGTAGGATTCTTTTTTGTTCAATTTCATAAGTAAT
AATTCAATTAAATTCATATAAAACACATTTCTCATCCTATGGCTATGGCATACTATCAGTCC
Found at i:19129591 original size:38 final size:38
Alignment explanation
Indices: 19129540--19129614 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
19129530 TATGGCATAC
19129540 TATGAGTCTGTGATATTGAACAAAACATAAATAAAATA
1 TATGAGTCTGTGATATTGAACAAAACATAAATAAAATA
19129578 TATGAGTCTGTGATATTGAACAAAACATAAATAAAAT
1 TATGAGTCTGTGATATTGAACAAAACATAAATAAAAT
19129615 CTTTCTTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.29
Consensus pattern (38 bp):
TATGAGTCTGTGATATTGAACAAAACATAAATAAAATA
Found at i:19131696 original size:22 final size:22
Alignment explanation
Indices: 19131671--19131872 Score: 89
Period size: 22 Copynumber: 9.2 Consensus size: 22
19131661 GATTTAATGA
*
19131671 TAAATTAATTATAACTTAGTAC
1 TAAATTAATAATAACTTAGTAC
19131693 TAAATGTGTAATAATATAC-TAG--C
1 TAAA--T-TAATAATA-ACTTAGTAC
* * *
19131716 -AAATTATTGATAATTTAGTTA-
1 TAAATTAATAATAACTTAG-TAC
* * *
19131737 TAAATTAGTGATAATTTAG-AC
1 TAAATTAATAATAACTTAGTAC
* *
19131758 AAAATTAGTAATAACTTTA-TAC
1 TAAATTAATAATAAC-TTAGTAC
* *
19131780 TAAATTAATGATAACTGTA-TAG
1 TAAATTAATAATAACT-TAGTAC
* * *
19131802 TAAATT-ATGGATAACTTAATAG
1 TAAATTAAT-AATAACTTAGTAC
* * *
19131824 TAAAATAATAATAACTTAATAG
1 TAAATTAATAATAACTTAGTAC
* * *
19131846 TAAATAAATAATAATTTAGTAG
1 TAAATTAATAATAACTTAGTAC
19131868 TAAAT
1 TAAAT
19131873 AATTGATAAA
Statistics
Matches: 146, Mismatches: 18, Indels: 32
0.74 0.09 0.16
Matches are distributed among these distances:
18 1 0.01
19 9 0.06
20 2 0.01
21 17 0.12
22 101 0.69
23 3 0.02
24 1 0.01
25 10 0.07
26 2 0.01
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (22 bp):
TAAATTAATAATAACTTAGTAC
Found at i:19131873 original size:22 final size:22
Alignment explanation
Indices: 19131766--19131874 Score: 98
Period size: 22 Copynumber: 5.0 Consensus size: 22
19131756 ACAAAATTAG
* * *
19131766 TAATAACTTTATACTAAATTAA
1 TAATAACTTAATAGTAAATAAA
* *
19131788 TGATAACTGT-ATAGTAAAT-TA
1 TAATAACT-TAATAGTAAATAAA
*
19131809 TGGATAACTTAATAGTAAA-ATAA
1 T-AATAACTTAATAGTAAATA-AA
19131832 TAATAACTTAATAGTAAATAAA
1 TAATAACTTAATAGTAAATAAA
* *
19131854 TAATAATTTAGTAGTAAATAA
1 TAATAACTTAATAGTAAATAA
19131875 TTGATAAAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 12
0.80 0.08 0.13
Matches are distributed among these distances:
21 3 0.04
22 67 0.91
23 4 0.05
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (22 bp):
TAATAACTTAATAGTAAATAAA
Found at i:19131919 original size:22 final size:22
Alignment explanation
Indices: 19131893--19131953 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
19131883 ATAATGTATG
19131893 ATAACATAATAATAAAT-ACATA
1 ATAACATAATAATAAATAACA-A
19131915 ATAACATAATAGA-AAATAACAA
1 ATAACATAATA-ATAAATAACAA
* *
19131937 ATAACTTAATAGTAAAT
1 ATAACATAATAATAAAT
19131954 CATTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 30 0.88
23 4 0.12
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.26
Consensus pattern (22 bp):
ATAACATAATAATAAATAACAA
Found at i:19132051 original size:22 final size:22
