Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000886.1 Hibiscus syriacus cultivar Beakdansim tig00001731_pilon, 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: 974096
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 3 of 4
Found at i:577563 original size:131 final size:131
Alignment explanation
Indices: 577400--577659 Score: 360
Period size: 131 Copynumber: 2.0 Consensus size: 131
577390 TTAGTACCCC
* * * ** * **
577400 AATTGAAATGAAGATATTTTACTATTTTGTCTT-AAAATCTATTATCGATTCGAGTGAAAATGCT
1 AATTGAAATGAAGAGATATCACTATTCCGTCTTAAAAATC-AATATCGATTCGACAGAAAATGCT
* * *
577464 AATATCTAATGATTTTCAATCGAGAATAAATGACCTCTCATACCTTGAAGCAGTCATTTATTACT
65 AATATCGAATGATTTCCAATAGAGAATAAATGACCTCTCATACCTTGAAGCAGTCATTTATTACT
577529 TT
130 TT
* *
577531 AATTGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATTGATTCGACAGAAAATGGTA
1 AATTGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATCGATTCGACAGAAAATGCTA
* * *
577596 ATATCGAATTATTTCCAATAGGGAATAAATGACCTCTCATGCCTTGAAGCAGTCATTTATTACT
66 ATATCGAATGATTTCCAATAGAGAATAAATGACCTCTCATACCTTGAAGCAGTCATTTATTACT
577660 CCAACCAAAA
Statistics
Matches: 112, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
131 106 0.95
132 6 0.05
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (131 bp):
AATTGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATCGATTCGACAGAAAATGCTA
ATATCGAATGATTTCCAATAGAGAATAAATGACCTCTCATACCTTGAAGCAGTCATTTATTACTT
T
Found at i:578132 original size:11 final size:11
Alignment explanation
Indices: 578116--578147 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
578106 AAAATGAACT
*
578116 AACATGCAAGC
1 AACATGCAAAC
578127 AACATGCAAAC
1 AACATGCAAAC
578138 AACATGCAAA
1 AACATGCAAA
578148 AATTAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.53, C:0.25, G:0.12, T:0.09
Consensus pattern (11 bp):
AACATGCAAAC
Found at i:580134 original size:86 final size:86
Alignment explanation
Indices: 580022--580214 Score: 226
Period size: 86 Copynumber: 2.2 Consensus size: 86
580012 CTTCTTCTTG
* * * * * * *
580022 AGGGAAAATCATATCGGGAAATGTTGATTCATTAC-ACTATTCTTCAGGGAAGATTGAATTGAGG
1 AGGGAAAATCAAATCTGGAAAAGTTGATACATT-CTACTATTCTTCAGAGAAGACTGAATCGAGG
** * * *
580086 TTGACTTGTTCCATTGTTCCTC
65 CAGACTTGTTCCACTATTACTC
*
580108 AGGGAAAATCAAATCTGTAAAAGTTGATACATTCTACTATTCTTCAGAGAAGACTGAATCGAGGC
1 AGGGAAAATCAAATCTGGAAAAGTTGATACATTCTACTATTCTTCAGAGAAGACTGAATCGAGGC
*
580173 AGACTTGTTCCACTATTACTT
66 AGACTTGTTCCACTATTACTC
* *
580194 AGGGAAGATCAAATCTTGAAA
1 AGGGAAAATCAAATCTGGAAA
580215 GAGAGGGATT
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
85 1 0.01
86 88 0.99
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (86 bp):
AGGGAAAATCAAATCTGGAAAAGTTGATACATTCTACTATTCTTCAGAGAAGACTGAATCGAGGC
AGACTTGTTCCACTATTACTC
Found at i:580342 original size:221 final size:218
Alignment explanation
Indices: 579908--580344 Score: 542
Period size: 218 Copynumber: 2.0 Consensus size: 218
579898 TCAGATTGAG
* * * * * * * *
579908 AAAAGTTGATTCATTCCACTGTTCTTTAGGGAAGATTGAATCGAGGTAGACTTGTTCCATTGTTA
1 AAAAGTTGATACATTCCACTATTCTTCAGAGAAGACTGAATCGAGGCAGACTTGTTCCACTATTA
* *
579973 CTCATAGAAGATCAAATTTGGAAAGAGAGATATGTTCCGCTTCTTCTTGAGGGAAAATCATATCG
66 CTCAGAGAAGATCAAATTTGGAAAGAGAGATATGTTCCGCTTCTTCTTAAGGGAAAATCATATCG
* * ** *
580038 GGAAATGTTGATTCATTACACTATTCTTCAGGGAAGATTGAATTGAGGTTGACTTGTTCCATTGT
131 GGAAATGTTGATTCATTACACTATTCTTCAGGAAAGATTGAATCGAGGCAGACTTGTTCCACTGT
* *
580103 TCCTCAGGGAAAATCAAATCTGT
196 TACTCAAGGAAAATCAAATCTGT
*
580126 AAAAGTTGATACATTCTACTATTCTTCAGAGAAGACTGAATCGAGGCAGACTTGTTCCACTATTA
1 AAAAGTTGATACATTCCACTATTCTTCAGAGAAGACTGAATCGAGGCAGACTTGTTCCACTATTA
* * * *
580191 CTTAGGGAAGATCAAATCTT-GAAAGAGAGGGATTTGTTTCGCTT-TTCATTAAGGGAAAAATCA
66 CTCAGAGAAGATCAAAT-TTGGAAAGAGA--GATATGTTCCGCTTCTTC-TTAAGGG-AAAATC-
* *
580254 GATAT-GGG-GATGTTGATTCATTCCACTGA-TCTTCAGGAAAGATTGAATCGAGGCAGACTTGT
125 -ATATCGGGAAATGTTGATTCATTACACT-ATTCTTCAGGAAAGATTGAATCGAGGCAGACTTGT
*
580316 TCCACTGTTACTCAAGGAATATCAAATCT
188 TCCACTGTTACTCAAGGAAAATCAAATCT
580345 TGAAAGTGAG
Statistics
Matches: 186, Mismatches: 25, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
218 78 0.42
219 5 0.03
220 18 0.10
221 77 0.41
222 4 0.02
223 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (218 bp):
AAAAGTTGATACATTCCACTATTCTTCAGAGAAGACTGAATCGAGGCAGACTTGTTCCACTATTA
CTCAGAGAAGATCAAATTTGGAAAGAGAGATATGTTCCGCTTCTTCTTAAGGGAAAATCATATCG
GGAAATGTTGATTCATTACACTATTCTTCAGGAAAGATTGAATCGAGGCAGACTTGTTCCACTGT
TACTCAAGGAAAATCAAATCTGT
Found at i:580563 original size:135 final size:134
Alignment explanation
Indices: 580112--580574 Score: 504
Period size: 135 Copynumber: 3.4 Consensus size: 134
580102 TTCCTCAGGG
* * * * * * * * *
580112 AAAATCAAATCTGTAAAAGTTGATACATTCTACTATTCTTCAGAGAAGACTGAATCGAGGCAGAC
1 AAAATCAGATCTGGAGATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGAC
* *
580177 TTGTTCCACTATTACTTAGGGAAGATCAAATCTTGAAAGAGAGGGATTTGTT-TCGC-TTTTCAT
66 TTGTTCCACTATTACTCAGAGAAGATCAAATCTTGAAAGAGAGGGATTTGTTCT-GCTTTTTC-T
*
580240 TAAGGGA
129 TGA-GGA
* * * *
580247 AAAATCAGATATGGGGATGTTGATTCATTCCACTGATCTTCAGGAAAGATTGAATCGAGGCAGAC
1 AAAATCAGATCTGGAGATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGAC
* * * * * *
580312 TTGTTCCACTGTTACTCA-AGGAATATCAAATCTTGAAAGTGAGTGATTTGTTCCGCTTCTTCTT
66 TTGTTCCACTATTACTCAGA-GAAGATCAAATCTTGAAAGAGAGGGATTTGTTCTGCTTTTTCTT
580376 GA-GA
130 GAGGA
* * * * *
580380 GAATATCAGATCTGGAGATGTTGATGCATTCCATTGTTCTTCAGGGAAGATTGAATTGAGGTAGA
1 -AAAATCAGATCTGGAGATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGA
* ***
580445 CTTGTTCCACTATTACTCAGAGAAGATCAAATCTTTGAAAGAAAGGGATCAATTCTGCTTTTTCT
65 CTTGTTCCACTATTACTCAGAGAAGATCAAATC-TTGAAAGAGAGGGATTTGTTCTGCTTTTTCT
*
580510 CGAGGA
129 TGAGGA
* * * *
580516 AAAATCTGATCTGGAAACT-TTGATTCATTCCACTGTTCTTTAGGGAAGATCGAATCGAG
1 AAAATCAGATCTGGAGA-TGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAG
580575 TCTAATTTGT
Statistics
Matches: 270, Mismatches: 50, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
133 2 0.01
134 84 0.31
135 177 0.66
136 7 0.03
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (134 bp):
AAAATCAGATCTGGAGATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGAC
TTGTTCCACTATTACTCAGAGAAGATCAAATCTTGAAAGAGAGGGATTTGTTCTGCTTTTTCTTG
AGGA
Found at i:581501 original size:213 final size:213
Alignment explanation
Indices: 581129--581531 Score: 594
Period size: 213 Copynumber: 1.9 Consensus size: 213
581119 CTTATGGATG
** * * ** *
581129 GCCCAAAGGACTTATCATCTTTCTTGAAAGGCTTATAGATGACACAAAGGATTTACTCATCATGC
1 GCCCAAAGGACTTATCATCTTTCTCAAAAGACTTATAGATGACACAAAGAATTTAAGCATCATGA
*
581194 TCAAAAGACTTAGTGATGGCTCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTATGAAAC
66 TCAAAAGACTTAGTGATGGCTCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAAC
*
581259 TTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAACGAGAAACTTTTCTCATTTTTAGAGA
131 TTTTCTTACTTTTCAAAAATTTCAATTTTCAGAATTAAACGAGAAACTTTTCTCATTTTTAGAGA
581324 GACATGTGAAAACATCTT
196 GACATGTGAAAACATCTT
* ** *
581342 GCCCGAAGGACTTATCATCTTGT-TCAAAAGACTTATAGATGATGCGAAGAATTTAAGCATCATG
1 GCCCAAAGGACTTATCATCTT-TCTCAAAAGACTTATAGATGACACAAAGAATTTAAGCATCATG
* *
581406 ATCAAAAGACTTATTGATGGCTCGAAGGACTTACCCATTTTGGAAATAGTTTACTAGGTAAGAAA
65 ATCAAAAGACTTAGTGATGGCTCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAA
* * * * *
581471 CTTTTCTTACTTTT-ATGAAATTTTAATTTTCAGAATTAAATGAGATACTTTTCTCTTTTTT
130 CTTTTCTTACTTTTCA-AAAATTTCAATTTTCAGAATTAAACGAGAAACTTTTCTCATTTTT
581532 CGAAAAAAAA
Statistics
Matches: 168, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
212 1 0.01
213 166 0.99
214 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (213 bp):
GCCCAAAGGACTTATCATCTTTCTCAAAAGACTTATAGATGACACAAAGAATTTAAGCATCATGA
TCAAAAGACTTAGTGATGGCTCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAAC
TTTTCTTACTTTTCAAAAATTTCAATTTTCAGAATTAAACGAGAAACTTTTCTCATTTTTAGAGA
GACATGTGAAAACATCTT
Found at i:581586 original size:20 final size:20
Alignment explanation
Indices: 581561--581613 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
581551 AACATCCTGT
*
581561 CCGAAGGTCTTATGGATGAC
1 CCGAAGGACTTATGGATGAC
*
581581 CCGAAGGACTTATGGATGGC
1 CCGAAGGACTTATGGATGAC
581601 CCGAAGGACTTAT
1 CCGAAGGACTTAT
581614 CATCTTACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (20 bp):
CCGAAGGACTTATGGATGAC
Found at i:585226 original size:19 final size:19
Alignment explanation
Indices: 585202--585246 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
585192 GTTATCTCAA
585202 CATGATCTGGGTTTTTAGT
1 CATGATCTGGGTTTTTAGT
*
585221 CATGATCTGGGTTTTTGGT
1 CATGATCTGGGTTTTTAGT
585240 CATGATC
1 CATGATC
585247 CAATGTGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.16, C:0.13, G:0.27, T:0.44
Consensus pattern (19 bp):
CATGATCTGGGTTTTTAGT
Found at i:591675 original size:128 final size:130
Alignment explanation
Indices: 591411--591730 Score: 335
Period size: 128 Copynumber: 2.5 Consensus size: 130
591401 GAGAAAACTA
* * * * * * * ** * *
591411 TAATATCTAATTATTTCTAATCGAGAAT-AATGACCTTTCATGCCTTAAAACAGTCAATTATTAC
1 TAATATCGAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTGAAGCAACCATTTA-TGC
* * *
591475 CCCAATTAAAATGAAGATATATTACTATTTCATCTTAAAATCTAATATCGATTCGAGTAAAAATG
65 TCCAATTAAAATGAAGACATATCACTATTTCATCTTAAAATCTAATATCGATTCGAGTAAAAATG
591540 C
130 C
* * * * *
591541 TAATATCTAATGATTTTCAATTGAGAATAAATTACCTCTCATACCTTGAAGCAATCATTTATGCT
1 TAATATCGAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTGAAGCAACCATTTATGCT
* * *
591606 CCAATTGAAATGAAG-CATATCACTATTT-TTCTTAAAAGTC-AATATTGATTCGA-TAGAAAAT
66 CCAATTAAAATGAAGACATATCACTATTTCATCTTAAAA-TCTAATATCGATTCGAGTA-AAAAT
*
591667 GG
129 GC
* * * *
591669 TAATATCGAATTATTTCCAATCGGGAATAAATGACCTCTCATGCCTTGAAGCAGCCATTTAT
1 TAATATCGAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTGAAGCAACCATTTAT
591731 TACTCCAACC
Statistics
Matches: 159, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
127 2 0.01
128 79 0.50
129 13 0.08
130 40 0.25
131 25 0.16
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.35
Consensus pattern (130 bp):
TAATATCGAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTGAAGCAACCATTTATGCT
CCAATTAAAATGAAGACATATCACTATTTCATCTTAAAATCTAATATCGATTCGAGTAAAAATGC
Found at i:594213 original size:46 final size:46
Alignment explanation
Indices: 594161--594252 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
594151 AGCAATCATT
594161 TATTGCTCCAATTGAAATGAAGAGATATCACTATTTTGTCTTAAAA
1 TATTGCTCCAATTGAAATGAAGAGATATCACTATTTTGTCTTAAAA
594207 TATTGCTCCAATTGAAATGAAGAGATATCACTATTTTGTCTTAAAA
1 TATTGCTCCAATTGAAATGAAGAGATATCACTATTTTGTCTTAAAA
594253 ATCAATATTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (46 bp):
TATTGCTCCAATTGAAATGAAGAGATATCACTATTTTGTCTTAAAA
Found at i:597574 original size:3 final size:3
Alignment explanation
Indices: 597566--597602 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
597556 AATGGGCTAC
597566 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
597603 CTTCGGGATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:598176 original size:18 final size:18
Alignment explanation
Indices: 598153--598188 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
598143 AAACCGGATC
598153 TATTCGTCTATGATATAA
1 TATTCGTCTATGATATAA
598171 TATTCGTCTATGATATAA
1 TATTCGTCTATGATATAA
598189 GATTTATCTT
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:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (18 bp):
TATTCGTCTATGATATAA
Found at i:599123 original size:46 final size:46
Alignment explanation