Alignment explanation
Indices: 19131988--19132105 Score: 96
Period size: 22 Copynumber: 5.4 Consensus size: 22
19131978 TAACACATAT
*
19131988 TAGTAAATTAA-GTATAATTTAA
1 TAGTAAATTAATG-ATAACTTAA
* * * *
19132010 TA-AAAAATAAGTTATAACTTAG
1 TAGTAAATTAA-TGATAACTTAA
* * **
19132032 TAGTTAATTATTGATAACTTGG
1 TAGTAAATTAATGATAACTTAA
* *
19132054 TAATAAATTAATGATAAGTTAA
1 TAGTAAATTAATGATAACTTAA
*
19132076 TAGTAAATTAATGACAACTTAA
1 TAGTAAATTAATGATAACTTAA
19132098 TAGTAAAT
1 TAGTAAAT
19132106 AAAATTCAGT
Statistics
Matches: 73, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
21 6 0.08
22 63 0.86
23 4 0.05
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.37
Consensus pattern (22 bp):
TAGTAAATTAATGATAACTTAA
Found at i:19132220 original size:69 final size:70
Alignment explanation
Indices: 19132109--19132244 Score: 247
Period size: 69 Copynumber: 2.0 Consensus size: 70
19132099 AGTAAATAAA
* *
19132109 ATTCAGTTTAATACTCCCTCCATCCTAATAAAATTGTTACATTTTGATTTTTGTTAGT-CATTTT
1 ATTCAGTTTAATACTCCCTCCATCCTAATAAAATTGTTACATTTTAATTTTTGTTAGTGAATTTT
19132173 TTAAG
66 TTAAG
19132178 ATTCAGTTTAATACTCCCTCCATCCTAATAAAATTGTTACATTTTAATTTTTGTTAGTGAATTTT
1 ATTCAGTTTAATACTCCCTCCATCCTAATAAAATTGTTACATTTTAATTTTTGTTAGTGAATTTT
19132243 TT
66 TT
19132245 TCAATTTTAA
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
69 57 0.89
70 7 0.11
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (70 bp):
ATTCAGTTTAATACTCCCTCCATCCTAATAAAATTGTTACATTTTAATTTTTGTTAGTGAATTTT
TTAAG
Found at i:19132482 original size:19 final size:20
Alignment explanation
Indices: 19132447--19132484 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
19132437 ATAAAGGGAG
*
19132447 TAGTAATTAATTGATAAATT
1 TAGTAATTAAATGATAAATT
19132467 TAGTAA-TAAATGATAAAT
1 TAGTAATTAAATGATAAAT
19132485 AGCTTAGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (20 bp):
TAGTAATTAAATGATAAATT
Found at i:19132585 original size:21 final size:20
Alignment explanation
Indices: 19132553--19132603 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
19132543 TAATAATTGG
*
19132553 AAATTAAAAATAA-ATCAAT
1 AAATTAATAATAACATCAAT
19132572 ATAACTTAATAATAATCATCAAT
1 A-AA-TTAATAATAA-CATCAAT
19132595 AAATTAATA
1 AAATTAATA
19132604 GTTAATTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.04
20 2 0.07
21 15 0.56
22 2 0.07
23 7 0.26
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (20 bp):
AAATTAATAATAACATCAAT
Found at i:19132621 original size:15 final size:15
Alignment explanation
Indices: 19132599--19132631 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
19132589 ATCAATAAAT
19132599 TAATAGTTAAT-TAG
1 TAATAGTTAATATAG
19132613 TAATAAGTTAATATAG
1 TAAT-AGTTAATATAG
19132629 TAA
1 TAA
19132632 ATTAGAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 7 0.41
16 6 0.35
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (15 bp):
TAATAGTTAATATAG
Found at i:19132688 original size:22 final size:22
Alignment explanation
Indices: 19132592--19132723 Score: 77
Period size: 22 Copynumber: 5.8 Consensus size: 22
19132582 AATAATCATC
* *
19132592 AATAAATTAATAGTTAATTAGT
1 AATAATTTAATAGTAAATTAGT
* *
19132614 AATAAGTTAATATAGTAAATTAGAG
1 AATAA-TTTA-ATAGTAAATTAG-T
* * * *
19132639 ATATAACTTAATAGTATATAAAT
1 A-ATAATTTAATAGTAAATTAGT
* *
19132662 TATAATTTAGTAGTAAATTAGT
1 AATAATTTAATAGTAAATTAGT
* **
19132684 AATAATATAATAGTCAAAGCA-T
1 AATAATTTAATAGT-AAATTAGT
* *
19132706 AATAACTTAATAATAAAT
1 AATAATTTAATAGTAAAT
19132724 CAATTATAAC
Statistics
Matches: 80, Mismatches: 25, Indels: 11
0.69 0.22 0.09
Matches are distributed among these distances:
21 3 0.04
22 44 0.55
23 6 0.08
24 20 0.25
25 3 0.04
26 4 0.05
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (22 bp):
AATAATTTAATAGTAAATTAGT
Found at i:19132732 original size:22 final size:22
Alignment explanation
Indices: 19132494--19132738 Score: 56
Period size: 22 Copynumber: 11.0 Consensus size: 22
19132484 TAGCTTAGTG
* *
19132494 ATAAATCAATGATAATTTAATA
1 ATAAATCAATTATAACTTAATA
* *
19132516 GTAAAT-AATTTATAACTAAGTAGTA
1 ATAAATCAA-TTATAACT---TAATA
* ** * *
19132541 ATTAAT-AATTGGAAATTAAAA
1 ATAAATCAATTATAACTTAATA
19132562 ATAAATCAA-TATAACTTAATA
1 ATAAATCAATTATAACTTAATA
19132583 ATAATCATCAA-TA-AA-TTAATA
1 ATAA--ATCAATTATAACTTAATA
* * * * * *
19132604 GTTAATTAGTAATAAGTTAATA
1 ATAAATCAATTATAACTTAATA
* *
19132626 TAGTAAATTAGAGATATAACTTAATA
1 -A-TAAATCA-A-TTATAACTTAATA
* * * * *
19132652 GTATATAAATTATAATTTAGTA
1 ATAAATCAATTATAACTTAATA
* * * *
19132674 GTAAATTAGTAATAA-TATAATA
1 ATAAATCAATTATAACT-TAATA
* * *
19132696 GTCAAAGC-ATAATAACTTAATA
1 AT-AAATCAATTATAACTTAATA
*
19132718 ATAAATCAATTATAACATAAT
1 ATAAATCAATTATAACTTAAT
19132739 TGTAAATGCA
Statistics
Matches: 160, Mismatches: 45, Indels: 36
0.66 0.19 0.15
Matches are distributed among these distances:
19 3 0.02
20 1 0.01
21 37 0.23
22 71 0.44
23 12 0.08
24 16 0.10
25 10 0.06
26 10 0.06
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (22 bp):
ATAAATCAATTATAACTTAATA
Found at i:19132827 original size:22 final size:22
Alignment explanation
Indices: 19132641--19132853 Score: 71
Period size: 22 Copynumber: 9.8 Consensus size: 22
19132631 AATTAGAGAT
* *
19132641 ATAACTTAATAGTATATAAATT-
1 ATAACTTAATAGTAAAT-CATTG
* * * * *
19132663 ATAATTTAGTAGTAAATTAGTA
1 ATAACTTAATAGTAAATCATTG
* *
19132685 ATAA-TATAATAGTCAAAGCA-TA
1 ATAACT-TAATAGT-AAATCATTG
*
19132707 ATAACTTAATAATAAATCAATT-
1 ATAACTTAATAGTAAATC-ATTG
* * *
19132729 ATAACATAATTGTAAATGCA-TA
1 ATAACTTAATAGTAAAT-CATTG
* * * * *
19132751 ATAACATAGTTGTAAATTAATG
1 ATAACTTAATAGTAAATCATTG
* ** *
19132773 ATAACTTTATA--AAAAAAATG
1 ATAACTTAATAGTAAATCATTG
*
19132793 ATAACTTAATAGTTAATCATTG
1 ATAACTTAATAGTAAATCATTG
* * * *
19132815 ATAATTTAGTAGTAAATCAATA
1 ATAACTTAATAGTAAATCATTG
* *
19132837 AAAACTTAGTAGTAAAT
1 ATAACTTAATAGTAAAT
19132854 TAGTGACAGC
Statistics
Matches: 146, Mismatches: 34, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
20 17 0.12
21 9 0.06
22 113 0.77
23 7 0.05
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.35
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCATTG
Found at i:19133064 original size:22 final size:22