Indices: 599055--599145 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
599045 AATATGTATG
*
599055 TCCCAAATCTCAATGGTTGAAGTTACGAGTTGTTAACCAGTGGAGC
1 TCCCAAATCTCAATGGTAGAAGTTACGAGTTGTTAACCAGTGGAGC
599101 TCCCAAATCTCAATGGTAGAAGTTACGAGTTGTTAACCAGTGGAG
1 TCCCAAATCTCAATGGTAGAAGTTACGAGTTGTTAACCAGTGGAG
599146 GTCGATTAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (46 bp):
TCCCAAATCTCAATGGTAGAAGTTACGAGTTGTTAACCAGTGGAGC
Found at i:603995 original size:157 final size:156
Alignment explanation
Indices: 603626--604013 Score: 474
Period size: 157 Copynumber: 2.5 Consensus size: 156
603616 TTTCTCCTCC
* *
603626 ATTTTAAGTCCATTTTTACCAAATTTGAACCACATGCTCCTAAACCATAGTAGAATACATGTGTA
1 ATTTTAAGTCTATTTTTACCAAATTTGAACCACATGCTCCTAAACCATAGTAGAATACATATGTA
* *
603691 CTTTCAATTCCTCTTTTTGATAAAAAATTTTATATTTTTCAATTTTGTCTTTCAATTTTTCATAA
66 CTTTCAATTCCTCTTTTTGATAAAAAATTTTATATTTTTCAATTTAGTCCTTCAATTTTTCATAA
* ***
603756 TTTCCTTATTTCTTCAATCGTCATTT
131 TCTCCTTACACCTTCAATCGTCATTT
* * * * * *
603782 ATTTTAAGTGTGGTTTTCACCAAATTTGAGCCACATGATCCTAAACCATAGTAGAATACATATTT
1 ATTTTAAGTCT-ATTTTTACCAAATTTGAACCACATGCTCCTAAACCATAGTAGAATACATATGT
* * *
603847 ACTTTCAATTCCTCTTTTTGATATAAAGTTTT-TATTTTTCAATTTAGTCCTTCTATTTTTCATA
65 ACTTTCAATTCCTCTTTTTGATAAAAAATTTTATATTTTTCAATTTAGTCCTTCAATTTTTCATA
* * *
603911 ATCTCTTTACACCTTCAATTTGTGATTT
130 ATCTCCTTACACCTTCAA-TCGTCATTT
* * * * * *
603939 ATTTTAAGTCTTTTATTTATCAAATTTGAACCACATGCTCATATACCACAAG-AGAATACCTATG
1 ATTTTAAGTCTATT-TTTACCAAATTTGAACCACATGCTCCTAAACCA-TAGTAGAATACATATG
**
604003 TAAGTTCAATT
64 TACTTTCAATT
604014 GTTAATTTTT
Statistics
Matches: 195, Mismatches: 33, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
156 53 0.27
157 140 0.72
158 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.45
Consensus pattern (156 bp):
ATTTTAAGTCTATTTTTACCAAATTTGAACCACATGCTCCTAAACCATAGTAGAATACATATGTA
CTTTCAATTCCTCTTTTTGATAAAAAATTTTATATTTTTCAATTTAGTCCTTCAATTTTTCATAA
TCTCCTTACACCTTCAATCGTCATTT
Found at i:615926 original size:18 final size:18
Alignment explanation
Indices: 615903--615940 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
615893 AATTGCCTTT
* *
615903 TATTTAATTTCTTTTTAC
1 TATTTAATATATTTTTAC
615921 TATTTAATATATTTTTAC
1 TATTTAATATATTTTTAC
615939 TA
1 TA
615941 AAACTTCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTAATATATTTTTAC
Found at i:616450 original size:19 final size:19
Alignment explanation
Indices: 616418--616460 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
616408 AAGTTCTATC
*
616418 TTTTCTTTTCAAGTTTTCAT
1 TTTTATTTTCAAGTTTTC-T
616438 TTTTATTTT-AAGTTTTCT
1 TTTTATTTTCAAGTTTTCT
616456 TTTTA
1 TTTTA
616461 AACATACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.27
19 8 0.36
20 8 0.36
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTATTTTCAAGTTTTCT
Found at i:622208 original size:27 final size:26
Alignment explanation
Indices: 622155--622210 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
622145 ATGGTCTGAC
* *
622155 GTGGCAGTTTCTAGAAGGTCCAGTCA
1 GTGGCAGTTTCTAGAAGATCCAATCA
*
622181 GTGGCAGTTTTCTAGAAGATCTAATCA
1 GTGGCAG-TTTCTAGAAGATCCAATCA
622208 GTG
1 GTG
622211 CGCCTTCTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (26 bp):
GTGGCAGTTTCTAGAAGATCCAATCA
Found at i:622460 original size:19 final size:19
Alignment explanation
Indices: 622428--622470 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
622418 CTCTCTTTTC
*
622428 TTTTCTTTTCAAGTTTTCAT
1 TTTTATTTTCAAGTTTT-AT
622448 TTTTATTTT-AAGTTTTAT
1 TTTTATTTTCAAGTTTTAT
622466 TTTTA
1 TTTTA
622471 AACATGCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 8 0.36
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTATTTTCAAGTTTTAT
Found at i:623872 original size:61 final size:61
Alignment explanation
Indices: 623807--623928 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
623797 GTTTGAAATG
623807 TTAAATTAGGTGTTTCATTTTGTTTAAGTAAAGGTTAATTTATTAGATGAGAATTGAACTA
1 TTAAATTAGGTGTTTCATTTTGTTTAAGTAAAGGTTAATTTATTAGATGAGAATTGAACTA
623868 TTAAATTAGGTGTTTCATTTTGTTTAAGTAAAGGTTAATTTATTAGATGAGAATTGAACTA
1 TTAAATTAGGTGTTTCATTTTGTTTAAGTAAAGGTTAATTTATTAGATGAGAATTGAACTA
623929 CGATATTCAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.44
Consensus pattern (61 bp):
TTAAATTAGGTGTTTCATTTTGTTTAAGTAAAGGTTAATTTATTAGATGAGAATTGAACTA
Found at i:624454 original size:31 final size:32
Alignment explanation
Indices: 624418--624477 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
624408 TATGAGTTTA
*
624418 TGTTATAGGTGA-AAATG-TCATACGTGAAAAG
1 TGTTATACGTGAGAAATGATC-TACGTGAAAAG
624449 TGTTATACGTGAGAAATGATCTACGTGAA
1 TGTTATACGTGAGAAATGATCTACGTGAA
624478 TATGATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 11 0.42
32 13 0.50
33 2 0.08
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (32 bp):
TGTTATACGTGAGAAATGATCTACGTGAAAAG
Found at i:624458 original size:16 final size:15
Alignment explanation
Indices: 624417--624477 Score: 68
Period size: 16 Copynumber: 3.9 Consensus size: 15
624407 ATATGAGTTT
*
624417 ATGTTATAGGTGAAA
1 ATGTTATACGTGAAA
*
624432 ATGTCATACGTGAAA
1 ATGTTATACGTGAAA
624447 AGTGTTATACGTGAGAA
1 A-TGTTATACGTGA-AA
* *
624464 ATGATCTACGTGAA
1 ATGTTATACGTGAA
624478 TATGATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
15 15 0.38
16 21 0.54
17 3 0.08
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (15 bp):
ATGTTATACGTGAAA
Found at i:628328 original size:13 final size:13
Alignment explanation
Indices: 628312--628336 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
628302 TTGTTTTTTC
628312 TTCTTCTTCTTCT
1 TTCTTCTTCTTCT
628325 TTCTTCTTCTTC
1 TTCTTCTTCTTC
628337 AAATCAATCA
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (13 bp):
TTCTTCTTCTTCT
Found at i:631941 original size:29 final size:30
Alignment explanation
Indices: 631893--631963 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
631883 AATTATTCCC
* *
631893 CTAATAACAAATATTGAAAAATTTGGACCT
1 CTAATAACAAATATTGAAAAAATTGAACCT
* *
631923 CTAATAATAAGTATT-AAAAAATTGAACCT
1 CTAATAACAAATATTGAAAAAATTGAACCT
*
631952 TTAATAACAAAT
1 CTAATAACAAAT
631964 GTTAGGGAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 21 0.62
30 13 0.38
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (30 bp):
CTAATAACAAATATTGAAAAAATTGAACCT
Found at i:634252 original size:21 final size:21
Alignment explanation
Indices: 634226--634275 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
634216 ATTTTAGCTA
*
634226 AACCGAAATTAACCCGAACTG
1 AACCGAAAGTAACCCGAACTG
634247 AACCGAAAGTAACCCGAACTG
1 AACCGAAAGTAACCCGAACTG
634268 AACCGAAA
1 AACCGAAA
634276 ATGGTCCGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.46, C:0.28, G:0.16, T:0.10
Consensus pattern (21 bp):
AACCGAAAGTAACCCGAACTG
Found at i:634943 original size:16 final size:16
Alignment explanation
Indices: 634924--634956 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
634914 AATGAGTAAA
634924 TTGATTATGTGAAGTT
1 TTGATTATGTGAAGTT
634940 TTGATTATGTGAAGTT
1 TTGATTATGTGAAGTT
634956 T
1 T
634957 AAAAGACGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (16 bp):
TTGATTATGTGAAGTT
Found at i:637015 original size:24 final size:24
Alignment explanation
Indices: 636988--637036 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
636978 CATTCGGTAA
*
636988 TATATTCGTTTATGTTCCTTCATT
1 TATATTCATTTATGTTCCTTCATT
*
637012 TATATTCATTTATGTTCGTTCATT
1 TATATTCATTTATGTTCCTTCATT
637036 T
1 T
637037 TCGTTTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.18, C:0.14, G:0.08, T:0.59
Consensus pattern (24 bp):
TATATTCATTTATGTTCCTTCATT
Found at i:637047 original size:24 final size:24
Alignment explanation
Indices: 637019--637075 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
637009 ATTTATATTC
* *
637019 ATTTATGTTCGTTCATTTTCGTTT
1 ATTTATGTTCGTTCATGTGCGTTT
* *
637043 GTTTATGTTCGTTTATGTGCGTTT
1 ATTTATGTTCGTTCATGTGCGTTT
637067 ATTTATGTT
1 ATTTATGTT
637076 TAGCCCAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.12, C:0.09, G:0.18, T:0.61
Consensus pattern (24 bp):
ATTTATGTTCGTTCATGTGCGTTT
Found at i:637313 original size:14 final size:15
Alignment explanation
Indices: 637294--637323 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
637284 AATTAAAATA
637294 AAATTGTA-AAATTT
1 AAATTGTATAAATTT
637308 AAATTGTATAAATTT
1 AAATTGTATAAATTT
637323 A
1 A
637324 GATTAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (15 bp):
AAATTGTATAAATTT
Found at i:637543 original size:12 final size:12
Alignment explanation
Indices: 637524--637576 Score: 79
Period size: 12 Copynumber: 4.3 Consensus size: 12
637514 GTTCTGCCTC
637524 CCCCTTCCTCCT
1 CCCCTTCCTCCT
*
637536 CTCCTTCCTCCT
1 CCCCTTCCTCCT
*
637548 CCCCTTCCACCT
1 CCCCTTCCTCCT
637560 CCCCTTCCTCCTT
1 CCCCTTCCTCC-T
637573 CCCC
1 CCCC
637577 ATCATTGTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
12 31 0.86
13 5 0.14
ACGTcount: A:0.02, C:0.66, G:0.00, T:0.32
Consensus pattern (12 bp):
CCCCTTCCTCCT
Found at i:638037 original size:24 final size:24
Alignment explanation
Indices: 638005--638123 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
637995 TGTTCATTTA
*
638005 TTGTGTTCGTTTACGTTTGTTCAT
1 TTGTGTTCGTTTACGTTCGTTCAT
*
638029 TTGTATTCGTTTACGTTCGTTCAT
1 TTGTGTTCGTTTACGTTCGTTCAT
*
638053 TTGTGTTCGTTTACGTTCGTTTA-
1 TTGTGTTCGTTTACGTTCGTTCAT
* *
638076 TTGTGCTCGTTTACGTTCGTTTA-
1 TTGTGTTCGTTTACGTTCGTTCAT
*
638099 TTGTGTTCGTTTATGTTCGTTCAT
1 TTGTGTTCGTTTACGTTCGTTCAT
638123 T
1 T
638124 CATGAACGAA
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
23 42 0.49
24 44 0.51
ACGTcount: A:0.09, C:0.14, G:0.20, T:0.56
Consensus pattern (24 bp):
TTGTGTTCGTTTACGTTCGTTCAT
Found at i:638085 original size:23 final size:23
Alignment explanation
Indices: 637991--638119 Score: 168
Period size: 23 Copynumber: 5.5 Consensus size: 23
637981 TGTACGATCA
* *
637991 TTTATGTTCATTTATTGTGTTCG
1 TTTACGTTCGTTTATTGTGTTCG
* * *
638014 TTTACGTTTGTTCATTTGTATTCG
1 TTTACGTTCGTTTA-TTGTGTTCG
*
638038 TTTACGTTCGTTCATTTGTGTTCG
1 TTTACGTTCGTTTA-TTGTGTTCG
*
638062 TTTACGTTCGTTTATTGTGCTCG
1 TTTACGTTCGTTTATTGTGTTCG
638085 TTTACGTTCGTTTATTGTGTTCG
1 TTTACGTTCGTTTATTGTGTTCG
*
638108 TTTATGTTCGTT
1 TTTACGTTCGTT
638120 CATTCATGAA
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
23 51 0.54
24 43 0.46
ACGTcount: A:0.10, C:0.13, G:0.19, T:0.57
Consensus pattern (23 bp):
TTTACGTTCGTTTATTGTGTTCG
Found at i:638115 original size:10 final size:10
Alignment explanation
Indices: 638056--638119 Score: 56
Period size: 10 Copynumber: 5.8 Consensus size: 10
638046 CGTTCATTTG
638056 TGTTCGTTTA
1 TGTTCGTTTA
*
638066 CGTTCGTTTA
1 TGTTCGTTTA
638076 TTGTGCTCGTTTA
1 -TGT--TCGTTTA
*
638089 CGTTCGTTTA
1 TGTTCGTTTA
638099 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
638112 TGTTCGTT
1 TGTTCGTT
638120 CATTCATGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 24 0.55
11 2 0.05
12 2 0.05
13 16 0.36
ACGTcount: A:0.08, C:0.14, G:0.22, T:0.56
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:643879 original size:10 final size:10
Alignment explanation
Indices: 643864--643893 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
643854 TAAGATTGAG
643864 TAAAAAAATA
1 TAAAAAAATA
643874 TAAAAAAATA
1 TAAAAAAATA
643884 TAAAAAAATA
1 TAAAAAAATA
643894 AAACAAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
TAAAAAAATA
Found at i:643905 original size:23 final size:20
Alignment explanation
Indices: 643864--643911 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 20
643854 TAAGATTGAG
*