Alignment explanation
Indices: 19133039--19133097 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
19133029 TAAATTATCG
*
19133039 ATAACTTAGTAGTAAATCACTA
1 ATAACTTAGTAGTAAAACACTA
* * * *
19133061 ATAACGTAATAGTAAAACATTG
1 ATAACTTAGTAGTAAAACACTA
*
19133083 ATAACTTAGTTGTAA
1 ATAACTTAGTAGTAA
19133098 TTCAATGATA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (22 bp):
ATAACTTAGTAGTAAAACACTA
Found at i:19133106 original size:22 final size:22
Alignment explanation
Indices: 19133072--19133143 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 22
19133062 TAACGTAATA
* * *
19133072 GTAAAACATTGATAACTTAGTT
1 GTAAATCAATGATAATTTAGTT
* *
19133094 GTAATTCAATGATAATTTTGTT
1 GTAAATCAATGATAATTTAGTT
*
19133116 ATAAATCAATGATAATTTAGTT
1 GTAAATCAATGATAATTTAGTT
19133138 GTAAAT
1 GTAAAT
19133144 TAATTAATTA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (22 bp):
GTAAATCAATGATAATTTAGTT
Found at i:19133181 original size:22 final size:21
Alignment explanation
Indices: 19133153--19133326 Score: 122
Period size: 22 Copynumber: 8.0 Consensus size: 21
19133143 TTAATTAATT
19133153 ATTAATAACTTTATAGTAAATC
1 ATTAATAA-TTTATAGTAAATC
*
19133175 ATTAATAACTTTATAGTAAATA
1 ATTAATAA-TTTATAGTAAATC
* * *
19133197 AGTAATAATATTATAATAAATT
1 ATTAATAAT-TTATAGTAAATC
*
19133219 ATTAATAATTTAATAGTAAATT
1 ATTAATAATTT-ATAGTAAATC
* *
19133241 ATCAATAATTTAGTAATAAATC
1 ATTAATAATTTA-TAGTAAATC
* *
19133263 GTTTAA-AACTTAGTAGTAAATC
1 -ATTAATAATTTA-TAGTAAATC
*
19133285 ATCT-ATAACTTAATGAG-AAATC
1 AT-TAATAA-TTTAT-AGTAAATC
*
19133307 A-TGATAATTTAGTAGTAAAT
1 ATTAATAATTTA-TAGTAAAT
19133327 TAGTGATAAA
Statistics
Matches: 124, Mismatches: 17, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
20 6 0.05
21 15 0.12
22 96 0.77
23 7 0.06
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (21 bp):
ATTAATAATTTATAGTAAATC
Found at i:19133283 original size:66 final size:65
Alignment explanation
Indices: 19133144--19133339 Score: 170
Period size: 66 Copynumber: 3.0 Consensus size: 65
19133134 AGTTGTAAAT
* *
19133144 TAATTAATTATTAATAACTTT-ATAGTAAATCATTAATAACTTTA-TAGTAAATAAGTAATAATA
1 TAATAAATTATTAATAA-TTTAATAGTAAATCA-TAATAA-TTTAGTAGTAAATAAGTAATAAAA
19133207 TTA
63 TTA
* * * *
19133210 TAATAAATTATTAATAATTTAATAGTAAATTATCAATAATTTAGTAATAAAT-CGT-TTAAAACT
1 TAATAAATTATTAATAATTTAATAGTAAATCAT-AATAATTTAGTAGTAAATAAGTAATAAAA-T
19133273 TA
64 TA
* * * * * *
19133275 GTAGTAAATCATCT-ATAACTTAATGAG-AAATCATGATAATTTAGTAGTAAATTAGTGATAAAA
1 -TAATAAATTAT-TAATAATTTAAT-AGTAAATCATAATAATTTAGTAGTAAATAAGTAATAAAA
19133338 TT
63 TT
19133340 GTAGTAAGTG
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
64 4 0.04
65 29 0.27
66 66 0.62
67 8 0.07
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (65 bp):
TAATAAATTATTAATAATTTAATAGTAAATCATAATAATTTAGTAGTAAATAAGTAATAAAATTA
Found at i:19133610 original size:22 final size:22
Alignment explanation
Indices: 19133553--19133646 Score: 73
Period size: 22 Copynumber: 4.3 Consensus size: 22
19133543 CTTATATATT
* * *
19133553 GTAATTAATTAATAAATTAATA
1 GTAAATAATTAATAACTTAGTA
* * *
19133575 GTATATCATAAATAACTTAGTA
1 GTAAATAATTAATAACTTAGTA
* * *
19133597 GTAATTTAA-TAATAATTTAGTG
1 GTAA-ATAATTAATAACTTAGTA
*
19133619 GTAAATAATTGATAACTTAGTA
1 GTAAATAATTAATAACTTAGTA
*
19133641 ATAAAT
1 GTAAAT
19133647 CAATGGTAAT
Statistics
Matches: 53, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
21 3 0.06
22 48 0.91
23 2 0.04
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (22 bp):
GTAAATAATTAATAACTTAGTA
Found at i:19133780 original size:22 final size:22
Alignment explanation
Indices: 19133755--19133906 Score: 112
Period size: 22 Copynumber: 6.9 Consensus size: 22
19133745 GTATATACAT
**
19133755 AATAATTTTGTAATAAATCATC
1 AATAATTTAATAATAAATCATC
* * *
19133777 AATAATTTCATAGTAAATTAGT-
1 AATAATTTAATAATAAATCA-TC
* *
19133799 TATAACTTT-ATAATAAATTATC
1 AATAA-TTTAATAATAAATCATC
* *
19133821 AATAATTTAGTACTAAATCATC
1 AATAATTTAATAATAAATCATC
* * * *
19133843 AATAACTTAGTAGTAAATTATTC
1 AATAATTTAATAATAAATCA-TC
* * *
19133866 -ATAACTTAATAATAAATAATT
1 AATAATTTAATAATAAATCATC
19133887 AATAATTTAATAATAAATCA
1 AATAATTTAATAATAAATCA
19133907 CTGATAATAT
Statistics
Matches: 105, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
21 5 0.05
22 94 0.90
23 6 0.06
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (22 bp):
AATAATTTAATAATAAATCATC
Found at i:19133825 original size:66 final size:66
Alignment explanation
Indices: 19133755--19133941 Score: 211
Period size: 66 Copynumber: 2.8 Consensus size: 66
19133745 GTATATACAT
* * * *
19133755 AATAATTTTGTAATAAATCATCAATAATTTCA-TAGTAAATTAGTT-ATAACTTTATAATAAATT
1 AATAATTTAGTAATAAATCATCAATAACTT-AGTAGTAAATTA-TTCATAACTTAATAATAAATA
19133818 ATC
64 ATC
*
19133821 AATAATTTAGTACTAAATCATCAATAACTTAGTAGTAAATTATTCATAACTTAATAATAAATAAT
1 AATAATTTAGTAATAAATCATCAATAACTTAGTAGTAAATTATTCATAACTTAATAATAAATAAT
*
19133886 T
66 C
* * * * *
19133887 AATAATTTAATAATAAATCA-CTGATAA-TATAGTAATAAATTAATAATAACTTAAT
1 AATAATTTAGTAATAAATCATC-AATAACT-TAGTAGTAAATTATTCATAACTTAAT
19133942 TGTCAATCGA
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
65 5 0.05
66 100 0.95
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.39
Consensus pattern (66 bp):
AATAATTTAGTAATAAATCATCAATAACTTAGTAGTAAATTATTCATAACTTAATAATAAATAAT
C
Found at i:19133848 original size:44 final size:42
Alignment explanation
Indices: 19133753--19133938 Score: 119
Period size: 44 Copynumber: 4.2 Consensus size: 42
19133743 CTGTATATAC
* * * *
19133753 ATAATAATTTTGTAATAAATCATCAATAATTTCATAGTAAATTA
1 ATAATAACTTTATAATAAATTATCAATAATTT-ATAATAAA-TA
* * * *
19133797 GTTATAACTTTATAATAAATTATCAATAATTTAGTACTAAATC
1 ATAATAACTTTATAATAAATTATCAATAATTTA-TAATAAATA
* *
19133840 ATCAATAAC-TTAGTAGTAAATTATTC-ATAACTTAATAATAAATA
1 AT-AATAACTTTA-TAATAAATTA-TCAATAA-TTTATAATAAATA
* * *
19133884 ATTAATAA-TTTAATAATAAATCA-CTGATAATATAGTAATAAATTA
1 A-TAATAACTTT-ATAATAAATTATC-AATAATTTA-TAATAAA-TA
19133929 ATAATAACTT
1 ATAATAACTT
19133939 AATTGTCAAT
Statistics
Matches: 112, Mismatches: 17, Indels: 25
0.73 0.11 0.16
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 91 0.81
45 12 0.11