643864 TAAAAAAATATAAAAAAATA
1 TAAAAAAATAAAAAAAAATA
643884 TAAAAAAATAAAACAAGCAAATA
1 TAAAAAAATAAAA-AA--AAATA
643907 TAAAA
1 TAAAA
643912 GTTGTTACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 12 0.50
21 2 0.08
23 10 0.42
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (20 bp):
TAAAAAAATAAAAAAAAATA
Found at i:644765 original size:3 final size:3
Alignment explanation
Indices: 644745--644785 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
644735 GTACGTGCAA
*
644745 AAT AAT ATAT AA- ATT AAT AAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
644786 GTTTTCGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 3 0.09
3 27 0.82
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:645035 original size:66 final size:66
Alignment explanation
Indices: 644953--645407 Score: 232
Period size: 66 Copynumber: 7.4 Consensus size: 66
644943 CATTAGGCAC
*
644953 GATATCCTTCGTCGTGAAGTTGAAATCGTGAATGGCTCCTTCGTTGTGAAGTTGAGCTTTGAATA
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGAATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATA
645018 G
66 G
* * * * * *
645019 GATATCCTTCATCGTGAAGTTGAAATC--CAAGGGTTGCATT-GCTGCTTAAG--G-GC------
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGAATGGCT-CATTCGTTG-TGAAGTTGAGCTTTGAA
*
645072 -AC
64 TAG
* * * *
645074 GATATCATTCGTCGTGAAGATGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGAATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATA
645139 G
66 G
* * * * * * ***
645140 GATATCATTCGTCATGAAGTTGAAATC--CAAGGGTTGCATT--TT-T---GTT----TGTGGGC
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGAATGGCT-CATTCGTTGTGAAGTTGAGCTTTGAAT
*
645193 AC
65 AG
* * * * * *
645195 GATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTAACCTTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGAATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATA
645260 G
66 G
* * * * * *
645261 GATATCCTTCGTCGTGAAGTTGAAATC--CAAGGGTTGCATT-GCTTCT--TG-TG-G----GCA
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGAATGGCT-CATTCG-TTGTGAAGTTGAGCTTTGAA
*
645315 CA-
64 TAG
* * *
645317 -ATATCCTTCGTCGTGAATTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGAATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATA
645381 G
66 G
* *
645382 GATATCCTTCTTC-TGAAGATGAAATC
1 GATATCCTTCGTCGTGAAGTTGAAATC
645408 CAAGGGTTAC
Statistics
Matches: 275, Mismatches: 71, Indels: 87
0.64 0.16 0.20
Matches are distributed among these distances:
55 77 0.28
56 18 0.07
57 18 0.07
58 4 0.01
59 8 0.03
60 1 0.00
62 7 0.03
63 4 0.01
64 19 0.07
65 28 0.10
66 91 0.33
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.35
Consensus pattern (66 bp):
GATATCCTTCGTCGTGAAGTTGAAATCGTGAATGGCTCATTCGTTGTGAAGTTGAGCTTTGAATA
G
Found at i:645162 original size:121 final size:121
Alignment explanation
Indices: 644948--645423 Score: 738
Period size: 121 Copynumber: 3.9 Consensus size: 121
644938 CGATCCATTA
* *
644948 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGAATGGCTCCTTCGTTGTGAAGTTGAGCTTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
* * **
645013 GAATAGGATATCCTTCATCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTAAG
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTG
* *
645069 GGCACGATATCATTCGTCGTGAAGATGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
* * ** *
645134 GAATTGGATATCATTCGTCATGAAGTTGAAATCCAAGGGTTGCATTTTTGTTTGTG
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTG
* * * *
645190 GGCACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTAACCTTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
*
645255 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTTCTTGTG
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTG
* *
645311 GGCACAATATCCTTCGTCGTGAATTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
1 GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
* * *
645376 GAATTGGATATCCTTCTTC-TGAAGATGAAATCCAAGGGTTACATTGCT
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCT
645424 TCGAGTCCAA
Statistics
Matches: 321, Mismatches: 34, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
120 27 0.08
121 294 0.92
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (121 bp):
GGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTG
Found at i:645499 original size:64 final size:64
Alignment explanation
Indices: 645426--645832 Score: 647
Period size: 64 Copynumber: 6.5 Consensus size: 64
645416 ACATTGCTTC
*
645426 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
*
645490 GAGTCCAATA----TC-CT-T--AGTTGAAATTGACTCTGAATGAAACTGAAAAGTTG-TTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
*
645545 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* * *
645609 GAGTCCAATAACCTTCGCTAG-GAAGTTGAAATTAACTCTGAATGAAACTGAAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
*
645673 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTCGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
*
645737 GAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
*
645801 GAGTCCAATAT-CTTCGTTGTGAAGTTGAAATT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
645833 AAAAAAGCTA
Statistics
Matches: 317, Mismatches: 15, Indels: 23
0.89 0.04 0.06
Matches are distributed among these distances:
55 15 0.05
56 34 0.11
58 1 0.00
59 3 0.01
60 4 0.01
61 1 0.00
63 55 0.17
64 203 0.64
65 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.34
Consensus pattern (64 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
Found at i:649505 original size:12 final size:12
Alignment explanation
Indices: 649488--649525 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
649478 TAAAAAAACC
649488 AAAAACAAATAA
1 AAAAACAAATAA
649500 AAAAACAAATAA
1 AAAAACAAATAA
**
649512 AAAAGGAAATAA
1 AAAAACAAATAA
649524 AA
1 AA
649526 TAAAACAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.08
Consensus pattern (12 bp):
AAAAACAAATAA
Found at i:650403 original size:3 final size:3
Alignment explanation
Indices: 650383--650431 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
650373 GTGTCTGTAA
* *
650383 AAT AAT ATAT AA- ATT AAT AAT AAT AAT TAT AAT AAT AAT -AT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
650427 -AT AAT
1 AAT AAT
650432 GTAATATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 5 0.13
3 30 0.79
4 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
AAT
Found at i:650403 original size:15 final size:16
Alignment explanation
Indices: 650383--650431 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
650373 GTGTCTGTAA
650383 AATAATATATAAAT-T
1 AATAATATATAAATAT
*
650398 AATAATA-ATAATTAT
1 AATAATATATAAATAT
650413 AATAATA-ATATAATAT
1 AATAATATATA-AATAT
650429 AAT
1 AAT
650432 GTAATATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 5 0.17
15 18 0.60
16 7 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATATATAAATAT
Found at i:650436 original size:18 final size:17
Alignment explanation
Indices: 650383--650437 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
650373 GTGTCTGTAA
650383 AATAATAT-ATA-AATT
1 AATAATATAATATAATT
650398 AATAATAATAATTATAA-T
1 AATAAT-ATAA-TATAATT
650416 AATAATATAATATAATGT
1 AATAATATAATATAAT-T
650434 AATA
1 AATA
650438 TTTTCATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
15 6 0.18
16 7 0.21
17 5 0.15
18 14 0.41
19 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
AATAATATAATATAATT
Found at i:652735 original size:80 final size:77
Alignment explanation
Indices: 652572--652884 Score: 257
Period size: 80 Copynumber: 4.1 Consensus size: 77
652562 AAAAATATAG
* * **
652572 TATAG-TTTT-AAAAAAT-ATTTTTGAAAAACATATA-ATATATAGTTTTTAGAAAAC-GGTTTT
1 TATAGTTTTTAAAAAAATGATTTTT-AAAAATATATATA-ATATA-ATTTT-GAAAACATATTTT
652632 T-AAAAGCAATATAATA
62 TGAAAA-CAATATAATA
652648 TATAGTTTTTAAAAAAATCGATTTTTAAAAATATATATAATATAATTTTGAAAACATATTTTTGG
1 TATAGTTTTTAAAAAAAT-GATTTTTAAAAATATATATAATATAATTTTGAAAACATATTTTT-G
652713 AAAACATATATAATA
64 AAAACA-ATATAATA
* * * * *
652728 TATAGTTTTTTTAAAAATATG-TTTTGGAAAACATATA-AT-ATATAGTTTCGAAAACAAATTTT
1 TATAG--TTTTTAAAAAAATGATTTT-TAAAA-ATATATATAATATAATTTTGAAAACATATTTT
652790 TGAAAAC-ATATAATA
62 TGAAAACAATATAATA
* * * * *
652805 TA-A--TTTT---AAAAT-ATTTTTGAAAATGTATATAATATAGTTTTTGAAAACGTATTTTTAA
1 TATAGTTTTTAAAAAAATGATTTTTAAAAATATATATAATATA-ATTTTGAAAACATATTTTTGA
652863 AAAC-ATATAATA
65 AAACAATATAATA
652875 TATAGTTTTT
1 TATAGTTTTT
652885 CTAAATATTT
Statistics
Matches: 199, Mismatches: 18, Indels: 43
0.77 0.07 0.17
Matches are distributed among these distances:
67 4 0.02
68 5 0.03
69 13 0.07
70 30 0.15
71 1 0.01
72 4 0.02
73 4 0.02
76 6 0.03
77 20 0.10
78 16 0.08
79 23 0.12
80 49 0.25
81 7 0.04
82 17 0.09
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (77 bp):
TATAGTTTTTAAAAAAATGATTTTTAAAAATATATATAATATAATTTTGAAAACATATTTTTGAA
AACAATATAATA
Found at i:652791 original size:38 final size:36
Alignment explanation
Indices: 652572--652946 Score: 282
Period size: 38 Copynumber: 9.9 Consensus size: 36
652562 AAAAATATAG
*
652572 TATAGTTTTAAAAAATATTTTTGAAAAACATATAATA
1 TATAGTTTTGAAAAATATTTTTG-AAAACATATAATA
***
652609 TATAGTTTTTAGAAAACGGTTTTT-AAAAGCAATATAATA
1 TATAG-TTTT-GAAAAATATTTTTGAAAA-C-ATATAATA
*
652648 TATAGTTTTTAAAAAAATCGATTTTT-AAAA-ATATATATAA
1 TATAG-TTTT-GAAAAAT--ATTTTTGAAAACATATA-AT-A
*
652688 TATAATTTTGAAAACATATTTTTGGAAAACATATATAATA
1 TATAGTTTTGAAAA-ATATTTTT-GAAAAC--ATATAATA
*
652728 TATAGTTTTTTTAAAAATATGTTTTGGAAAACATATAATA
1 TATAG--TTTTGAAAAATAT-TTTT-GAAAACATATAATA
* *
652768 TATAGTTTCGAAAACAAATTTTTGAAAACATATAATA
1 TATAGTTTTGAAAA-ATATTTTTGAAAACATATAATA
**
652805 TA-A-TTTT--AAAATATTTTTGAAAATGTAT-ATAA
1 TATAGTTTTGAAAAATATTTTTGAAAACATATAAT-A
* *
652837 TATAGTTTTTGAAAACGTATTTTTAAAAACATATAATA
1 TATAG-TTTTGAAAA-ATATTTTTGAAAACATATAATA
***
652875 TATAGTTTTTCTAAATATTTTTGAAAACATATAGTATA
1 TATAGTTTTGAAAAATATTTTTGAAAACATATA--ATA
** *
652913 TATA-TTTTTTAAAATGGTTTTTGAAAACATATAA
1 TATAGTTTTGAAAAAT-ATTTTTGAAAACATATAA
652947 CAATTTTTTT
Statistics
Matches: 278, Mismatches: 31, Indels: 59
0.76 0.08 0.16
Matches are distributed among these distances:
31 2 0.01
32 18 0.06
33 4 0.01
35 7 0.03
36 19 0.07
37 49 0.18
38 68 0.24
39 49 0.18
40 23 0.08
41 15 0.05
42 24 0.09
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (36 bp):
TATAGTTTTGAAAAATATTTTTGAAAACATATAATA
Found at i:653008 original size:5 final size:5
Alignment explanation
Indices: 652993--653057 Score: 78
Period size: 5 Copynumber: 12.2 Consensus size: 5
652983 AATATATACA
652993 TATTAT TATTT TATTT TCATTT TATTT TATTT TATTT TA-TT TATTATT
1 TATT-T TATTT TATTT T-ATTT TATTT TATTT TATTT TATTT TA-T-TT
653041 TATTT TATTCT TATTT T
1 TATTT TATT-T TATTT T
653058 TCAGTTCCAA
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
4 4 0.07
5 31 0.57
6 15 0.28
7 4 0.07
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (5 bp):
TATTT
Found at i:653019 original size:16 final size:15
Alignment explanation
Indices: 652993--653057 Score: 78
Period size: 16 Copynumber: 4.1 Consensus size: 15
652983 AATATATACA
652993 TATTATTATTTTATTT
1 TATT-TTATTTTATTT
653009 TCATTTTATTTTATTT
1 T-ATTTTATTTTATTT
653025 TATTTTA-TTTATTATT
1 TATTTTATTTTA-T-TT
653041 TATTTTATTCTTATTT
1 TATTTTATT-TTATTT
653057 T
1 T
653058 TCAGTTCCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.09
15 7 0.16
16 25 0.57
17 5 0.11
18 3 0.07
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (15 bp):
TATTTTATTTTATTT
Found at i:653054 original size:11 final size:10
Alignment explanation
Indices: 652993--653057 Score: 78
Period size: 11 Copynumber: 6.1 Consensus size: 10
652983 AATATATACA
652993 TATTATTATTT
1 TATT-TTATTT
653004 TATTTTCATTT
1 TATTTT-ATTT
653015 TATTTTATTT
1 TATTTTATTT
653025 TATTTTA-TT
1 TATTTTATTT
653034 TATTATTTATTT
1 TA-T-TTTATTT
653046 TATTCTTATTT
1 TATT-TTATTT
653057 T
1 T
653058 TCAGTTCCAA
Statistics
Matches: 49, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.08
10 15 0.31
11 26 0.53
12 4 0.08
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (10 bp):
TATTTTATTT
Found at i:654289 original size:19 final size:20
Alignment explanation
Indices: 654252--654294 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
654242 TTATTTATTT
654252 TTTTCTTTTAATTTTAACA-
1 TTTTCTTTTAATTTTAACAG
*
654271 TTTT-TTTTATTTTTAAACAG
1 TTTTCTTTTAATTTT-AACAG
654291 TTTT
1 TTTT
654295 ATATTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 9 0.43
19 8 0.38
20 4 0.19
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTCTTTTAATTTTAACAG
Found at i:658047 original size:22 final size:22
Alignment explanation
Indices: 658017--658130 Score: 88
Period size: 22 Copynumber: 5.2 Consensus size: 22
658007 TTCCTACTTC
658017 ATTTCATTTCCTTTTAAATTTA
1 ATTTCATTTCCTTTTAAATTTA
* * * *
658039 ATTTTATTTCGTTCTATACTTT-
1 ATTTCATTTCCTTTTA-AATTTA
658061 ATTTCATTTCCTTTTAAATTTA
1 ATTTCATTTCCTTTTAAATTTA
* * ** * *
658083 ATTTTC-CTTCATTTTGTACTTC
1 A-TTTCATTTCCTTTTAAATTTA
* *
658105 ATTTCATTTCCCTTTGAATTTA
1 ATTTCATTTCCTTTTAAATTTA
658127 ATTT
1 ATTT
658131 TCTTTCATTC
Statistics
Matches: 68, Mismatches: 20, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
21 8 0.12
22 52 0.76
23 8 0.12
ACGTcount: A:0.22, C:0.16, G:0.03, T:0.60
Consensus pattern (22 bp):
ATTTCATTTCCTTTTAAATTTA
Found at i:658065 original size:44 final size:44
Alignment explanation
Indices: 658011--658140 Score: 188
Period size: 44 Copynumber: 3.0 Consensus size: 44
658001 CATTTCTTCC
* *
658011 TACTTCATTTCATTTCCTTTTAAATTTAATTTTATTTCGTTCTA
1 TACTTCATTTCATTTCCTTTTAAATTTAATTTTCTTTCATTCTA
* * * *
658055 TACTTTATTTCATTTCCTTTTAAATTTAATTTTCCTTCATTTTG
1 TACTTCATTTCATTTCCTTTTAAATTTAATTTTCTTTCATTCTA
* *
658099 TACTTCATTTCATTTCCCTTTGAATTTAATTTTCTTTCATTC
1 TACTTCATTTCATTTCCTTTTAAATTTAATTTTCTTTCATTC
658141 CGTGTAGGAT
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 75 1.00
ACGTcount: A:0.21, C:0.18, G:0.02, T:0.59
Consensus pattern (44 bp):
TACTTCATTTCATTTCCTTTTAAATTTAATTTTCTTTCATTCTA
Found at i:661611 original size:153 final size:154
Alignment explanation
Indices: 661333--661639 Score: 598
Period size: 153 Copynumber: 2.0 Consensus size: 154
661323 GCTCTACAAA
661333 AAATGAATGATCCGAGCACACAACAAGAAAGTTCACCCAAAAGTATTCCAAGAATGAGATCTTGT
1 AAATGAATGATCCGAGCACACAACAAGAAAGTTCACCCAAAAGTATTCCAAGAATGAGATCTTGT
*
661398 ACTGAAAAAGGTTTGGCCAATCCAAAAGGACTATATAGGAAAATGGATGTCAAATTGGGAATGAC
66 ACTGAAAAAGGTTTGGCCAATCCAAAAGGACTATATAGGAAAATGGATGTCAAATTGGGAAGGAC
661463 C-TTTGTCGTAAAGAAGACTTTCT
131 CTTTTGTCGTAAAGAAGACTTTCT
661486 AAATGAATGATCCGAGCACACAACAAGAAAGTTCACCCAAAAGTATTCCAAGAATGAGATCTTGT
1 AAATGAATGATCCGAGCACACAACAAGAAAGTTCACCCAAAAGTATTCCAAGAATGAGATCTTGT
661551 ACTGAAAAAGGTTTGGCCAATCCAAAAGGACTATATAGGAAAATGGATGTCAAATTGGGAAGGAC
66 ACTGAAAAAGGTTTGGCCAATCCAAAAGGACTATATAGGAAAATGGATGTCAAATTGGGAAGGAC
661616 CTTTTGTCGTAAAGAAGACTTTCT
131 CTTTTGTCGTAAAGAAGACTTTCT
661640 CTGGAGGAGC
Statistics
Matches: 152, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
153 130 0.86
154 22 0.14
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (154 bp):
AAATGAATGATCCGAGCACACAACAAGAAAGTTCACCCAAAAGTATTCCAAGAATGAGATCTTGT
ACTGAAAAAGGTTTGGCCAATCCAAAAGGACTATATAGGAAAATGGATGTCAAATTGGGAAGGAC
CTTTTGTCGTAAAGAAGACTTTCT
Found at i:663832 original size:37 final size:37
Alignment explanation
Indices: 663614--663959 Score: 287
Period size: 37 Copynumber: 9.1 Consensus size: 37
663604 AATAATATAG
*
663614 TATAGTTTTGGAAA-ATATTTTTGAAAAACATATAATA
1 TATAGTTTTGAAAACATATTTTTG-AAAACATATAATA
* ** *
663651 TATAATCTTTAGAAAAC-GGTTTTTGAAAGCAATATAATA
1 TATAGT-TTT-GAAAACATATTTTTGAAAAC-ATATAATA
* * * *
663690 TATAGTTTTTTAAAAAATCGGTTTTTGAAAAAATATATATAA
1 TATAG-TTTTGAAAACAT--ATTTTTGAAAACATATA-AT-A
663732 TATAGTTTTGAAAACATATTTTTGGAAAACATATATAATA
1 TATAGTTTTGAAAACATATTTTT-GAAAAC--ATATAATA
* *
663772 TATAGTTTTTTAAAA-ATCGATTTTGGAAAACATATAATA
1 TATAG-TTTTGAAAACAT--ATTTTTGAAAACATATAATA
*
663811 TATAGTTTTGAAAACACATTTTTGAAAACATATAATA
1 TATAGTTTTGAAAACATATTTTTGAAAACATATAATA
*
663848 TATAGTTTT--AAA-ATATTTTTGAAAAAATAT-ATAA
1 TATAGTTTTGAAAACATATTTTTGAAAACATATAAT-A
* * *
663882 TATAGTTTTTGAAAACTTATTTTT-AATAACCTATACTA
1 TATAG-TTTTGAAAACATATTTTTGAA-AACATATAATA
** *
663920 TATAGTTTTTTTAAA-ATATTTTTGAAAACATATAGTA
1 TATAG-TTTTGAAAACATATTTTTGAAAACATATAATA
663957 TAT
1 TAT
663960 GTATTTTTAT
Statistics
Matches: 253, Mismatches: 31, Indels: 50
0.76 0.09 0.15
Matches are distributed among these distances:
33 2 0.01
34 22 0.09
35 7 0.03
37 57 0.23
38 47 0.19
39 45 0.18
40 19 0.08
41 38 0.15
42 16 0.06
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (37 bp):
TATAGTTTTGAAAACATATTTTTGAAAACATATAATA
Found at i:663972 original size:12 final size:12
Alignment explanation
Indices: 663955--663979 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
663945 AAACATATAG
663955 TATATGTATTTT
1 TATATGTATTTT
663967 TATATGTATTTT
1 TATATGTATTTT
663979 T
1 T
663980 TAAAATGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TATATGTATTTT
Found at i:664014 original size:32 final size:32
Alignment explanation
Indices: 663978--664067 Score: 110
Period size: 32 Copynumber: 2.8 Consensus size: 32
663968 ATATGTATTT
** *
663978 TTTAAAATGGTTTTT-GAAAATATATAATAATA
1 TTTAAAATTTTTTTTGGAAAACATATAATAA-A
**
664010 TTTAATTTTTTTTTTGGAAAACATATAATAAA
1 TTTAAAATTTTTTTTGGAAAACATATAATAAA
*
664042 TTTTAAATTTTTTTTGGAAAACATAT
1 TTTAAAATTTTTTTTGGAAAACATAT
664068 TTTTTGAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
32 35 0.71
33 14 0.29
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (32 bp):
TTTAAAATTTTTTTTGGAAAACATATAATAAA
Found at i:665350 original size:31 final size:30
Alignment explanation
Indices: 665286--665388 Score: 91
Period size: 32 Copynumber: 3.3 Consensus size: 30
665276 TGATCCTTTA
*
665286 ATTTTTTTTTATTTATTTATTTTAATTTTAAC
1 ATTTTTTTTTATTT-TTTATTTT-ATTTAAAC
665318 ATTTTTTTTTCATTTTTTATTATT-TTTAAAC
1 ATTTTTTTTT-ATTTTTTATT-TTATTTAAAC
* * * *
665349 ATTGTTTTATATTGTTTTATTTCTCTTTCAAC
1 ATTTTTTTTTATT-TTTTATTT-TATTTAAAC
*
665381 ATTCTTTT
1 ATTTTTTT
665389 ATTTTATTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
30 4 0.07
31 22 0.36
32 29 0.48
33 6 0.10
ACGTcount: A:0.21, C:0.08, G:0.02, T:0.69
Consensus pattern (30 bp):
ATTTTTTTTTATTTTTTATTTTATTTAAAC
Found at i:665408 original size:13 final size:14
Alignment explanation
Indices: 665390--665418 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
665380 CATTCTTTTA
665390 TTTTATTATTA-TT
1 TTTTATTATTACTT
665403 TTTTATTATTACTT
1 TTTTATTATTACTT
665417 TT
1 TT
665419 AAAATTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTATTATTACTT
Found at i:665730 original size:65 final size:65
Alignment explanation
Indices: 665626--665755 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
665616 CAATTTAACT
665626 TTTAATTTTTCGCAATTAAGACAATCGAAAAATTAAAATGATACCGAAAGGACAGTACAAGGATG
1 TTTAATTTTTCGCAATTAAGACAATCGAAAAATTAAAATGATACCGAAAGGACAGTACAAGGATG
665691 TTTAATTTTTCGCAATTAAGACAATCGAAAAATTAAAATGATACCGAAAGGACAGTACAAGGATG
1 TTTAATTTTTCGCAATTAAGACAATCGAAAAATTAAAATGATACCGAAAGGACAGTACAAGGATG
665756 CTAATCCTTC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (65 bp):
TTTAATTTTTCGCAATTAAGACAATCGAAAAATTAAAATGATACCGAAAGGACAGTACAAGGATG
Found at i:668541 original size:19 final size:20
Alignment explanation
Indices: 668517--668556 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
668507 AAAAACAACG
*
668517 AACCAT-AAATATTACATTA
1 AACCATAAAACATTACATTA
668536 AACCATAAAACATTACATTA
1 AACCATAAAACATTACATTA
668556 A
1 A
668557 GGAGATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (20 bp):
AACCATAAAACATTACATTA
Found at i:669552 original size:141 final size:143
Alignment explanation
Indices: 669325--669708 Score: 470
Period size: 141 Copynumber: 2.7 Consensus size: 143
669315 AAGTTTCTAC
* * *
669325 CATTGTGCATTAAATGGTCTATGACAAATGGATGTTTTTTTTTTCTGAAATGATGTGATATATCA
1 CATTGTGCATTAAATGGTCTATGAGAAATGGAAG----TTTTTTCTGAAATGAAGTGATATATCA
* *
669390 CTATTGAA-AAATTTCTTAAATGAATTGATATATCACGGAAAAGTTTATGAAGTGAAGTTAATGG
62 CTACT-AACAAATTTCTAAAATGAATTGATATATCACGGAAAAGTTTATGAAGTGAAGTTAATGG
* *
669454 GCAC-TGAAA-TGTTTGT
126 CCACTTAAAAGTGTTTGT
* * *
669470 CATTGTGTATTAAATGGTCTATGAGAAATGGACGTTTTTTCTCAAATGAAGTGATATATCACTAC
1 CATTGTGCATTAAATGGTCTATGAGAAATGGAAGTTTTTTCTGAAATGAAGTGATATATCACTAC
* * * * *
669535 TAACAATTTTCTAAAATGAATTGATATATCACTGAAAAGTTTTTGATGTGAAGTTATTGGCCACT
66 TAACAAATTTCTAAAATGAATTGATATATCACGGAAAAGTTTATGAAGTGAAGTTAATGGCCACT
*
669600 TAAAAGTTTTTGT
131 TAAAAGTGTTTGT
* * * * *
669613 TATTGTACATTAAATGATCTATGAGAAATGGAAG-TTTTTCTGAAATGAAGCGATATATCACAAC
1 CATTGTGCATTAAATGGTCTATGAGAAATGGAAGTTTTTTCTGAAATGAAGTGATATATCACTAC
* * * *
669677 TGACAAGTTTCTGAAATGAAGTGATATATCAC
66 TAACAAATTTCTAAAATGAATTGATATATCAC
669709 TGATTTTTTT
Statistics
Matches: 209, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
140 2 0.01
141 82 0.39
142 59 0.28
143 35 0.17
145 31 0.15
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (143 bp):
CATTGTGCATTAAATGGTCTATGAGAAATGGAAGTTTTTTCTGAAATGAAGTGATATATCACTAC
TAACAAATTTCTAAAATGAATTGATATATCACGGAAAAGTTTATGAAGTGAAGTTAATGGCCACT
TAAAAGTGTTTGT
Found at i:672212 original size:87 final size:87
Alignment explanation
Indices: 672091--672264 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
672081 GTTGTCTGTT
672091 GTACCTGTTTTGGATAATTTATGAATATAAAAAAACTATATCTATTTTTAATTTTTCATATATAA
1 GTACCTGTTTTGGATAATTTATGAATATAAAAAAACTATATCTATTTTTAATTTTTCATATATAA
672156 TTGAAAACTATTCATAAATAAC
66 TTGAAAACTATTCATAAATAAC
672178 GTACCTGTTTTGGATAATTTATGAATATAAAAAAACTATATCTATTTTTAATTTTTCATATATAA
1 GTACCTGTTTTGGATAATTTATGAATATAAAAAAACTATATCTATTTTTAATTTTTCATATATAA
672243 TTGAAAACTATTCATAAATAAC
66 TTGAAAACTATTCATAAATAAC
672265 ATTTAACTAA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (87 bp):
GTACCTGTTTTGGATAATTTATGAATATAAAAAAACTATATCTATTTTTAATTTTTCATATATAA
TTGAAAACTATTCATAAATAAC
Found at i:672293 original size:87 final size:87
Alignment explanation
Indices: 672111--672286 Score: 230
Period size: 87 Copynumber: 2.0 Consensus size: 87
672101 TGGATAATTT
672111 ATGAATATAAAAAAACTATATCTATTTTTAATTTTTCATATATAATTGAAAACTATTCATAAATA
1 ATGAATATAAAAAAACTATATCTATTTTTAATTTTTCATATATAATTGAAAACTATTCATAAATA
* ****** * *
672176 ACGTACCTGTTTTGGATAATTT
66 ACGTAACTGAAACACATAACTC
672198 ATGAATATAAAAAAACTATATCTATTTTTAATTTTTCATATATAATTGAAAACTATTCATAAATA
1 ATGAATATAAAAAAACTATATCTATTTTTAATTTTTCATATATAATTGAAAACTATTCATAAATA
*
672263 ACATTTAACT-AAACACA-AACTC
66 AC--GTAACTGAAACACATAACTC
672285 AT
1 AT
672287 ACATATATTT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
87 72 0.94
88 1 0.01
89 4 0.05
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.40
Consensus pattern (87 bp):
ATGAATATAAAAAAACTATATCTATTTTTAATTTTTCATATATAATTGAAAACTATTCATAAATA
ACGTAACTGAAACACATAACTC
Found at i:690621 original size:41 final size:41
Alignment explanation
Indices: 690564--690649 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
690554 GTCTTTGTCT
* *
690564 ACTTTTGGAGTTTCTTTAACTAGCTGTTATTAATTGCCCAG
1 ACTTTTGGAGTTTCTTTAACTAGCCGTTATTAATTACCCAG
*
690605 ACTTTTGGAGTTTCTTTAACTAGCCGTTATTAATTACCCGG