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (42 bp):
ATAATAACTTTATAATAAATTATCAATAATTTATAATAAATA
Found at i:19133913 original size:22 final size:22
Alignment explanation
Indices: 19133866--19133941 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
19133856 TAAATTATTC
* *
19133866 ATAACTTAATAATAAATAATTA
1 ATAATTTAATAATAAATAACTA
* *
19133888 ATAATTTAATAATAAATCACTG
1 ATAATTTAATAATAAATAACTA
* *
19133910 ATAATATAGTAATAAATTAA-TA
1 ATAATTTAATAATAAA-TAACTA
*
19133932 ATAACTTAAT
1 ATAATTTAAT
19133942 TGTCAATCGA
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
22 40 0.95
23 2 0.05
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (22 bp):
ATAATTTAATAATAAATAACTA
Found at i:19133940 original size:11 final size:11
Alignment explanation
Indices: 19133808--19133941 Score: 60
Period size: 11 Copynumber: 12.2 Consensus size: 11
19133798 TTATAACTTT
19133808 ATAATAAATT-
1 ATAATAAATTA
*
19133818 ATCAATAATTTA
1 AT-AATAAATTA
* * *
19133830 GTACTAAA-TC
1 ATAATAAATTA
*
19133840 ATCAATAACTTA
1 AT-AATAAATTA
* *
19133852 GTAGTAAATTA
1 ATAATAAATTA
* * *
19133863 TTCATAACTTA
1 ATAATAAATTA
19133874 ATAATAAA-TA
1 ATAATAAATTA
*
19133884 ATTAATAATTTA
1 A-TAATAAATTA
*
19133896 ATAATAAATCA
1 ATAATAAATTA
* *
19133907 CTGAT-AATATA
1 ATAATAAAT-TA
*
19133918 GTAATAAATTA
1 ATAATAAATTA
*
19133929 ATAATAACTTA
1 ATAATAAATTA
19133940 AT
1 AT
19133942 TGTCAATCGA
Statistics
Matches: 87, Mismatches: 29, Indels: 15
0.66 0.22 0.11
Matches are distributed among these distances:
10 10 0.11
11 68 0.78
12 9 0.10
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.37
Consensus pattern (11 bp):
ATAATAAATTA
Found at i:19134230 original size:22 final size:22
Alignment explanation
Indices: 19134188--19134230 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19134178 TTTGGATAAC
*
19134188 TTAATAATAAATTATTCATATT
1 TTAATAATAAATTAGTCATATT
*
19134210 TTAATAATAAATTAGTGATAT
1 TTAATAATAAATTAGTCATAT
19134231 AACTTAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (22 bp):
TTAATAATAAATTAGTCATATT
Found at i:19135957 original size:19 final size:18
Alignment explanation
Indices: 19135920--19135961 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
19135910 TTTTTGTTAT
19135920 ATTTATTTTTTAAACTTAA
1 ATTTATTTTTTAAACTT-A
*
19135939 ATTTATATTTTT-AATTTA
1 ATTTAT-TTTTTAAACTTA
19135957 ATTTA
1 ATTTA
19135962 GTATGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTATTTTTTAAACTTA
Found at i:19140974 original size:27 final size:31
Alignment explanation
Indices: 19140915--19141004 Score: 112
Period size: 29 Copynumber: 3.0 Consensus size: 31
19140905 TAAATGACTC
19140915 ATAAATTATAAAAAAATATTTAATATAATAT
1 ATAAATTATAAAAAAATATTTAATATAATAT
*
19140946 ATAAATT-T-AAAAAATTTTTAATATAATAT
1 ATAAATTATAAAAAAATATTTAATATAATAT
* * * * *
19140975 TTGAACTATAAATAAATAATTAATATAATA
1 ATAAATTATAAAAAAATATTTAATATAATA
19141005 ATTAAAAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 24 0.48
30 2 0.04
31 24 0.48
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (31 bp):
ATAAATTATAAAAAAATATTTAATATAATAT