1 ACTTTTGGAGTTTCTTTAACTAGCCGTTATTAATTACCCAG
690646 ACTT
1 ACTT
690650 AAAAAGGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (41 bp):
ACTTTTGGAGTTTCTTTAACTAGCCGTTATTAATTACCCAG
Found at i:691460 original size:124 final size:124
Alignment explanation
Indices: 691240--691590 Score: 558
Period size: 124 Copynumber: 2.8 Consensus size: 124
691230 GTCGATCCGT
* * * * *
691240 TGGGCACGATATCCTTCATCGTGAAGTTGAAATCGTGGATGACTCATTCGCTGTGAAGTTGATCT
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCT
* * **
691305 TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGGATGCTGCTTG
66 TTGAATTGGATATCATTCGTTGTGAAGTTGAAATCCAATCTAGAGATAGATAATGCTTG
*
691364 TGGGCACGATATCCTTCGTCGTGAACTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCT
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCT
* * *
691429 TTGAATTGGATATCTTTCATAGTGAAGTTGAAATCCAATCTAGAGATAGATAATGCTTG
66 TTGAATTGGATATCATTCGTTGTGAAGTTGAAATCCAATCTAGAGATAGATAATGCTTG
* *
691488 TGGGCACGATATCCTTTGTCATGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCT
1 TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCT
*
691553 TTGAATTGAATATCATTCGTTGTGAAGTTGAAATCCAA
66 TTGAATTGGATATCATTCGTTGTGAAGTTGAAATCCAA
691591 GGGTTGTTTC
Statistics
Matches: 208, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
124 208 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (124 bp):
TGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGGCTCATTCGTTGCGAAGTTGAGCT
TTGAATTGGATATCATTCGTTGTGAAGTTGAAATCCAATCTAGAGATAGATAATGCTTG
Found at i:691849 original size:64 final size:64
Alignment explanation
Indices: 691742--692125 Score: 569
Period size: 64 Copynumber: 6.0 Consensus size: 64
691732 GTGTTATTTC
* * *
691742 GAGTCAAATATCATTCGCTGTGAAGTTGAAATTGACTTTGAATGAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* * * * *
691806 AAGTCTAATATCCTAT-GATGTGAAGTTGAAATTGACTCTGAATGAATCTGGAAAGTT-TTTTTT
1 GAGTCCAATATCCT-TCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* *
691869 GAGTCCAATATCCTTCGGTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTTTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* * * *
691933 GAGTCCAATA-CACTTTGCTGTGAAGTTGAAATTAACTGTGAATGAAACTGGAAAGTTGTATGTT
1 GAGTCCAATATC-CTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
*
691997 GAGTCCAATATCCTTCGCTGTGATGTTGAAATTGACTCTGAATGAAACT-GAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* *
692060 GAGTCCAATATCCTTCGCTATGAAGTTAAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
692124 GA
1 GA
692126 CAAAAAACTT
Statistics
Matches: 288, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
62 1 0.00
63 116 0.40
64 169 0.59
65 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (64 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
Found at i:691894 original size:127 final size:127
Alignment explanation
Indices: 691742--692125 Score: 567
Period size: 127 Copynumber: 3.0 Consensus size: 127
691732 GTGTTATTTC
* * * *
691742 GAGTCAAATATCATTCGCTGTGAAGTTGAAATTGACTTTGAATGAAACTGGAAAGTTGTTTGTTA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTG
* * * *
691807 AGTCTAATATCCTATGATGTGAAGTTGAAATTGACTCTGAATGAATCTGGAAAGTT-TTTTTT
66 AGTCCAATATCCT-TGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* *
691869 GAGTCCAATATCCTTCGGTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTTTTTGTTG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTG
* * *
691934 AGTCCAATA-CACTTTGCTGTGAAGTTGAAATTAACTGTGAATGAAACTGGAAAGTTGTATGTT
66 AGTCCAATATC-C-TTGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
*
691997 GAGTCCAATATCCTTCGCTGTGATGTTGAAATTGACTCTGAATGAAACT-GAAAGTTGTTTGTTG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTG
* *
692061 AGTCCAATATCCTTCGCTATGAAGTTAAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
66 AGTCCAATATCCTT-GCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
692124 GA
1 GA
692126 CAAAAAACTT
Statistics
Matches: 231, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
126 3 0.01
127 175 0.76
128 53 0.23
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (127 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTG
AGTCCAATATCCTTGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
Found at i:691955 original size:191 final size:191
Alignment explanation
Indices: 691758--692125 Score: 587
Period size: 191 Copynumber: 1.9 Consensus size: 191
691748 AATATCATTC
* * * *
691758 GCTGTGAAGTTGAAATTGACTTTGAATGAAACTGGAAAGTTGTTTGTTAAGTCTAATATCCTAT-
1 GCTGTGAAGTTGAAATTAACTGTGAATGAAACTGGAAAGTTGTATGTTAAGTCCAATATCCT-TC
* *
691822 GATGTGAAGTTGAAATTGACTCTGAATGAATCTGGAAAGTT-TTTTTTGAGTCCAATATCCTTCG
65 GATGTGAAGTTGAAATTGACTCTGAATGAAACT-GAAAGTTGTTTGTTGAGTCCAATATCCTTCG
* * * *
691886 GTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTTTTTGTTGAGTCCAATACACTTT
129 CTATGAAGTTAAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATACACTTT
*
691949 GCTGTGAAGTTGAAATTAACTGTGAATGAAACTGGAAAGTTGTATGTTGAGTCCAATATCCTTCG
1 GCTGTGAAGTTGAAATTAACTGTGAATGAAACTGGAAAGTTGTATGTTAAGTCCAATATCCTTCG
* *
692014 CTGTGATGTTGAAATTGACTCTGAATGAAACTGAAAGTTGTTTGTTGAGTCCAATATCCTTCGCT
66 ATGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAGTTGTTTGTTGAGTCCAATATCCTTCGCT
692079 ATGAAGTTAAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGA
131 ATGAAGTTAAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGA
692126 CAAAAAACTT
Statistics
Matches: 162, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
190 8 0.05
191 154 0.95
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (191 bp):
GCTGTGAAGTTGAAATTAACTGTGAATGAAACTGGAAAGTTGTATGTTAAGTCCAATATCCTTCG
ATGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAGTTGTTTGTTGAGTCCAATATCCTTCGCT
ATGAAGTTAAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATACACTTT
Found at i:693832 original size:12 final size:11
Alignment explanation
Indices: 693806--693869 Score: 56
Period size: 13 Copynumber: 5.1 Consensus size: 11
693796 TTTTCTTCAC
693806 TTTTTTCTTGGTT
1 TTTTTTCTT--TT
693819 TTTGTTTCTTTTT
1 TTT-TTTC-TTTT
693832 TTATTTTCTCTTT
1 TT-TTTTCT-TTT
693845 GCTTTTTTCTTTT
1 --TTTTTTCTTTT
693858 TTTTTTCTTTT
1 TTTTTTCTTTT
693869 T
1 T
693870 GTTCTGATTG
Statistics
Matches: 45, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
11 12 0.27
12 1 0.02
13 17 0.38
14 11 0.24
15 4 0.09
ACGTcount: A:0.02, C:0.11, G:0.06, T:0.81
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:698571 original size:28 final size:28
Alignment explanation
Indices: 698540--698593 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
698530 CGCTTTCGTG
*
698540 TGCTTGTACTCCTCCGGAGTCACCTCTA
1 TGCTTGTACTCCTCCGGAATCACCTCTA
*
698568 TGCTTGTACTGCTCCGGAATCACCTC
1 TGCTTGTACTCCTCCGGAATCACCTC
698594 CATGATTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.15, C:0.35, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCTTGTACTCCTCCGGAATCACCTCTA
Found at i:702646 original size:95 final size:96
Alignment explanation
Indices: 702547--702733 Score: 232
Period size: 96 Copynumber: 2.0 Consensus size: 96
702537 ATACCAGGTA
* * * * * * *
702547 ACATCGAACCTAATTTTGGTATCGATACTATAT-AGGGGTATCGGTACCATAGTGTAGTAGTATT
1 ACATCGAACCTAATTATGATATCGATACTAGATGAGGGGTATCGATACCAAAGTATAGTAGTATG
702611 GATACCATGGTAAAGGTATCAATACTGGGCC
66 GATACCATGGTAAAGGTATCAATACTGGGCC
* * * * *
702642 ACATCGAATCTAATTATGATATTGATACTGGATGGGGGGTATCGATACCAAAGTATGGTAGTATG
1 ACATCGAACCTAATTATGATATCGATACTAGATGAGGGGTATCGATACCAAAGTATAGTAGTATG
** *
702707 GATACCATGGTAGGGGTATCGATACTG
66 GATACCATGGTAAAGGTATCAATACTG
702734 AAGGGCCATA
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
95 27 0.36
96 49 0.64
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (96 bp):
ACATCGAACCTAATTATGATATCGATACTAGATGAGGGGTATCGATACCAAAGTATAGTAGTATG
GATACCATGGTAAAGGTATCAATACTGGGCC
Found at i:702730 original size:20 final size:21
Alignment explanation
Indices: 702677--702731 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
702667 TACTGGATGG
702677 GGGGTATCGATACCAAAGTAT
1 GGGGTATCGATACCAAAGTAT
* * **
702698 GGTAGTATGGATACCATGGTA-
1 GG-GGTATCGATACCAAAGTAT
702719 GGGGTATCGATAC
1 GGGGTATCGATAC
702732 TGAAGGGCCA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 9 0.33
21 4 0.15
22 14 0.52
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (21 bp):
GGGGTATCGATACCAAAGTAT
Found at i:703126 original size:59 final size:59
Alignment explanation
Indices: 703051--703400 Score: 578
Period size: 59 Copynumber: 5.9 Consensus size: 59
703041 GAATTACCAA
* *
703051 AGGGCACTTTGTGTGCTAAAATGGCAAGGAATTCATACTAAGTGTATGAATTTCCAGAT
1 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
* *
703110 AGGGCACTTTGTGTGCTAAAATGGTAAAGAAATCATACTAAGTGTATGAATTTCCATAT
1 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
* *
703169 AGGACACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGGATTTCCAGAT
1 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
*
703228 AGGGTACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
1 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
* * *
703287 AGGCCACTTTGTGTGCTAAAATGGTAAGGAAATCATA-TAAATGTATGAATTTCTAGAT
1 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
*
703345 AGGGCACTTTGTGTGCTAAAATGATAAGGAAATCATACTAA-TGGTATGAATTTCCA
1 AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGT-GTATGAATTTCCA
703401 ATTGAATTTA
Statistics
Matches: 271, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
58 55 0.20
59 216 0.80
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (59 bp):
AGGGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGAT
Found at i:713270 original size:26 final size:26
Alignment explanation
Indices: 713241--713291 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
713231 ATATTTTCTA
* *
713241 ATTTT-TGAAAACTAAAACTGAAAATT
1 ATTTTCTGAAAA-AAAAACAGAAAATT
713267 ATTTTCTGAAAAAAAAACAGAAAAT
1 ATTTTCTGAAAAAAAAACAGAAAAT
713292 AAAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (26 bp):
ATTTTCTGAAAAAAAAACAGAAAATT
Found at i:714520 original size:20 final size:21
Alignment explanation
Indices: 714488--714543 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
714478 AAGAAATTCA
714488 AAAAAATAATAAAATGATTAAAT-
1 AAAAAATAA-AAAA--ATTAAATC
*
714511 AAAAAATAAAAAAATTAATTC
1 AAAAAATAAAAAAATTAAATC
714532 AAAAAATAAAAA
1 AAAAAATAAAAA
714544 TAAAAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 6 0.19
21 12 0.39
22 4 0.13
23 9 0.29
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAAAATAAAAAAATTAAATC
Found at i:714524 original size:33 final size:32
Alignment explanation
Indices: 714454--714524 Score: 74
Period size: 33 Copynumber: 2.2 Consensus size: 32
714444 GGAAGAACTT
* *
714454 AAAAATAAAATAAAATGTAAATGAAAGAAATTC
1 AAAAAAAAAATAAAATGTAAATGAAAGAAA-TA
*
714487 AAAAAAATAATAAAATGATTAAAT-AAA-AAATA
1 AAAAAAAAAATAAAATG--TAAATGAAAGAAATA
714519 AAAAAA
1 AAAAAA
714525 TTAATTCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
32 7 0.21
33 18 0.55
34 3 0.09
35 5 0.15
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.20
Consensus pattern (32 bp):
AAAAAAAAAATAAAATGTAAATGAAAGAAATA
Found at i:714544 original size:6 final size:6
Alignment explanation
Indices: 714533--714570 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
714523 AATTAATTCA
714533 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
714571 GATTATGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:718248 original size:20 final size:19
Alignment explanation
Indices: 718205--718248 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
718195 GTTGTTTTTG
* *
718205 GTATCGATACTCAAGGTGA
1 GTATCGATACCCAAGGTCA
718224 GTATCGATACCCAAGGGTCA
1 GTATCGATACCCAA-GGTCA
718244 GTATC
1 GTATC
718249 AATATTGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (19 bp):
GTATCGATACCCAAGGTCA
Found at i:720467 original size:12 final size:12
Alignment explanation
Indices: 720450--720474 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
720440 TTTTGTTGAT
720450 AAATGTTATCAA
1 AAATGTTATCAA
720462 AAATGTTATCAA
1 AAATGTTATCAA
720474 A
1 A
720475 TTATGAAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (12 bp):
AAATGTTATCAA
Found at i:721457 original size:24 final size:24
Alignment explanation
Indices: 721425--721475 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
721415 AAGACTAACA
721425 TGTTATTGATTGATGACAAGGAGT
1 TGTTATTGATTGATGACAAGGAGT
721449 TGTTATTGATTGATGACAAGGAGT
1 TGTTATTGATTGATGACAAGGAGT
721473 TGT
1 TGT
721476 CAGAATTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.04, G:0.29, T:0.39
Consensus pattern (24 bp):
TGTTATTGATTGATGACAAGGAGT
Found at i:721491 original size:27 final size:24
Alignment explanation
Indices: 721437--721491 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
721427 TTATTGATTG
* **
721437 ATGACAAGGAGTTGTTATTGATTG
1 ATGACAAGGAGTTGTAATTGATAC
721461 ATGACAAGGAGTTGTCAGAATTGATAC
1 ATGACAAGGAGTTGT---AATTGATAC
721488 ATGA
1 ATGA
721492 TTATATTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 15 0.60
27 10 0.40
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (24 bp):
ATGACAAGGAGTTGTAATTGATAC
Found at i:728301 original size:24 final size:24
Alignment explanation
Indices: 728269--728316 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
728259 ACTAACATGC
728269 TATTGATTGATGACAAGGAGTTGT
1 TATTGATTGATGACAAGGAGTTGT
728293 TATTGATTGATGACAAGGAGTTGT
1 TATTGATTGATGACAAGGAGTTGT
728317 CAGAATTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38
Consensus pattern (24 bp):
TATTGATTGATGACAAGGAGTTGT
Found at i:728332 original size:27 final size:24
Alignment explanation
Indices: 728278--728332 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
728268 CTATTGATTG
* **
728278 ATGACAAGGAGTTGTTATTGATTG
1 ATGACAAGGAGTTGTAATTGATAC
728302 ATGACAAGGAGTTGTCAGAATTGATAC
1 ATGACAAGGAGTTGT---AATTGATAC
728329 ATGA
1 ATGA
728333 TTATATTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 15 0.60
27 10 0.40
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (24 bp):
ATGACAAGGAGTTGTAATTGATAC
Found at i:745301 original size:19 final size:20
Alignment explanation
Indices: 745269--745306 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
745259 CATGTATAAT
**
745269 AATCAATTTTAAGC-TAAAG
1 AATCAATTAAAAGCATAAAG
745288 AATCAATTAAAAGCATAAA
1 AATCAATTAAAAGCATAAA
745307 AATTCAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (20 bp):
AATCAATTAAAAGCATAAAG
Found at i:751104 original size:20 final size:21
Alignment explanation
Indices: 751052--751112 Score: 83
Period size: 19 Copynumber: 3.0 Consensus size: 21
751042 CAAGACAATA
751052 TCCTTAAGAGTTTCAAAACTT
1 TCCTTAAGAGTTTCAAAACTT
*
751073 T--TCAAGAGTTTCAAAACTT
1 TCCTTAAGAGTTTCAAAACTT
*
751092 TCCTTAA-AGTTTCAATACTT
1 TCCTTAAGAGTTTCAAAACTT
751112 T
1 T
751113 GGGTCCAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 18 0.51
20 13 0.37
21 4 0.11
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (21 bp):
TCCTTAAGAGTTTCAAAACTT
Found at i:752791 original size:39 final size:38
Alignment explanation
Indices: 752741--752881 Score: 120
Period size: 39 Copynumber: 3.8 Consensus size: 38
752731 ATAATAAAGT
*
752741 AATAAATAATATATATTATA-ATATTATATATTTTCAAA
1 AATATATAATATATATTATATATATTATAT-TTTTCAAA
* *
752779 AATTATGTAATATATA-TATATATATTATATTTTT--GA
1 AA-TATATAATATATATTATATATATTATATTTTTCAAA
*
752815 AATATAT-ATATATA-TAT-TATA-TA-GTTTTTCAAA
1 AATATATAATATATATTATATATATTATATTTTTCAAA
*
752848 AATATACATATTATATATATATATATATATATAT
1 AATAT--ATAATATATAT-TATATATAT-TATAT
752882 GTGTGTGTGT
Statistics
Matches: 82, Mismatches: 8, Indels: 22
0.73 0.07 0.20
Matches are distributed among these distances:
31 5 0.06
32 2 0.02
33 10 0.12
34 10 0.12
35 6 0.07
36 9 0.11
38 13 0.16
39 24 0.29
41 2 0.02
42 1 0.01
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (38 bp):
AATATATAATATATATTATATATATTATATTTTTCAAA
Found at i:752795 original size:2 final size:2
Alignment explanation
Indices: 752788--752881 Score: 68
Period size: 2 Copynumber: 47.0 Consensus size: 2
752778 AAATTATGTA
* * *
752788 AT AT AT AT AT AT AT AT -T AT AT TT TT GAA 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
* * * * *
752830 AT -T AT AT AGT TT TT CAA AA AT AT AC AT AT -T AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
752872 AT AT AT AT AT
1 AT AT AT AT AT
752882 GTGTGTGTGT
Statistics
Matches: 76, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
1 3 0.04
2 72 0.95
3 1 0.01
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:753546 original size:2 final size:2
Alignment explanation
Indices: 753539--753569 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
753529 CATTAAAATT
753539 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
753570 TAAATTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:754988 original size:89 final size:90
Alignment explanation
Indices: 754611--755317 Score: 1099
Period size: 89 Copynumber: 8.0 Consensus size: 90
754601 TATTACCGGT
* * * * * *
754611 CGTCGACTACTTCAAGGTGAGGATGGACTTCCTGTTCTAGGCCATGCCGATTGGACTTCGTTT--
1 CGTCGATTACTCCAAGATGAGGATGGACTTCCGGTTCTAGGACATTCCGATTGGACTTCGTTTAG
*
754674 AGAG-AGAATAAGAACTGGAATCGA
66 AGAGAAGAATGAGAACTGGAATCGA
*
754698 CGTCGATTACTCCAAGATGAGGATGGACTTCC-GTTCTAGGCCATTCCGATTGGACTTCGTTT--
1 CGTCGATTACTCCAAGATGAGGATGGACTTCCGGTTCTAGGACATTCCGATTGGACTTCGTTTAG
754760 AGAG-A-AA-GA-AACTGGAATCGA
66 AGAGAAGAATGAGAACTGGAATCGA
754781 CGTCGATTACTCCAAGATGAGGATGGACTTCCGGTTCTAGGACATTCCGATTGGACTTCGTTTAG
1 CGTCGATTACTCCAAGATGAGGATGGACTTCCGGTTCTAGGACATTCCGATTGGACTTCGTTTAG
*
754846 AGAAAAGAAT--GAACTGGAATCGA
66 AGAGAAGAATGAGAACTGGAATCGA
*
754869 CGTCGATTACTCCAAGATGAGGATGGACTTCCTGTTCTAGGACATTCCGATTGGACTTC-TTTAG
1 CGTCGATTACTCCAAGATGAGGATGGACTTCCGGTTCTAGGACATTCCGATTGGACTTCGTTTAG
754933 AGAGAAGAATGAGAACTGGAATCGA
66 AGAGAAGAATGAGAACTGGAATCGA
* *
754958 CGCCGATTACTCCAAGATGAGGATGGACTTCCGGTTCTAGGCCATTCCGATTGGACTTCGTTTAG
1 CGTCGATTACTCCAAGATGAGGATGGACTTCCGGTTCTAGGACATTCCGATTGGACTTCGTTTAG
755023 AGA-AAGAATGAGAACTGGAATCGA
66 AGAGAAGAATGAGAACTGGAATCGA
755047 CGTCGATTACTCCAAGATGAGGATGGACTTCC-GTTCTAGGACATTCCGATTGGACTTCGTTTAG
1 CGTCGATTACTCCAAGATGAGGATGGACTTCCGGTTCTAGGACATTCCGATTGGACTTCGTTTAG
*
755111 AGAAAAGAATGAGAACTGGAATCGA
66 AGAGAAGAATGAGAACTGGAATCGA
755136 CGTCGATTACTCCAAGATGAGGATGGACTTCCGGTTCTAGGACATTCCGATTGGACTTCGTTTAG
1 CGTCGATTACTCCAAGATGAGGATGGACTTCCGGTTCTAGGACATTCCGATTGGACTTCGTTTAG
755201 AGAGAAGAATGAGAACTGGAATCGA
66 AGAGAAGAATGAGAACTGGAATCGA
* * * * *
755226 CGTCGATTACTCCAAGATGAGGA--GACTTCCCGTACTCGGCCATTCCGATTGGACTTCATTTAG
1 CGTCGATTACTCCAAGATGAGGATGGACTTCCGGTTCTAGGACATTCCGATTGGACTTCGTTTAG
* *
755289 AGAGAAGAATGAAGGA-TGGAATCGT
66 AGAGAAGAATG-AGAACTGGAATCGA
755314 CGTC
1 CGTC
755318 TGCTACTTGA
Statistics
Matches: 585, Mismatches: 22, Indels: 25
0.93 0.03 0.04
Matches are distributed among these distances:
83 44 0.08
84 30 0.05
85 2 0.00
86 37 0.06
87 44 0.08
88 164 0.28
89 177 0.30
90 87 0.15
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (90 bp):
CGTCGATTACTCCAAGATGAGGATGGACTTCCGGTTCTAGGACATTCCGATTGGACTTCGTTTAG
AGAGAAGAATGAGAACTGGAATCGA
Found at i:755975 original size:160 final size:160
Alignment explanation
Indices: 755711--756030 Score: 640
Period size: 160 Copynumber: 2.0 Consensus size: 160
755701 AAAGCGCAAG
755711 CGGTGGCGGTGAGGGTACAGTCGGAAGATTCAGTGTTCTTCAATTGCTCCATAGATGGTTACCAA
1 CGGTGGCGGTGAGGGTACAGTCGGAAGATTCAGTGTTCTTCAATTGCTCCATAGATGGTTACCAA
755776 GACACACTTTACGCTTTCACCAAACGACAATTCTATCGGGACTGCACCATCTCTGGAACAATCGA
66 GACACACTTTACGCTTTCACCAAACGACAATTCTATCGGGACTGCACCATCTCTGGAACAATCGA
755841 TTTCGTATTCGGTGATGCATCCGTAATTTT
131 TTTCGTATTCGGTGATGCATCCGTAATTTT
755871 CGGTGGCGGTGAGGGTACAGTCGGAAGATTCAGTGTTCTTCAATTGCTCCATAGATGGTTACCAA
1 CGGTGGCGGTGAGGGTACAGTCGGAAGATTCAGTGTTCTTCAATTGCTCCATAGATGGTTACCAA
755936 GACACACTTTACGCTTTCACCAAACGACAATTCTATCGGGACTGCACCATCTCTGGAACAATCGA
66 GACACACTTTACGCTTTCACCAAACGACAATTCTATCGGGACTGCACCATCTCTGGAACAATCGA
756001 TTTCGTATTCGGTGATGCATCCGTAATTTT
131 TTTCGTATTCGGTGATGCATCCGTAATTTT
756031 TCAGAACTGC
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 160 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (160 bp):
CGGTGGCGGTGAGGGTACAGTCGGAAGATTCAGTGTTCTTCAATTGCTCCATAGATGGTTACCAA
GACACACTTTACGCTTTCACCAAACGACAATTCTATCGGGACTGCACCATCTCTGGAACAATCGA
TTTCGTATTCGGTGATGCATCCGTAATTTT
Found at i:756656 original size:19 final size:17
Alignment explanation
Indices: 756625--756662 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
756615 AGCAAAAGTA
756625 AAAAAAGAAAGAAGAAG
1 AAAAAAGAAAGAAGAAG
756642 AAAAAAGAACGAGAAGAAG
1 AAAAAAGAA--AGAAGAAG
756661 AA
1 AA
756663 GAAGAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
19 10 0.53
ACGTcount: A:0.74, C:0.03, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAGAAGAAG
Found at i:757010 original size:9 final size:9
Alignment explanation
Indices: 756996--757036 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
756986 TTCACTGTAC
756996 TTTTAATTT
1 TTTTAATTT
757005 TTTTAATTT
1 TTTTAATTT
*
757014 TTTTAAATT
1 TTTTAATTT
757023 TTTTAATTT
1 TTTTAATTT
*
757032 ATTTA
1 TTTTA
757037 CTAAACTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTAATTT
Found at i:757143 original size:15 final size:16
Alignment explanation
Indices: 757123--757152 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
757113 TATTATTATT
757123 ATTT-AATATAAAATG
1 ATTTAAATATAAAATG
757138 ATTTAAATATAAAAT
1 ATTTAAATATAAAAT
757153 AAAAATAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
ATTTAAATATAAAATG
Found at i:758183 original size:24 final size:23
Alignment explanation
Indices: 758156--758203 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
758146 TTTAATTTTA
*
758156 AAAAAT-ATATAATTTTTTGGAATT
1 AAAAATCAGATAA-TTTTTGG-ATT
758180 -AAAATCAGATAATTTTTGGATT
1 AAAAATCAGATAATTTTTGGATT
758202 AA
1 AA
758204 TTTCACGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
22 3 0.14
23 13 0.62
24 5 0.24
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (23 bp):
AAAAATCAGATAATTTTTGGATT
Found at i:758565 original size:60 final size:60
Alignment explanation
Indices: 758501--758637 Score: 202
Period size: 60 Copynumber: 2.3 Consensus size: 60
758491 AGTTTCCAAT
* ** * *
758501 TTCGCAACGCGAATTTGTAAATTGCAACACAGAAGTCAAATTCGCAATGCGATAGTCAAA
1 TTCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCAACACAAAAGTCAAA
* *
758561 TTCGCAACGCGAATTTGTAGATCGCAACACAGAAGTCAAATTCGTAACACAAAAGTCAAA
1 TTCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCAACACAAAAGTCAAA
758621 TTCGCAACGCGGAATTT
1 TTCGCAACGC-GAATTT
758638 CAAATTCGCA
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
60 63 0.91
61 6 0.09
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (60 bp):
TTCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCAACACAAAAGTCAAA
Found at i:758656 original size:19 final size:19
Alignment explanation
Indices: 758616--758668 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
758606 AACACAAAAG
758616 TCAAATTCGCAACGCGGAATT
1 TCAAATTCGCAA--CGGAATT
*
758637 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACGGAATT
*
758656 TCAAAATCGCAAC