Found at i:19142199 original size:20 final size:21
Alignment explanation
Indices: 19142160--19142199 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
19142150 TAGGATGACA
**
19142160 TAAATGAAAGTACAGTAATCT
1 TAAATGAAAGTACAAAAATCT
19142181 TAAATG-AAGTACAAAAATC
1 TAAATGAAAGTACAAAAATC
19142200 ATCTGAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.25
Consensus pattern (21 bp):
TAAATGAAAGTACAAAAATCT
Found at i:19151020 original size:32 final size:33
Alignment explanation
Indices: 19150958--19151020 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
19150948 TTTTACTGTT
* **
19150958 TTTTTATATTTTTAAAAATTTATTGGATATTAA
1 TTTTTATATTTTTAAAAATTTAATAAATATTAA
*
19150991 TTTTTAT-TTTTTAAATATTTAATAAATATT
1 TTTTTATATTTTTAAAAATTTAATAAATATT
19151021 TTTATATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 19 0.73
33 7 0.27
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (33 bp):
TTTTTATATTTTTAAAAATTTAATAAATATTAA
Found at i:19151868 original size:21 final size:21
Alignment explanation
Indices: 19151846--19151885 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
19151836 TATATAAATA
19151846 TATATTT-TAT-TATTATATT
1 TATATTTATATATATTATATT
19151865 TATATTTATATATATTATATT
1 TATATTTATATATATTATATT
19151886 AATAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 3 0.16
21 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TATATTTATATATATTATATT
Found at i:19151896 original size:29 final size:30
Alignment explanation
Indices: 19151833--19151905 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
19151823 TTTCGTTAGT
* * * * *
19151833 TTATATATAAATATATATTTTATTATTATAT
1 TTAT-TATTAATATATATTATATTAATAAAA
*
19151864 TTA-TATTTATATATATTATATTAATAAAA
1 TTATTATTAATATATATTATATTAATAAAA
19151893 TTATTATTAATAT
1 TTATTATTAATAT
19151906 CTTAATTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
29 23 0.68
30 8 0.24
31 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
TTATTATTAATATATATTATATTAATAAAA
Found at i:19152379 original size:9 final size:9
Alignment explanation
Indices: 19152365--19152399 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
19152355 TGTCCTTTTT
19152365 ATAAATTAG
1 ATAAATTAG
*
19152374 ATAAATTTG
1 ATAAATTAG
*
19152383 TTAAATTAG
1 ATAAATTAG
19152392 ATAAATTA
1 ATAAATTA
19152400 TATTAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (9 bp):
ATAAATTAG
Found at i:19152793 original size:21 final size:20
Alignment explanation
Indices: 19152759--19152798 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
19152749 CCTATTTACC
19152759 TTTTTAAATATTTAATAATTA
1 TTTTTAAATATTTAA-AATTA
19152780 TTTTTAAA-ATTTTAAAATT
1 TTTTTAAATA-TTTAAAATT
19152799 TCTTGAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTTAAATATTTAAAATTA
Found at i:19152950 original size:15 final size:15
Alignment explanation
Indices: 19152920--19152961 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
19152910 CAAATTCGAA
*
19152920 TTTAATTTTTTCTTT
1 TTTAATCTTTTCTTT
19152935 TTTAAGTCTTTT-TTT
1 TTTAA-TCTTTTCTTT
19152950 TTTAATCTTTTC
1 TTTAATCTTTTC