1 TCAAATTCGCAAC
758669 ACGAATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 18 0.60
21 12 0.40
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (19 bp):
TCAAATTCGCAACGGAATT
Found at i:758660 original size:60 final size:60
Alignment explanation
Indices: 758501--758670 Score: 175
Period size: 60 Copynumber: 2.8 Consensus size: 60
758491 AGTTTCCAAT
* * * ** * *
758501 TTCGCAACGCGAATTTGTAAATTGCAACACAGAAGTCAAATTCGCAATGCGATAGTCAAA
1 TTCGCAACGCGAATTTGCAAATCGCAACACAGAAGTCAAAATCGCAACACAAAAGTCAAA
* * * *
758561 TTCGCAACGCGAATTTGTAGATCGCAACACAGAAGTCAAATTCGTAACACAAAAGTCAAA
1 TTCGCAACGCGAATTTGCAAATCGCAACACAGAAGTCAAAATCGCAACACAAAAGTCAAA
* *
758621 TTCGCAACGCGGAATTT-CAAATTCGC-A-ACTGAATTTCAAAATCGCAACAC
1 TTCGCAACGC-GAATTTGCAAA-TCGCAACACAGAA-GTCAAAATCGCAACAC
758671 GAATTTAATT
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
59 5 0.05
60 79 0.84
61 10 0.11
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.22
Consensus pattern (60 bp):
TTCGCAACGCGAATTTGCAAATCGCAACACAGAAGTCAAAATCGCAACACAAAAGTCAAA
Found at i:758674 original size:20 final size:20
Alignment explanation
Indices: 758457--758676 Score: 112
Period size: 20 Copynumber: 11.0 Consensus size: 20
758447 AAATGACCAA
* * *
758457 CAAATTCGCAACGCGAACTC
1 CAAATTCGCAACACGAATTT
* * *
758477 CAATTTCGCAAC-CTAGTTT
1 CAAATTCGCAACACGAATTT
* *
758496 CCAATTTCGCAACGCGAATTT
1 -CAAATTCGCAACACGAATTT
* *
758517 GTAAATT-GCAACACAGAA-GT
1 -CAAATTCGCAACAC-GAATTT
** *
758537 CAAATTCGCAATGCG-ATAGT
1 CAAATTCGCAACACGAAT-TT
*
758557 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACACGAATTT
* * *
758577 GTAGA-TCGCAACACAGAA-GT
1 -CAAATTCGCAACAC-GAATTT
* * **
758597 CAAATTCGTAACACAAAAGT
1 CAAATTCGCAACACGAATTT
*
758617 CAAATTCGCAACGCGGAATTT
1 CAAATTCGCAACAC-GAATTT
*
758638 CAAATTCGCAAC-TGAATTT
1 CAAATTCGCAACACGAATTT
*
758657 CAAAATCGCAACACGAATTT
1 CAAATTCGCAACACGAATTT
758677 AATTTCGTAA
Statistics
Matches: 154, Mismatches: 33, Indels: 26
0.72 0.15 0.12
Matches are distributed among these distances:
18 1 0.01
19 30 0.19
20 89 0.58
21 34 0.22
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (20 bp):
CAAATTCGCAACACGAATTT
Found at i:759649 original size:24 final size:24
Alignment explanation
Indices: 759616--759661 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
759606 TATTCGAAAT
*
759616 TTGATATTGGTTAATACTCGGACA
1 TTGATATTGGTCAATACTCGGACA
*
759640 TTGATCTTGGTCAATACTCGGA
1 TTGATATTGGTCAATACTCGGA
759662 TTTTGAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (24 bp):
TTGATATTGGTCAATACTCGGACA
Found at i:759667 original size:24 final size:24
Alignment explanation
Indices: 759615--759667 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
759605 GTATTCGAAA
*
759615 TTTGATATTGGTTAATACTCGGAC
1 TTTGATATTGGTCAATACTCGGAC
* * *
759639 ATTGATCTTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACTCGGAC
759663 TTTGA
1 TTTGA
759668 AGATGTGATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.42
Consensus pattern (24 bp):
TTTGATATTGGTCAATACTCGGAC
Found at i:759905 original size:22 final size:21
Alignment explanation
Indices: 759850--759907 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
759840 CCTGAAGAAA
* *
759850 AAGAAGAAAAATAAGTCCCCG
1 AAGAAAAAAAAGAAGTCCCCG
* *
759871 AAGAAAAAGAAGAAGTTCCCG
1 AAGAAAAAAAAGAAGTCCCCG
759892 AAGAAAAGAAAAGAAG
1 AAGAAAA-AAAAGAAG
759908 AAAATGCCAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
21 24 0.77
22 7 0.23
ACGTcount: A:0.59, C:0.12, G:0.22, T:0.07
Consensus pattern (21 bp):
AAGAAAAAAAAGAAGTCCCCG
Found at i:761942 original size:6 final size:6
Alignment explanation
Indices: 761931--761971 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
761921 AAGCAAAAGG
* *
761931 AAATCA AAATCA AAATCG CAATCA AAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATC
761972 CCAATCACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.61, C:0.20, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:761953 original size:12 final size:12
Alignment explanation
Indices: 761931--761978 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
761921 AAGCAAAAGG
*
761931 AAATCAAAATCA
1 AAATCACAATCA
*
761943 AAATCGCAATCA
1 AAATCACAATCA
*
761955 AAATCAAAATCA
1 AAATCACAATCA
*
761967 AAATCCCAATCA
1 AAATCACAATCA
761979 CAACCGGCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.58, C:0.23, G:0.02, T:0.17
Consensus pattern (12 bp):
AAATCACAATCA
Found at i:761958 original size:24 final size:24
Alignment explanation
Indices: 761931--761978 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
761921 AAGCAAAAGG
*
761931 AAATCAAAATCAAAATCGCAATCA
1 AAATCAAAATCAAAATCCCAATCA
761955 AAATCAAAATCAAAATCCCAATCA
1 AAATCAAAATCAAAATCCCAATCA
761979 CAACCGGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.58, C:0.23, G:0.02, T:0.17
Consensus pattern (24 bp):
AAATCAAAATCAAAATCCCAATCA
Found at i:762387 original size:20 final size:20
Alignment explanation
Indices: 762316--762382 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
762306 AATCGCAACA
*
762316 CGAATTTGACTTTTGCGTTG
1 CGAATTTGACTTTCGCGTTG
*
762336 CGAATTTGACTTTCGTGTTG
1 CGAATTTGACTTTCGCGTTG
762356 CGAATTT-ACCTTTCGCGTTG
1 CGAATTTGA-CTTTCGCGTTG
762376 CGAATTT
1 CGAATTT
762383 ACCTTCAACA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 1 0.02
20 42 0.98
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.43
Consensus pattern (20 bp):
CGAATTTGACTTTCGCGTTG
Found at i:762505 original size:66 final size:64
Alignment explanation
Indices: 762435--762578 Score: 252
Period size: 66 Copynumber: 2.2 Consensus size: 64
762425 AATTTAAAAC
762435 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACACATCAAATT
1 AACAAATCAACTTTTACAAATCAATTAAACAAGC-AAAAAATAATTCTTATTTACACATC-AATT
762500 A
64 A
* *
762501 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
762565 AACAAATCAACTTT
1 AACAAATCAACTTT
762579 CAATGTAAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
64 19 0.25
65 23 0.30
66 34 0.45
ACGTcount: A:0.51, C:0.18, G:0.01, T:0.30
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
Found at i:763839 original size:21 final size:21
Alignment explanation
Indices: 763777--763889 Score: 93
Period size: 21 Copynumber: 5.4 Consensus size: 21
763767 ATGAATCAGG
* * *
763777 CTCTTGAACGGTGGGCGGGAC
1 CTCTTGAACGATGGGAGGGGC
** *
763798 CTCTTGAACGATGACATGGGC
1 CTCTTGAACGATGGGAGGGGC
*
763819 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* * *
763840 TTCTTCG-ATGATGAGAGGGGC
1 CTCTT-GAACGATGGGAGGGGC
* **
763861 CTCTTGAACGATAGGAGGCAC
1 CTCTTGAACGATGGGAGGGGC
763882 CTCTTGAA
1 CTCTTGAA
763890 TTATGGTAGG
Statistics
Matches: 70, Mismatches: 20, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
20 1 0.01
21 68 0.97
22 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.35, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGGC
Found at i:763853 original size:42 final size:42
Alignment explanation
Indices: 763777--763889 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
763767 ATGAATCAGG
* *
763777 CTCTTGAACGGTGGGCGGGACCTCTTGAACGATGACATGGGC
1 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
* * * *
763819 CTCTTGAACGGTGGGAGGGGCTTCTTCG-ATGATGAGAGGGGC
1 CTCTTGAACGGTGGGAGGGACCTCTT-GAACGATGACAGGGGC
* * *
763861 CTCTTGAACGATAGGAGGCACCTCTTGAA
1 CTCTTGAACGGTGGGAGGGACCTCTTGAA
763890 TTATGGTAGG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
41 1 0.02
42 56 0.97
43 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.35, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
Found at i:766506 original size:22 final size:23
Alignment explanation
Indices: 766478--766533 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
766468 GATGGAGATA
766478 GACGGATTTCGCT-GGAGATGGG
1 GACGGATTTCGCTCGGAGATGGG
*
766500 GACGGATTTTG-TCGGAGATGGG
1 GACGGATTTCGCTCGGAGATGGG
*
766522 GACGGATGTCGC
1 GACGGATTTCGC
766534 CGTAGAGAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 28 0.97
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (23 bp):
GACGGATTTCGCTCGGAGATGGG
Found at i:766665 original size:20 final size:20
Alignment explanation
Indices: 766640--766859 Score: 212
Period size: 20 Copynumber: 11.0 Consensus size: 20
766630 ATATTGTGTA
766640 TCGCGTTGCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTT
*
766660 TCGCGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTT
*
766680 TCTCGTTGCGAATTT-ATCTT
1 TCGCGTTGCGAATTTGA-CTT
* *
766700 TTGCGTTGCGAATTTGTCTT
1 TCGCGTTGCGAATTTGACTT
* * *
766720 TTGTGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTT
* * *
766740 TCCCATTGTGAATTTGACTT
1 TCGCGTTGCGAATTTGACTT
* * *
766760 TTGTGTTGCG-ATTT-ACAAAT
1 TCGCGTTGCGAATTTGAC--TT
* *
766780 TCGTGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTT
* *
766800 TCGTGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTT
* *
766820 TCTCGTTGCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTT
*
766840 TCGCGTTACGAATTTGACTT
1 TCGCGTTGCGAATTTGACTT
766860 CTATGTTGCA
Statistics
Matches: 165, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
18 2 0.01
19 5 0.03
20 152 0.92
21 4 0.02
22 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGACTT
Found at i:766710 original size:60 final size:60
Alignment explanation
Indices: 766642--766858 Score: 246
Period size: 60 Copynumber: 3.6 Consensus size: 60
766632 ATTGTGTATC
766642 GCGTTGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCTCGTTGCGAATTT-ATCTTTT
1 GCGTTGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCTCGTTGCGAATTTGA-CTTTT
* * * * * *
766702 GCGTTGCGAATTTGTCTTTTGTGTTGCGAATTTGACTATCCCATTGTGAATTTGACTTTT
1 GCGTTGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCTCGTTGCGAATTTGACTTTT
* * * *
766762 GTGTTGCG-ATTT-ACAAATTCGTGTTGCGAATTTGACTATCGT-GTTGCGAATTTGACTATCT
1 GCGTTGCGAATTTGAC--TTTCGCGTTGCGAATTTGACTATC-TCGTTGCGAATTTGACT-TTT
* *
766823 -CGTTGCGAATTTGACTATCGCGTTACGAATTTGACT
1 GCGTTGCGAATTTGACTTTCGCGTTGCGAATTTGACT
766859 TCTATGTTGC
Statistics
Matches: 131, Mismatches: 19, Indels: 14
0.80 0.12 0.09
Matches are distributed among these distances:
58 1 0.01
59 4 0.03
60 117 0.89
61 7 0.05
62 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (60 bp):
GCGTTGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCTCGTTGCGAATTTGACTTTT
Found at i:766893 original size:20 final size:20
Alignment explanation
Indices: 766864--766910 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
766854 TGACTTCTAT
*
766864 GTTGCAATTTACAAATTCAC
1 GTTGCGATTTACAAATTCAC
* *
766884 GTTGCGATTTACAGATTCGC
1 GTTGCGATTTACAAATTCAC
766904 GTTGCGA
1 GTTGCGA
766911 ATTTGGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCAC
Found at i:768826 original size:190 final size:184
Alignment explanation
Indices: 768491--768884 Score: 639
Period size: 186 Copynumber: 2.1 Consensus size: 184
768481 ATTAAATTTT
* * *
768491 AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACTATTTTAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
*
768556 TTTAAGATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
66 TTTAAGATCTAATAAATTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
*
768621 TTATTTTATAATTATATATTATTTAAATTAATT-GTAAACTATTTTTTTTAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTAG-AAAC--TGTTTTTTAATTAAA
*
768677 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
768742 TTTAAGATCTAATAAATTTTAAACCTAAATCAATATTAATTAATTAATTAAAAAAATTATATAAA
66 TTTAAGATCTAATAAATTTTAAACCTAAATC-A-A-T-ATTAATTAATTAAAAAAATTATATAAA
768807 ATTTTTATTTTATAATTATATATTATTTAAATTAATTAGAAACTGTTTTTTAATTAAA
127 ATTTTTATTTTATAATTATATATTATTTAAATTAATTAGAAACTGTTTTTTAATTAAA
* *
768865 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
768885 AATTAGAAAA
Statistics
Matches: 195, Mismatches: 8, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
186 91 0.47
187 9 0.05
188 25 0.13
189 1 0.01
190 68 0.35
191 1 0.01
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (184 bp):
AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCTAATAAATTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTAGAAACTGTTTTTTAATTAAA
Found at i:769741 original size:36 final size:35
Alignment explanation
Indices: 769693--770134 Score: 226
Period size: 35 Copynumber: 11.9 Consensus size: 35
769683 TTCCGGGGTT
769693 TATATAATATATAGTGTTTAGAAAACGATTTTTGAAAA
1 TATAT-ATATATAGT-TTTA-AAAACGATTTTTGAAAA
* * *
769731 CATATAATATATA-CTTTAAAATCGATTTTTGAAAA
1 TATAT-ATATATAGTTTTAAAAACGATTTTTGAAAA
* *
769766 TATATATTATATAGTTTTAAAAACGGTTTTCGAAAATATA
1 TATATA-TATATAGTTTTAAAAACGATTTTTG--AA-A-A
* ** *
769806 TATATATTATATAGTTTT--GAA-TTTTTTTAAAACA
1 TATATA-TATATAGTTTTAAAAACGATTTTTGAAA-A
*
769840 TATATATAATATACAGTTTTTGAAAAC-ATTTTTGAAAATA
1 TATATAT-ATAT--AG-TTTTAAAAACGATTTTTG-AAA-A
*
769880 TATATAATATATAAGTTTTTAAAAC-A-TTTTGAAAATA
1 TATAT-ATATAT-AGTTTTAAAAACGATTTTTG-AAA-A
*
769917 TATATAATATATAGTTTTTGAAAAC-A-TTTT-AAATA
1 TATAT-ATATATAG-TTTTAAAAACGATTTTTGAAA-A
* **
769952 TATATATATGTATA-TATATAAAATATAATTTTTGAAAA
1 TATATATA--TATAGT-TTTAAAA-ACGATTTTTGAAAA
* * *
769990 TGTATATAATATGTAGTTTTGAAAA-TATTTTTGAAAA
1 --TATAT-ATATATAGTTTTAAAAACGATTTTTGAAAA
*
770027 TATATATTATATAGTTTT-AAAACAATTTTTGAAAA
1 TATATA-TATATAGTTTTAAAAACGATTTTTGAAAA
* * *
770062 TATATATATTATATGGTTTTGAAAACAATTTTTAAAAAGCA
1 TATATATA-TATA--GTTTTAAAAACGATTTTT-GAAA--A
*
770103 TATATAATATATAGTTTTAAAAATGATCTTTT
1 TATAT-ATATATAGTTTTAAAAACGAT-TTTT
770135 ATATATTATC
Statistics
Matches: 332, Mismatches: 34, Indels: 74
0.75 0.08 0.17
Matches are distributed among these distances:
33 1 0.00
34 24 0.07
35 79 0.24
36 27 0.08
37 62 0.19
38 44 0.13
39 35 0.11
40 42 0.13
41 15 0.05
42 3 0.01
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (35 bp):
TATATATATATAGTTTTAAAAACGATTTTTGAAAA
Found at i:769764 original size:35 final size:36
Alignment explanation
Indices: 769693--770134 Score: 206
Period size: 38 Copynumber: 11.9 Consensus size: 36
769683 TTCCGGGGTT
*
769693 TATATAATATATAGTGTTTAGAAAACGATTTTTGAAAA
1 TATATAATATATAG-CTTTA-AAAACGATTTTTGAAAA
* *
769731 CATATAATATATA-CTTTAAAATCGATTTTTGAAAA
1 TATATAATATATAGCTTTAAAAACGATTTTTGAAAA
* * * *
769766 TATATATTATATAGTTTTAAAAACGGTTTTCGAAAATA
1 TATATAATATATAGCTTTAAAAACGATTTTTG-AAA-A
** ** *
769804 TATATATATTATATAG-TTT-TGAA-TTTTTTTAAAACATA
1 TATATA-A-TATATAGCTTTAAAAACGATTTTT-GAA-A-A
* * *
769842 TATATAATATACAGTTTTTGAAAAC-ATTTTTGAAAATA
1 TATATAATATATAG-CTTTAAAAACGATTTTTG-AAA-A
* *
769880 TATATAATATATAAGTTTTTAAAAC-A-TTTTGAAAATA
1 TATATAATATAT-AGCTTTAAAAACGATTTTTG-AAA-A
* *
769917 TATATAATATATAGTTTTTGAAAAC-A-TTTT-AAATA
1 TATATAATATATAG-CTTTAAAAACGATTTTTGAAA-A
* ** * **
769952 TATATATATGTATATATATAAAATATAATTTTTGAAAA
1 TATATA-ATATATAGCTTTAAAA-ACGATTTTTGAAAA
* * * *
769990 TGTATATAATATGTAGTTTTGAAAA-TATTTTTGAAAA
1 --TATATAATATATAGCTTTAAAAACGATTTTTGAAAA
* * *
770027 TATATATTATATAG-TTTTAAAACAATTTTTGAAAA
1 TATATAATATATAGCTTTAAAAACGATTTTTGAAAA
* * * * *
770062 TATATATATTATATGGTTTTGAAAACAATTTTTAAAAAGCA
1 TATATA-A-TATATAGCTTTAAAAACGATTTTT-GAAA--A
* *
770103 TATATAATATATAGTTTTAAAAATGATCTTTT
1 TATATAATATATAGCTTTAAAAACGAT-TTTT
770135 ATATATTATC
Statistics
Matches: 326, Mismatches: 49, Indels: 56
0.76 0.11 0.13
Matches are distributed among these distances:
34 7 0.02
35 72 0.22
36 33 0.10
37 65 0.20
38 78 0.24
39 46 0.14
40 18 0.06
41 7 0.02
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (36 bp):
TATATAATATATAGCTTTAAAAACGATTTTTGAAAA
Found at i:769818 original size:75 final size:71
Alignment explanation
Indices: 769693--770124 Score: 328
Period size: 75 Copynumber: 5.8 Consensus size: 71
769683 TTCCGGGGTT
* * *
769693 TATATAATATATAGTGTTTAGAAAACGATTTTTGAAAACATATA-ATATATA-CTTTAAAATCGA
1 TATATATTATATAGT-TTT-GAAAAC-ATTTTTGAAAATATATATATATATATATTTAAAATC-A
769756 TTTTTGAAAA
62 TTTTTGAAAA
* * * ** *
769766 TATATATTATATAGTTTTAAAAACGGTTTTCGAAAATATATATATATTATATAGTTTTGAAT-TT
1 TATATATTATATAGTTTTGAAAAC-ATTTTTGAAAATATATATATA-TATATA-TTTAAAATCAT
*
769830 TTTTAAAACA
63 TTTTGAAA-A
* *
769840 TATATATAATATACAGTTTTTGAAAACATTTTTGAAAATATATATAATATATAAGTTTTTAAAA-
1 TATATAT--TATATAG-TTTTGAAAACATTTTTGAAAATATATAT-ATATAT-A-TATTTAAAAT
769904 CA-TTTTGAAAA
60 CATTTTTGAAAA
* *
769915 TATATATAATATATAGTTTTTGAAAACA-TTTT-AAATATATATATATGTATATATATAAAATAT
1 TATATAT--TATATAG-TTTTGAAAACATTTTTGAAA-ATATATATATATATATAT-TTAAA-AT
*
769978 AATTTTTGAAAA
60 CATTTTTGAAAA
* * *
769990 TGTATATAATATGTAGTTTTGAAAATATTTTTGAAAATATATAT-TATATAGT-TTTAAAA-CAA
1 --TATATATTATATAGTTTTGAAAACATTTTTGAAAATATATATATATATA-TATTTAAAATC-A
770052 TTTTTGAAAATA
62 TTTTTG-AAA-A
* * *
770064 TATATATTATATGGTTTTGAAAACAATTTTTAAAAAGCATATATA-ATATATAGTTTTAAAA
1 TATATATTATATAGTTTTGAAAAC-ATTTTTGAAAA-TATATATATATATATA--TTTAAAA
770125 ATGATCTTTT
Statistics
Matches: 292, Mismatches: 36, Indels: 59
0.75 0.09 0.15
Matches are distributed among these distances:
71 22 0.08
72 39 0.13
73 53 0.18
74 49 0.17
75 62 0.21
76 42 0.14
77 24 0.08
78 1 0.00
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (71 bp):
TATATATTATATAGTTTTGAAAACATTTTTGAAAATATATATATATATATATTTAAAATCATTTT
TGAAAA
Found at i:769917 original size:37 final size:37
Alignment explanation
Indices: 769693--770125 Score: 358
Period size: 37 Copynumber: 11.6 Consensus size: 37
769683 TTCCGGGGTT
*
769693 TATATAATATATAGTGTTTAGAAAACGATTTTTG-AAA-A
1 TATATAATATATAGT-TTT-TAAAAC-ATTTTTGAAAATA
* *
769731 CATATAATATATA--CTTTAAAATCGATTTTTGAAAATA
1 TATATAATATATAGTTTTTAAAA-C-ATTTTTGAAAATA
* * *
769768 TATAT--TATATAGTTTTAAAAACGGTTTTCGAAAATA
1 TATATAATATATAGTTTTTAAAAC-ATTTTTGAAAATA
* ** *
769804 TATATATATTATATAG-TTTT-GAATTTTTTTAAAACATA
1 TATATA-A-TATATAGTTTTTAAAACATTTTTGAAA-ATA
*
769842 TATATAATATACAGTTTTTGAAAACATTTTTGAAAATA
1 TATATAATATATAGTTTTT-AAAACATTTTTGAAAATA
769880 TATATAATATATAAGTTTTTAAAACA-TTTTGAAAATA
1 TATATAATATAT-AGTTTTTAAAACATTTTTGAAAATA
769917 TATATAATATATAGTTTTTGAAAACA-TTTT--AAATA
1 TATATAATATATAGTTTTT-AAAACATTTTTGAAAATA
* * * * *
769952 TATATATATGTATA-TATATAAAATATAATTTTTGAAAATG
1 TATATA-ATATATAGT-TTTTAAA-A-CATTTTTGAAAATA
* * *
769992 TATATAATATGTAGTTTTGAAAATATTTTTGAAAATA
1 TATATAATATATAGTTTTTAAAACATTTTTGAAAATA
770029 TATAT--TATATAG-TTTTAAAACAATTTTTGAAAATA
1 TATATAATATATAGTTTTTAAAAC-ATTTTTGAAAATA
* * * * *
770064 TATATATTATATGGTTTTGAAAACAATTTTTAAAAAGCA
1 TATATAATATATAGTTTTTAAAAC-ATTTTTGAAAA-TA
*
770103 TATATAATATATAGTTTTAAAAA
1 TATATAATATATAGTTTTTAAAA
770126 TGATCTTTTA
Statistics
Matches: 326, Mismatches: 41, Indels: 55
0.77 0.10 0.13
Matches are distributed among these distances:
34 11 0.03
35 56 0.17
36 43 0.13
37 80 0.25
38 67 0.21
39 51 0.16
40 18 0.06
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (37 bp):
TATATAATATATAGTTTTTAAAACATTTTTGAAAATA
Found at i:769938 original size:112 final size:108
Alignment explanation
Indices: 769755--770125 Score: 342
Period size: 112 Copynumber: 3.3 Consensus size: 108
769745 TTTAAAATCG
*
769755 ATTTTTGAAAATATATAT--TATATAGTTTTAAAAACGGTTTTCGAAAATATATATATATTATAT
1 ATTTTTGAAAATATATATAATATATAGTTTTAAAAAC-ATTTT-GAAAATATATATA-A-TATAT
**
769818 AG-TTTTGAATTTTTTTAAAACATATATATAATATACAGTTTTTGAAAAC
62 AGTTTTTGAAAATTTTT-AAA-ATATATATAATATA-AGTTTTTGAAAAC
*
769867 ATTTTTGAAAATATATATAATATATAAGTTTTTAAAACATTTTGAAAATATATATAATATATAGT
1 ATTTTTGAAAATATATATAATATAT-AGTTTTAAAAACATTTTGAAAATATATATAATATATAGT
* * * * * *
769932 TTTTGAAAACATTTT-AAATATATATATATGTATA-TATATAAAATATA
65 TTTTGAAAA-TTTTTAAAATATATATA-ATATA-AGTTTTTGAAA-A-C
* * * *
769979 ATTTTTGAAAATGTATATAATATGTAGTTTTGAAAATATTTTTGAAAATATATAT--TATATAGT
1 ATTTTTGAAAATATATATAATATATAGTTTTAAAAACA-TTTTGAAAATATATATAATATATAGT
** * * *
770042 TTTAAAACAATTTTTGAAAATATATATATTATATGGTTTTGAAAAC
65 TTTTGAA-AATTTTT-AAAATATATATAATATAAGTTTTTGAAAAC
* *
770088 AATTTTTAAAAAGCATATATAATATATAGTTTTAAAAA
1 -ATTTTTGAAAA-TATATATAATATATAGTTTTAAAAA
770126 TGATCTTTTA
Statistics
Matches: 213, Mismatches: 31, Indels: 31
0.77 0.11 0.11
Matches are distributed among these distances:
110 43 0.20
111 57 0.27
112 76 0.36
113 17 0.08
114 9 0.04
115 11 0.05
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (108 bp):
ATTTTTGAAAATATATATAATATATAGTTTTAAAAACATTTTGAAAATATATATAATATATAGTT
TTTGAAAATTTTTAAAATATATATAATATAAGTTTTTGAAAAC
Found at i:769995 original size:24 final size:25
Alignment explanation
Indices: 769968--770015 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
769958 TATGTATATA
*
769968 TATAAAATAT-AATTTTTGAAAATG
1 TATAAAATATGAAGTTTTGAAAATG
* *
769992 TATATAATATGTAGTTTTGAAAAT
1 TATAAAATATGAAGTTTTGAAAAT
770016 ATTTTTGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (25 bp):
TATAAAATATGAAGTTTTGAAAATG
Found at i:770106 original size:149 final size:144
Alignment explanation
Indices: 769693--770117 Score: 432
Period size: 149 Copynumber: 2.9 Consensus size: 144
769683 TTCCGGGGTT
* * *
769693 TATATAATATATAGTGTTTAGAAAACGATTTTTGAAAACATATAATATATA-CTTTAAAATCGAT
1 TATATAATATATAGT-TTT-GAAAAC-ATTTTTGAAAATATATATTATATAGTTTTAAAA-C-AT
* * * *
769757 TTTTG-AAA-ATATATATTATATAGTTTTAAAAACGGTTTTCGAAAATATATATATATTATATAG
61 TTTTGAAAATATATATATTATATGGTTTTGAAAAC-ATTTT-TAAAA-ATATATATATTATATAG
* **
769820 TTTTGAATTTTTTTAAAACATA
123 TATAAAATTTTTTTAAAACATA
*
769842 TATATAATATACAGTTTTTGAAAACATTTTTGAAAATATATATAATATATAAGTTTTTAAAACA-
1 TATATAATATATAG-TTTTGAAAACATTTTTGAAAATATATAT--TATAT-AG-TTTTAAAACAT
* * *
769906 TTTTGAAAATATATATAATATATAGTTTTTGAAAACA-TTTTAAATATATATATATGTATATA-T
61 TTTTGAAAATATATATATTATAT-GGTTTTGAAAACATTTTTAAAAATATATATAT-TATATAGT
* *
769969 ATAAAATATAATTTTTGAAA-ATG
124 ATAAAAT-T--TTTTTAAAACATA
* *
769992 TATATAATATGTAGTTTTGAAAATATTTTTGAAAATATATATTATATAGTTTTAAAACAATTTTT
1 TATATAATATATAGTTTTGAAAACATTTTTGAAAATATATATTATATAGTTTTAAAAC-ATTTTT
* *
770057 GAAAATATATATATTATATGGTTTTGAAAACAATTTTTAAAAAGCATATATAATATATAGT
65 GAAAATATATATATTATATGGTTTTGAAAAC-ATTTTTAAAAA-TATATATATTATATAGT
770118 TTTAAAAATG
Statistics
Matches: 233, Mismatches: 24, Indels: 38
0.79 0.08 0.13
Matches are distributed among these distances:
145 9 0.04
146 14 0.06
147 44 0.19
148 35 0.15
149 71 0.30
150 23 0.10
151 21 0.09
152 16 0.07
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (144 bp):
TATATAATATATAGTTTTGAAAACATTTTTGAAAATATATATTATATAGTTTTAAAACATTTTTG
AAAATATATATATTATATGGTTTTGAAAACATTTTTAAAAATATATATATTATATAGTATAAAAT
TTTTTTAAAACATA
Found at i:770172 original size:18 final size:18
Alignment explanation
Indices: 770132--770188 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
770122 AAAATGATCT
* *
770132 TTTATATATTATCTTAATA
1 TTTATTTATTAT-TTATTA
770151 -TTATTTATTATTTATTA
1 TTTATTTATTATTTATTA
770168 TTTA-TTATTCATTTATTA
1 TTTATTTATT-ATTTATTA
770186 TTT
1 TTT
770189 TTGTTTTAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
17 10 0.29
18 24 0.71
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATTTATTATTTATTA
Found at i:770187 original size:14 final size:14
Alignment explanation
Indices: 770150--770180 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
770140 TTATCTTAAT
*
770150 ATTATTTATTATTT
1 ATTATTTATTATTC
770164 ATTATTTATTATTC
1 ATTATTTATTATTC
770178 ATT
1 ATT
770181 TATTATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTATTTATTATTC
Done.