19152962 CTAGTTTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 6 0.25
15 13 0.54
16 5 0.21
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTAATCTTTTCTTT
Found at i:19153788 original size:14 final size:14
Alignment explanation
Indices: 19153769--19153804 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
19153759 ATGAACTAAC
19153769 TATATTAAAAAATA
1 TATATTAAAAAATA
19153783 TATATTAAAAAATA
1 TATATTAAAAAATA
19153797 TATATTAA
1 TATATTAA
19153805 GATATCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TATATTAAAAAATA
Found at i:19157580 original size:15 final size:16
Alignment explanation
Indices: 19157555--19157584 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19157545 CTAAATCAAT
19157555 TTTATTTTTTATTTTG
1 TTTATTTTTTATTTTG
19157571 TTTA-TTTTTATTTT
1 TTTATTTTTTATTTT
19157585 ATTTCTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTATTTTTTATTTTG
Found at i:19157846 original size:7 final size:7
Alignment explanation
Indices: 19157821--19157867 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
19157811 TTTCATCTAT
19157821 ATTTTTA
1 ATTTTTA
* *
19157828 A-GTTTC
1 ATTTTTA
19157834 ATTTTTA
1 ATTTTTA
19157841 ATTTTTA
1 ATTTTTA
*
19157848 AGTTTTA
1 ATTTTTA
19157855 ATTTTTA
1 ATTTTTA
19157862 ATTTTT
1 ATTTTT
19157868 TTATTTGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
6 4 0.12
7 29 0.88
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (7 bp):
ATTTTTA
Found at i:19157858 original size:21 final size:20
Alignment explanation
Indices: 19157821--19157867 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 20
19157811 TTTCATCTAT
*
19157821 ATTTTTAAGTTTCATTTTTA
1 ATTTTTAAGTTTAATTTTTA
19157841 ATTTTTAAGTTTTAATTTTTA
1 ATTTTTAAG-TTTAATTTTTA
19157862 ATTTTT
1 ATTTTT
19157868 TTATTTGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (20 bp):
ATTTTTAAGTTTAATTTTTA
Found at i:19158741 original size:11 final size:11
Alignment explanation
Indices: 19158725--19158749 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19158715 ATGAAATTTA
19158725 AAATTTTCTAG
1 AAATTTTCTAG
19158736 AAATTTTCTAG
1 AAATTTTCTAG
19158747 AAA
1 AAA
19158750 ACTCACTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATTTTCTAG
Found at i:19160712 original size:20 final size:20
Alignment explanation
Indices: 19160687--19160724 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19160677 TATTTAGTTC
19160687 ATGAATTTAAAATTATTTTT
1 ATGAATTTAAAATTATTTTT
*
19160707 ATGAATTTAAGATTATTT
1 ATGAATTTAAAATTATTT
19160725 ATTTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (20 bp):
ATGAATTTAAAATTATTTTT
Found at i:19162363 original size:28 final size:29
Alignment explanation
Indices: 19162325--19162379 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
19162315 AATAAAGATA
*
19162325 ATAAAACAATCAATATCAGATAAATTTTT
1 ATAAAACAATCAATATCAAATAAATTTTT
*
19162354 ATAAAA-AATCAATATCAAATCAATTT
1 ATAAAACAATCAATATCAAATAAATTT
19162380 AAAATAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.33
Consensus pattern (29 bp):
ATAAAACAATCAATATCAAATAAATTTTT
Done.